Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 5,865,465 C→T 8.8% M341I (ATG→ATA)  ptsP ← Phosphoenolpyruvate‑dependent phosphotransferasesystem

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24405,865,4650CT 8.8% 140.0 / 2.3 45M341I (ATG→ATA) ptsPPhosphoenolpyruvate‑dependent phosphotransferasesystem
Reads supporting (aligned to +/- strand):  ref base C (22/19);  new base T (2/2);  total (24/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGTATGGCAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCGGAGGCACGCTCACGCAG  >  KT2440/5865335‑5865596
                                                                                                                                  |                                                                                                                                   
aGTATGGCAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATgg                                                                                                                                 >  1:260668/1‑135 (MQ=255)
aGTATGGCAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGc                                                                                                                                >  7:195943/1‑136 (MQ=255)
     ggCAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCTACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCgg                                                                                                                             <  5:64219/134‑1 (MQ=255)
      gCAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGgtg                                                                                                                           >  1:241831/1‑135 (MQ=255)
       cAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGgtg                                                                                                                           >  5:143291/1‑134 (MQ=255)
       cAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGgtg                                                                                                                           >  2:101888/1‑134 (MQ=255)
        aGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGgtg                                                                                                                           >  2:233788/1‑133 (MQ=255)
             gACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTcc                                                                                                                   <  8:195943/136‑1 (MQ=255)
              aCCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGAGATGGGAGTTGCCCGAGCCGAGTACCGAGACCACGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTcc                                                                                                                   <  3:208428/135‑1 (MQ=255)
              aCCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTcc                                                                                                                   <  3:169382/135‑1 (MQ=255)
              aCCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTcc                                                                                                                   <  1:101888/135‑1 (MQ=255)
              aCCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTcc                                                                                                                   <  2:260668/135‑1 (MQ=255)
               ccAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGCCATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGCGCATGGCCGGTGTCAGTTCCTc                                                                                                                 >  7:8043/1‑136 (MQ=255)
                 aGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGCCCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCa                                                                                                                >  1:45133/1‑135 (MQ=255)
                        tCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCa                                                                                                         <  4:69350/135‑1 (MQ=255)
                           ccGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGAt                                                                                                     <  8:183117/136‑1 (MQ=255)
                                 ggATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCGGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTGCGTTGCTCCCTGACCCGGATGgtgt                                                                                                >  5:161869/1‑135 (MQ=255)
                                 ggATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGCGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGtgtt                                                                                               >  7:143615/1‑136 (MQ=255)
                                 ggATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGgtgt                                                                                                <  6:82400/135‑1 (MQ=255)
                                 ggATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGgtgt                                                                                                >  2:7642/1‑135 (MQ=255)
                                 ggATGCCCATGGCCCGCGCGAGGATAGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGgtgt                                                                                                <  4:268701/135‑1 (MQ=255)
                                     gCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTc                                                                                            <  2:238474/135‑1 (MQ=255)
                                       ccATGGCCGGCGCGAGGATGGCGACTGGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGGCAGTTCCTCACTGACCAGGATGGTGTTGTCg                                                                                           <  6:143291/134‑1 (MQ=255)
                                              ccGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTc                                                                                                                 >  1:80243/1‑105 (MQ=255)
                                              ccGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTc                                                                                                                 <  2:80243/105‑1 (MQ=255)
                                                  gcgAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGCTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAg                                                                                >  4:271015/1‑134 (MQ=255)
                                                    gAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGTATGGCCGGTGTCAGTTCCTCACTGCCCAGGATGGTGTTGTCGGCATACACCAGCGa                                                                             >  4:266286/1‑135 (MQ=255)
                                                    gAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGTATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCg                                                                              >  4:266283/1‑134 (MQ=255)
                                                    gAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGAGGGTGTTGTCGGCATACACCAGCGAc                                                                            >  7:59973/1‑136 (MQ=255)
                                                         tGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCg                                                                        <  3:79431/135‑1 (MQ=255)
                                                           gCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAgc                                                                     <  7:21654/136‑1 (MQ=255)
                                                                     aGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTg                                                           >  8:93393/1‑136 (MQ=255)
                                                                       ttGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCa                                                         <  7:264032/136‑1 (MQ=255)
                                                                        tGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCa                                                         <  3:250082/135‑1 (MQ=255)
                                                                                      aCCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAggc                                          >  8:31994/1‑136 (MQ=255)
                                                                                             ccAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGccc                                   >  8:146885/1‑136 (MQ=255)
                                                                                             ccAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGcc                                    >  3:90017/1‑135 (MQ=255)
                                                                                                        aGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTg                         >  6:50015/1‑135 (MQ=255)
                                                                                                        aGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGa                        >  7:124979/1‑136 (MQ=255)
                                                                                                             gCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCg                   >  8:73115/1‑136 (MQ=255)
                                                                                                                    ggCACTTCACCGAGCATGGCCGGTGTCAGTGCCTCACTGACCAGGATGGGGTTGGGGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCTGGTCGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCGGAGGc              <  2:239306/134‑1 (MQ=255)
                                                                                                                        cTTCACCGAGCCTGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCGGAGGCACGCTc        <  8:8043/136‑1 (MQ=255)
                                                                                                                             ccGAGTATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCGGAGGCACGCTCACGc    <  3:266286/135‑1 (MQ=255)
                                                                                                                             ccGAGTATGGCCGGTGTCAGTGCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCGGAGGCACGCTCACGc    <  3:266283/135‑1 (MQ=255)
                                                                                                                              cGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCGGAGGCACGCTCACGCAg  >  7:157783/1‑136 (MQ=255)
                                                                                                                                  |                                                                                                                                   
AGTATGGCAGGTCGACCAGGCCCATCACCGTGGGGATGCCCATGGCCCGCGCGAGGATGGCGACATGGGAGTTGCCCGAGCCGAGTACCGAGACCAGGCCGACCAGCTTGCCTTCCGGCACTTCACCGAGCATGGCCGGTGTCAGTTCCTCACTGACCAGGATGGTGTTGTCGGCATACACCAGCGACTGCGAGCGCGCTTCCTGCAGGTAGGCCAAAAGGCGGCGCCCCAGGTCCTTGACGTCGGAGGCACGCTCACGCAG  >  KT2440/5865335‑5865596

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑