Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 5,757,234 Δ1 bp 100% coding (776/834 nt) CJ019_05400 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24405,757,2340A.95.6% 194.1 / ‑0.1 45coding (776/834 nt)CJ019_05400hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base . (37/6);  total (37/8)
Fisher's exact test for biased strand distribution p-value = 1.59e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

CTGCAAGCGCGCGAACAGGACCAGGCCGACCTGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGGAAAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGTTTCCAGCGATG  >  KT2440/5757104‑5757360
                                                                                                                                  |                                                                                                                              
cTGCAAGCGCGCGAACAGGACCAGGCCGACCTGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGGaaaaa                                                                                                                            >  1:116227/1‑135 (MQ=255)
                          cGACCTGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGgccgcc                                                                                                >  8:242010/1‑136 (MQ=255)
                          cGACCTGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGgccgc                                                                                                 >  4:79800/1‑135 (MQ=255)
                               tGGCCAAGGTCTTGAAGACCATCGAGGACACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCAGCTGGCGCCGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGccgccgccg                                                                                            >  1:171637/1‑135 (MQ=255)
                               tGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGGAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCcgccgccgc                                                                                           >  7:273173/1‑136 (MQ=255)
                               tGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGccgccgccg                                                                                            >  6:402817/1‑135 (MQ=255)
                               tGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGccgccgccg                                                                                            >  3:396721/1‑135 (MQ=255)
                               tGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGccgccgccg                                                                                            >  3:207965/1‑135 (MQ=255)
                               tGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCcgccgccgc                                                                                           >  7:211812/1‑136 (MQ=255)
                               tGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAACGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGccgccgccg                                                                                            >  1:58301/1‑135 (MQ=255)
                                     aGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCcg                                                                                     >  8:59464/1‑136 (MQ=255)
                                              aGACCATCGAGGAAGCCCTCGCCCGCCAGGCCCGGGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGATGCGG‑AGAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCggg                                                                             >  5:85261/1‑135 (MQ=255)
                                              aGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCTGCTGCCCGCGACCggg                                                                             >  5:311134/1‑135 (MQ=255)
                                              aGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCggg                                                                             >  3:11874/1‑135 (MQ=255)
                                                     cGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCACTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGt                                                                        >  8:4749/1‑133 (MQ=255)
                                                       aGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGcc                                                                   >  8:304760/1‑136 (MQ=255)
                                                       aGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGc                                                                    >  3:183195/1‑135 (MQ=255)
                                                        ggAAACCCGCGCCCGCCAGGCCCGTCACGCGTAAGAGGCACGCACGAAGGCCCTGCTGGCGCAGCAGGAAGC‑GTAAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGcc                                                                   <  3:197046/135‑1 (MQ=255)
                                                               cTCGCCCGCCAGGCCCGTGCAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGGGAGCCTGCagag                                                            >  3:24591/1‑135 (MQ=255)
                                                               cTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCagag                                                            >  2:330555/1‑135 (MQ=255)
                                                                    ccgccAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTg                                                      >  7:223111/1‑136 (MQ=255)
                                                                          ggCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGCGCCAGTGGAAcc                                                 >  1:234369/1‑135 (MQ=255)
                                                                                 gAAGCTGAAGAGGCCCGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGACCCGCCGaa                                           >  3:184414/1‑134 (MQ=255)
                                                                                        aaGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGccc                                   >  1:37404/1‑135 (MQ=255)
                                                                                         agagGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCAGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCg                                  <  8:208022/135‑1 (MQ=255)
                                                                                          gagGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGt                                 >  1:196116/1‑135 (MQ=255)
                                                                                                cGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTaccacc                           >  8:276883/1‑135 (MQ=255)
                                                                                                cGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGAGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCAccc                          >  7:155934/1‑136 (MQ=255)
                                                                                                  cAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGCGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCt                         >  1:335043/1‑135 (MQ=255)
                                                                                                  cAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCt                         >  4:335587/1‑135 (MQ=255)
                                                                                                   aagaagGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTc                        >  2:14277/1‑135 (MQ=255)
                                                                                                     gaagGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGaaaa                                         >  2:247249/1‑116 (MQ=255)
                                                                                                     gaagGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGaaaa                                         <  1:247249/116‑1 (MQ=255)
                                                                                                      aagGCCCTGCTGGCGCAGCAGGAAGCGG‑AAAACCGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCggg                     <  6:141481/135‑1 (MQ=255)
                                                                                                               ctgGCGCAGCAGGAAGCTG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCGGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGt             <  8:88758/134‑1 (MQ=255)
                                                                                                                tgGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGCGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTCCCCCCCTCGGGCCGCTGGttg           >  5:442207/1‑134 (MQ=255)
                                                                                                                tgGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGc                    >  5:118380/1‑126 (MQ=255)
                                                                                                                tgGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGc                    <  6:118380/126‑1 (MQ=255)
                                                                                                                tgGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGttt           >  4:78863/1‑135 (MQ=255)
                                                                                                                tgGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGttt           >  2:427352/1‑135 (MQ=255)
                                                                                                                tgGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGttt           >  3:141662/1‑135 (MQ=255)
                                                                                                                tgGCGCAGCAGGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGttt           >  4:41359/1‑135 (MQ=255)
                                                                                                                  gcgcAGCAGGAAGCGG‑AAAAACGCAGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGTCCCGGGAGCCTGCAGAGCCAGTGGCACCGCCGAAAAAGGCCCGGACCAACCTACGGCCGAAGGttt           >  1:186999/1‑133 (MQ=255)
                                                                                                                      agcagGAAGCGG‑AAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGGGAGCCTGCAGAGCCAGTGGCTCCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGCGGGGTTccgg       >  1:160475/1‑131 (MQ=255)
                                                                                                                         agGAAGCGG‑AAAACCGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGTTTCCAGCGATg  <  4:396721/135‑1 (MQ=255)
                                                                                                                          cgcccgggAAAAACCGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGTTTCCAGCGATg  <  5:402817/129‑1 (MQ=255)
                                                                                                                                  |                                                                                                                              
CTGCAAGCGCGCGAACAGGACCAGGCCGACCTGGCCAAGGTCTTGAAGACCATCGAGGAAACCCTCGCCCGCCAGGCCCGTGAAGCTGAAGAGGCACGCAAGAAGGCCCTGCTGGCGCAGCAGGAAGCGGAAAAAACGCCGCCAGCAGGAAGCGCTGGCCGCCGCCGCTGCCCGCGACCGGGCCCGTGAGCCTGCAGAGCCAGTGGAACCGCCGAAAAAGGCCCGTACCACCCTCGGGCCGATGGTTTCCAGCGATG  >  KT2440/5757104‑5757360

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: ‑