Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	KT2440	1,269,009	C→T	8.1%	intergenic (‑146/‑61)	CJ019_01190 ← / → CJ019_01191	hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	1,269,009	0	C	T	8.1%	148.4 / 2.7	49	intergenic (‑146/‑61)	CJ019_01190/CJ019_01191	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (13/32);  new base T (2/2);  total (15/34)
Fisher's exact test for biased strand distribution p-value = 5.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.04e-01

ACAGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCGGGCGTT  >  KT2440/1268876‑1269143                                                                                                                                      |                                                                                                                                       aCAGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCTATTTCTACGCGCAAACTCCAGCCCCGCGCAGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGTAAATTAATGGTATGgcgagc                                                                                                                                        <  4:292089/134‑1 (MQ=255) aCAGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGgcgagcga                                                                                                                                      >  4:221355/1‑136 (MQ=255) aCAGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCAAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGATACTAATTGATTACTTGATTGGAAAGTAATGGTATGgctagcg                                                                                                                                       >  8:146753/1‑135 (MQ=255)  cAGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGgcgagcga                                                                                                                                      >  2:142774/1‑135 (MQ=255)  cAGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGAc                                                                                                                                     <  4:274124/136‑1 (MQ=255)  aaGAAAACGGCATTTTGCCATTAGGGAAAGGGAGTAGCAATTTCTACGAGCAAACTCCATCCCCTCTCCGCGAGAGGTTATCATTTCGGGCTTCTCCTTGATAACTGGCTTGGAAAATAAAGATATAgcgagaga                                                                                                                                      >  6:62300/2‑135 (MQ=255)   aGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATCGTATGGCGAGCGAc                                                                                                                                     >  8:25544/1‑135 (MQ=255)        aCGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTgg                                                                                                                               >  4:270344/1‑136 (MQ=255)        aCGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTg                                                                                                                                <  6:279151/135‑1 (MQ=255)            cATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTaaa                                                                                                                           <  3:221355/136‑1 (MQ=255)            cATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTaaa                                                                                                                           <  3:345412/136‑1 (MQ=255)             aTTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTaaa                                                                                                                           <  8:248774/135‑1 (MQ=255)               tttGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGt                                                                                                                         >  8:231404/1‑135 (MQ=255)                ttGCCATTAGGGAAAGGGCGTTGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTg                                                                                                                        <  3:192836/135‑1 (MQ=255)                 tGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTg                                                                                                                        <  6:72928/134‑1 (MQ=255)                 tGCCATTAGGGAAAGGGCGTGGCAATTTATACGCGCAAACTCCCGCCCCGCGCCGCGATAGGTTAGCATTTCGGGCTTGTCCTTTATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTg                                                                                                                        <  8:332290/134‑1 (MQ=255)                   ccATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTggg                                                                                                                      <  8:245499/134‑1 (MQ=255)                     aTTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTCCTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGtg                                                                                                                   <  1:142774/135‑1 (MQ=255)                       tAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGtgct                                                                                                                 <  1:190290/135‑1 (MQ=255)                         gggAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTgctgct                                                                                                              <  3:306913/136‑1 (MQ=255)                          ggAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTgctgct                                                                                                              <  6:140686/135‑1 (MQ=255)                          ggAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTgctgct                                                                                                              <  1:53942/135‑1 (MQ=255)                             aaGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTACTGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCaa                                                                                                           <  8:57814/135‑1 (MQ=255)                                ggCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGc                                                                                                       <  3:272872/136‑1 (MQ=255)                                ggCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGc                                                                                                       <  4:144125/136‑1 (MQ=255)                                 gCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGc                                                                                                       <  1:263677/135‑1 (MQ=255)                                     ggCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGTGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCa                                                                                                    >  6:84296/1‑134 (MQ=255)                                     ggCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTCAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCAc                                                                                                   <  6:128469/135‑1 (MQ=255)                                       cAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGAGTGCTGCTCAACCGCTCACTa                                                                                                 >  6:315229/1‑135 (MQ=255)                                                cgcgCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTg                                                                                         <  4:5447/134‑1 (MQ=255)                                                 gcgcAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGTGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGaa                                                                                       <  5:84296/135‑1 (MQ=255)                                                             gCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGa                                                                           <  8:227470/135‑1 (MQ=255)                                                                      cgcgAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCccacca                                                                  >  5:69450/1‑135 (MQ=255)                                                                      cgcgAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGGAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCAt                                                                 >  3:171612/1‑136 (MQ=255)                                                                      cgcgAGACGTTAGCATATCGGGCTTCTCCTTGATTACTTGCTTGGAAATTAATGGTATGGAGAGCGACCTTTGGTAAATTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAACGGATGTCAGATGACCACCAt                                                                 >  4:140383/1‑136 (MQ=255)                                                                       gcgAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCAt                                                                 <  1:159000/135‑1 (MQ=255)                                                                         gagaGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCtt                                                              <  3:270344/136‑1 (MQ=255)                                                                                           gCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACt                                                                                                  >  1:105013/1‑82 (MQ=255)                                                                                           gCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACt                                                                                                  <  2:105013/82‑1 (MQ=255)                                                                                           gCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCaa                                            >  3:75363/1‑136 (MQ=255)                                                                                           gCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGCTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCAACCATCTTCAACGAAATCATTCGCaa                                            >  3:231921/1‑136 (MQ=255)                                                                                                  cTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGc                                      >  1:268040/1‑135 (MQ=255)                                                                                                             gCTTGGAAATTAATGGTATGGCGAGTGACCTTTGGTAAAGTg                                                                                                                        >  2:20594/1‑42 (MQ=255)                                                                                                             gCTTGGAAATTAATGGTATGGCGAGTGACCTTTGGTAAAGTg                                                                                                                        <  1:20594/42‑1 (MQ=255)                                                                                                                  gAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCTCTCACTACCCAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAgctggctg                        <  5:316941/133‑1 (MQ=255)                                                                                                                  gAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAgctggctg                        <  5:148143/133‑1 (MQ=255)                                                                                                                  gAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAg                      <  4:206093/135‑1 (MQ=255)                                                                                                                  gAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAg                      <  3:81591/135‑1 (MQ=255)                                                                                                                   aaaTTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACt                                                                                                  <  1:294080/58‑1 (MQ=255)                                                                                                                   aaaTTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACt                                                                                                  >  2:294080/1‑58 (MQ=255)                                                                                                                   aaaTTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAg                      <  7:73938/134‑1 (MQ=255)                                                                                                                   aaaTTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGAGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAg                      <  5:315229/134‑1 (MQ=255)                                                                                                                           ggTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACAtt             >  4:335440/1‑135 (MQ=255)                                                                                                                           ggTAGGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACAtt             <  8:350102/135‑1 (MQ=255)                                                                                                                                  cgagcgaCCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCggg      >  1:337021/1‑135 (MQ=255)                                                                                                                                  cgagcgaCCTTTGGTAAAGTGGGGGGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCgg       <  1:191635/134‑1 (MQ=255)                                                                                                                                     gcgaCCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATTCCAACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCGGGCGtt  <  3:140383/136‑1 (MQ=255)                                                                                                                                     gcgaCCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCGGGCGtt  <  4:295007/136‑1 (MQ=255)                                                                                                                                     gcgaCCTTTCGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCGGGCGt   <  5:347756/135‑1 (MQ=255)                                                                                                                                      cgaCCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGATGCTCACATTAAGCGGGCGtt  <  2:354654/135‑1 (MQ=255)                                                                                                                                      cgaCCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCGGGCGtt  <  6:321427/135‑1 (MQ=255)                                                                                                                                      |                                                                                                                                       ACAGAAAACGGCATTTTGCCATTAGGGAAAGGGCGTGGCAATTTCTACGCGCAAACTCCAGCCCCGCGCCGCGAGAGGTTAGCATTTCGGGCTTCTCCTTGATTACTGGCTTGGAAATTAATGGTATGGCGAGCGACCTTTGGTAAAGTGGGGTGCTGCTCAACCGCTCACTACCTAGCTGAAAGGGATGTCAGATGCCCACCATCTTCAACGAAATCATTCGCAATAGAGCCCGGAAGCTGGCTGAGGCTCACATTAAGCGGGCGTT  >  KT2440/1268876‑1269143

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑