Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 5,284,713 T→G 25.5% F162C (TTT→TGT)  cmpR_6 → HTH‑type transcriptional activator CmpR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24405,284,7130TG25.5% 62.4 / 7.1 47F162C (TTT→TGT) cmpR_6HTH‑type transcriptional activator CmpR
Reads supporting (aligned to +/- strand):  ref base T (8/26);  new base G (11/2);  total (19/28)
Fisher's exact test for biased strand distribution p-value = 2.13e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCTGGAGTCAGCGTGGATGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCGGCAGTGCACTGGG  >  KT2440/5284586‑5284836
                                                                                                                               |                                                                                                                           
ccTGGAGTCAGCGTGGATGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGAt                                                                                                                      >  8:11448/1‑135 (MQ=255)
     aGTCAGCGTGGATGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGAcc                                                                                                                  <  3:153404/134‑1 (MQ=255)
         cgCGTGGCTGTCCAAGAGCTGCCGAGTTTGCGCAGCGTGCAGGCAATGACCAAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCgctg                                                                                                             <  6:163730/134‑1 (MQ=255)
          gCGTGGATGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCgctg                                                                                                             <  3:88065/134‑1 (MQ=255)
              ggATGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCgctggtgct                                                                                                        <  3:17523/135‑1 (MQ=255)
              ggATGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTCGAGATGACCCgctggtgct                                                                                                        >  7:183352/1‑135 (MQ=255)
                aTGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCgctggtgctgg                                                                                                      <  7:181536/135‑1 (MQ=255)
                aTGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCgctggtgctgg                                                                                                      <  3:33505/135‑1 (MQ=255)
                aTGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCgctggtgctgg                                                                                                      <  4:68616/135‑1 (MQ=255)
                      aaGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGc                                                                                                <  6:274732/135‑1 (MQ=255)
                      aaGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTCGAGATGACCCGCTGGTGCTGGTGACGc                                                                                                >  7:152571/1‑135 (MQ=255)
                        gagCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGCCCCGGCCGTGTGGAGATGACCCGCTGGGGCTGGTGACGCca                                                                                              >  3:262018/1‑135 (MQ=255)
                        gagCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGCGATGACCCGCGGGTGCTGGTGACGccc                                                                                              >  5:90850/1‑134 (MQ=255)
                            tGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAgg                                                                                          <  5:19477/135‑1 (MQ=255)
                            tGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAgg                                                                                          <  4:71762/135‑1 (MQ=255)
                            tGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAgg                                                                                          <  4:185548/135‑1 (MQ=255)
                            tGCCGAGCTTGCGCAGCGTGCAGGCAAGTACCCAAGCCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGAGGACCCGCTGGTGCTGGTGACGCCACAgg                                                                                          <  1:129279/135‑1 (MQ=255)
                            tGCAGAGGTTGCGCATCGTGCAGGCAATTACCCAATGAATGGCCGACCTGGGCATCGGGTCCACAGCCGCCCCACGAGAGCACCTGCAGACCCGGCCGTTTCGATCTGACCCGCTGGTTCTGGTGACGCCACAgg                                                                                          <  8:297634/135‑1 (MQ=255)
                             gCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGc                                                                                         >  8:175041/1‑135 (MQ=255)
                                         cATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTGGAGTTTACCCTCTGGTGATGGTTGAGCCACAAGCCCAcccccgag                                                                              >  1:68693/1‑131 (MQ=255)
                                              tGCAGGCAATTACCCAAGGCCTGGCCGACCGGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTCGAGATGACCCGCTGGTGCTGGGGACGCCACAGGCCCACCCCCTGGCCAGTg                                                                        <  7:255249/135‑1 (MQ=255)
                                              tGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCTGCTTGTCACCAGCCGCCCCCAGCGCGCCCCTGCCGCCCCGGCCGTTTGGGGTTGCCCCCCGGGTGGGGGGGCCGCCCCCGGCCCCCCCCCAGGCCAggg                                                                        >  3:211392/1‑133 (MQ=255)
                                               gCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTGGGGATGACCCCCGGGTGCTGGGGGCGCCCCACGCCCCCCCCCACGCCAGGgc                                                                       >  1:118818/1‑135 (MQ=255)
                                                cAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTCGAGATGACCCGCTGGTGCTGGTGCCGCCACAGGCCCCCCCCCGGGCCAGTgcg                                                                      >  7:8078/1‑135 (MQ=255)
                                                           ccAAGGCAAGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCCCCTGCAGACCCGGCCGTTTGGAGCTGACCCGCACGTTCTGGGGACGCCACACCCCCCCCCCCTCCCCACGGCCCTGGcccccc                                                            >  6:179531/1‑132 (MQ=255)
                                                                 cATGGCCGACCTGGGCATCGAGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGGGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTtcgt                                                     <  1:68569/135‑1 (MQ=255)
                                                                  aTGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCGGGTGCTGGTGACGCCACACGCCCCCCCCCAGGCCCCTGCGCTGGCGCCAACCAtcgtc                                                    >  4:211170/1‑135 (MQ=255)
                                                                       cGACCTGGGCATCGTGTCCACGGCCGCCCCCAGCGAGCCCCTGCAGACCCGGCCGTGTCGAGATGACCCGCTGGTGCTGGTGCCGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCGTCGTCGACAg                                               >  7:196400/1‑135 (MQ=255)
                                                                       cGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTCGAGATGACCCCCTGGTGCTGGTGTCGCCCCACGCCCCCCCCCAGGCCACTGCGCAGGCGCCAAGCGTCGTCGACac                                               >  5:142414/1‑134 (MQ=255)
                                                                           cTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTg                                           <  3:211170/135‑1 (MQ=255)
                                                                           cTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTg                                           <  5:5280/135‑1 (MQ=255)
                                                                                      gtCCACAGCCGCCCCCAGCGAGCCCCTGCAGACCCGGCCGTGTCGCGCTGTCCCGCGGGTGCTGGTGACGCCCCAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCCAGCGTGGGCGACCGCCGGGCCCCTGGCTa                                >  7:201282/1‑135 (MQ=255)
                                                                                      gtCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTGGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCCCCCCCTGGCCAGTGCGCTGgc                                                                 >  8:163659/1‑102 (MQ=255)
                                                                                      gtCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGgc                                                                 <  7:163659/102‑1 (MQ=255)
                                                                                        ccACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTGTGGGGTTGACCCGCGGGTGCTGGTGACGCCACACGCCCCCCCCCCGGCCACTGCGCTGGCGCCCAGCTTCGTCGACAGCCTGGCCCAGGGcgttg                              >  2:206879/1‑131 (MQ=255)
                                                                                           caGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACg                                                                                                 >  8:189571/1‑65 (MQ=255)
                                                                                           caGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACg                                                                                                 <  7:189571/65‑1 (MQ=255)
                                                                                           caGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCg                           <  2:162806/135‑1 (MQ=255)
                                                                                               cgccCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCt                       >  8:248231/1‑135 (MQ=255)
                                                                                                     cAGCGAGCACCTGCAGACCCGGCCGTGTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGc                 <  8:152571/135‑1 (MQ=255)
                                                                                                       gCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCg               <  2:68693/135‑1 (MQ=255)
                                                                                                       gCGAGCACCTGCAGACCCGGCCGGTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCg               <  2:109776/135‑1 (MQ=255)
                                                                                                            cACCTGCAGACCCGGCCGGTTCGAGATCACCCGCGGGTGCTGGTGACGCCACCGGCCCACCCCCTGGCCAGTCCGCTGGCGCCAAGCTTCGACGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCGGCAGt          <  5:179531/135‑1 (MQ=255)
                                                                                                               cTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCGGCAGTGCa       <  7:175041/135‑1 (MQ=255)
                                                                                                                    gACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCGGCAGTGCACTggg  <  7:62036/135‑1 (MQ=255)
                                                                                                                    gACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCGGCAGTGCACTggg  <  4:211392/135‑1 (MQ=255)
                                                                                                                    gACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCGGCAGTGCACTggg  <  5:133235/135‑1 (MQ=255)
                                                                                                                               |                                                                                                                           
CCTGGAGTCAGCGTGGATGTGCAAGAGCTGCCGAGTTTGCGCATCGTGCAGGCAATTACCCAAGGCATGGCCGACCTGGGCATCGTGTCCACAGCCGCCCCCAGCGAGCACCTGCAGACCCGGCCGTTTCGAGATGACCCGCTGGTGCTGGTGACGCCACAGGCCCACCCCCTGGCCAGTGCGCTGGCGCCAAGCTTCGTCGACAGCCTGGCCCATGGCTATGTCGGCCTGGGGGCCGGCAGTGCACTGGG  >  KT2440/5284586‑5284836

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: ‑