Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,640,492 T→C T32A (ACT→GCT)  essQ ← Qin prophage; putative S lysis protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,640,4920TC96.0% 70.7 / ‑6.3 25T32A (ACT→GCT) essQQin prophage; putative S lysis protein
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (14/10);  total (14/11)
Fisher's exact test for biased strand distribution p-value = 4.40e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTCCTCTCGCAGCCTTACGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGTTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGATTTCATATCCTCACCCCGATGTACACGGATGGTGCAA  >  NC_000913/1640375‑1640616
                                                                                                                     |                                                                                                                            
ctcctctcGCAGCCTTACGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAAt                                                                                                        <  2:370713/140‑1 (MQ=255)
   ctctcGCAGCCTTACGCCTGTCTTCTTTAATCTTGAAATAAAGATTTTTCAGATACGTCACCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGcc                                                                                                     >  1:270982/1‑140 (MQ=255)
   ctctcGCAGCCTTACGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGcc                                                                                                     >  1:116700/1‑140 (MQ=255)
              ttACGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCa                                                                                                   <  2:113398/131‑1 (MQ=255)
              ttACGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCa                                                                                                   >  1:113398/1‑131 (MQ=255)
                aCGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCAt                                                                                        >  1:674167/1‑140 (MQ=255)
                aCGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCAt                                                                                        >  2:33594/1‑140 (MQ=255)
                  gCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTa                                                                                      >  1:334509/1‑140 (MQ=255)
                      ttcttctTTAATCTTAAAAAAAAGATTTGTCAGATACGTCAGCAGGCAAAAAACCAGGCTCCCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACccg                                                                                  <  2:542619/139‑1 (MQ=255)
                      gTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACccg                                                                                  >  1:555486/1‑140 (MQ=255)
                       tcttctTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGaa                                                                                                <  1:963952/125‑1 (MQ=255)
                       tcttctTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGaa                                                                                                >  2:963952/1‑125 (MQ=255)
                        cttcttTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACccgcc                                                                                >  2:117484/1‑140 (MQ=255)
                           tttaaaTTTTAAAATAAGTTTTTGTCAGAACCGACAGCGGGCAAAAAACGAGGCTACCCAGCACACTGATTGCAGCCCTGTGTGCCGTAGCTATTTTATGGAGTAACTGAAGTGCCCAGAACCCAGCATTACCCGCCGAt                                                                             <  2:408054/136‑1 (MQ=255)
                           cttTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGAt                                                                             >  2:544664/1‑140 (MQ=255)
                                 tCTTAAAAAAAAGATTTGTCAGATCCGTCAGCAGGCAAAAACCCAGGCTCCCCAGCACACCGATTGCACCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAAAAACCAGCATTACCCGCCGATGTGCCa                                                                       <  1:183645/140‑1 (MQ=255)
                                        aTAAAGATTTGTCAGATACGTCAGCAGGCAAAAACCCAGGCTACCAACCACCCCGATTGCAGCCCACTGTGACGGAGCTTTTTTATCGATTACCTGAAAGGCCAAGAAACCAGCATTCCCCGCCGATGTGCCATAGGCaa                                                                <  2:334509/140‑1 (MQ=255)
                                           aaGATTTGTCAGATACGTCAGCAGGCCAAAACCCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAacac                                                             <  2:298412/140‑1 (MQ=255)
                                                 tGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCtgttg                                                       <  1:544664/140‑1 (MQ=255)
                                                          cGTCAGCAGGCAAAAAACCAGGCTCCCCAGCACACCGATTGCAGCCCACTGTGACGGAGTTACTTTATCGAGTAACTGAAATGCCCAGAAACCAGCATTCCCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTAt                                              <  1:556768/140‑1 (MQ=255)
                                                             cagcagGCAAAAAACCAGGCTCCCCAGCACACCGATTGCACCCCACTGTGACGGAGCTATTTTATCGAGTAACTGCAATCCCCAGAACCCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCa                                           <  2:674167/140‑1 (MQ=255)
                                                               gcagGCCAAAAACCAGGCTCCCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTATTTTATCGAGTAACTGCAATGCCCAGAACCCAGCATTCCCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCAtt                                         <  1:931932/140‑1 (MQ=255)
                                                                 agGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGATAACTTATCCATTGa                                       >  1:772448/1‑140 (MQ=255)
                                                                  ggCAAAAACCCAGTCAACCCACCACACAAATTGCAGCCCCCTGTGACGGCCCTTATTTATAGAGTAACTCAAATCCCCAAAACCCCACATTCCCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGAt                                      <  2:116700/140‑1 (MQ=255)
                                                                             aGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGATTTCATATCCTc                           >  1:957456/1‑140 (MQ=255)
                                                                                ctccccACCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTACCTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGATTTCATATCCTCAcc                        <  1:50468/137‑1 (MQ=255)
                                                                                cTACCCACCACACCGATTCCACCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAAAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGATAACTTATCCATTGATTTCATATCCTCAcc                        <  2:772448/140‑1 (MQ=255)
                                                                                   cccAGCACACCGATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGATTTCATATCCTCACCCCg                     <  2:555486/140‑1 (MQ=255)
                                                                                              gATTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGATTTCATATCCTCACCCCGATGTACACGGa          >  2:282653/1‑140 (MQ=255)
                                                                                               aTTGCAGCCCACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGATTTCATATCCTCACCCCGATGTACACGGAt         >  2:1000817/1‑140 (MQ=255)
                                                                                                      agcACTGTGACGGAGCTACTTTATCGAGTAACTGCAATGCCACGAACCCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTCTCCATTGATTTCATATCCTCACCCCGATGTACACGGATGGTGCaa  <  2:989187/138‑1 (MQ=255)
                                                                                                                     |                                                                                                                            
CTCCTCTCGCAGCCTTACGCCTGTCTTCTTTAATCTTGAAATAAAGATTTGTCAGATACGTCAGCAGGCCAAAAACCAGGCTACCCAGCACACCGATTGCAGCCCACTGTGACGGAGTTACTTTATCGAGTAACTGCAATGCCCAGAAACCAGCATTACCCGCCGATGTGCCATAGGCAACACCTGTTGTTAACTTATCCATTGATTTCATATCCTCACCCCGATGTACACGGATGGTGCAA  >  NC_000913/1640375‑1640616

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑