Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,720,202 T→C S52P (TCC→CCC)  cspA → RNA chaperone and antiterminator, cold‑inducible

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,720,2020TC100.0% 150.3 / NA 40S52P (TCC→CCC) cspARNA chaperone and antiterminator, cold‑inducible
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/24);  total (16/24)

ATCGTAAAATGGTTCAACGCTGACAAAGGCTTCGGCTTCATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGTCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGCACAGAATCTAAGATCCCTGCCATTTGGCGGGGATTTTTTTATTTGTTTTCAGGAAAT  >  NC_000913/3720070‑3720333
                                                                                                                                    |                                                                                                                                   
aTCGTAAAATGGTTCAACGCTGACAAAGGCTTCGGCTTCATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCa                                                                                                                               <  2:80286/139‑1 (MQ=255)
             tCAACGCTGACAAAGGCTTCGGCTTCATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAgcgg                                                                                                                  <  2:375774/139‑1 (MQ=255)
                 cGCTGACAAAGGCTTCGGCTTCATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCt                                                                                                              >  1:189552/1‑139 (MQ=255)
                    tGACAAAGGCTTCGGCTTCATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTaaa                                                                                                           <  2:189552/139‑1 (MQ=255)
                               tcggcttcATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGc                                                                                                >  2:467167/1‑139 (MQ=255)
                                 ggcttcATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTg                                                                                              <  1:304724/139‑1 (MQ=255)
                                            tCCTGACGCGGTCTCTAAAGATGTGTACGTACCCTGCTCTGCTATCCAGAACGATGGTGACAAACCTCGGGACGATGGTCAGAAAGTGCCCTTCACCATCGGAAGCGGCGCTAGAAGTCCGGCAGCTGGTAACGTAAcc                                                                                   <  1:325480/139‑1 (MQ=255)
                                            tCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAAcc                                                                                   >  2:489350/1‑139 (MQ=255)
                                              cTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAg                                                                                 <  2:661578/139‑1 (MQ=255)
                                              cTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAg                                                                                 <  1:4902/139‑1 (MQ=255)
                                                      ggCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAAcc                                                                                   >  1:288266/1‑129 (MQ=255)
                                                      ggCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAAcc                                                                                   >  2:741400/1‑129 (MQ=255)
                                                      ggCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAAcc                                                                                   <  2:288266/129‑1 (MQ=255)
                                                      ggCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAAcc                                                                                   <  1:741400/129‑1 (MQ=255)
                                                      ggCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAAt                                                                         <  1:489350/139‑1 (MQ=255)
                                                      ggCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAAt                                                                         >  2:205684/1‑139 (MQ=255)
                                                      ggCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAAt                                                                         >  2:711831/1‑139 (MQ=255)
                                                        ctctAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAAtct                                                                       >  2:758177/1‑139 (MQ=255)
                                                        ctctAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAAtct                                                                       >  1:433483/1‑139 (MQ=255)
                                                                aTGTGTTCGTACACTTCTCTGGTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCTCGTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTaa                                                               <  1:467167/139‑1 (MQ=255)
                                                                     ttCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGca                                                          >  1:405059/1‑139 (MQ=255)
                                                                     ttCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGca                                                          <  2:433483/139‑1 (MQ=255)
                                                                      tCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGcac                                                         <  1:205684/139‑1 (MQ=255)
                                                                       cGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGcaca                                                        <  1:271017/139‑1 (MQ=255)
                                                                       cGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGcaca                                                        <  1:707120/139‑1 (MQ=255)
                                                                        gTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGCACAg                                                       <  1:711831/139‑1 (MQ=255)
                                                                          acacTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGCACAGaa                                                     <  1:564125/139‑1 (MQ=255)
                                                                                      tATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGca                                                          >  1:359203/1‑122 (MQ=255)
                                                                                      tATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGca                                                          <  2:359203/122‑1 (MQ=255)
                                                                                                  tGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAg                                                                                                                     >  2:389016/1‑51 (MQ=255)
                                                                                                  tGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAg                                                                                                                     <  1:389016/51‑1 (MQ=255)
                                                                                                  tGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGgtaacgtaac                                                                                    <  2:44948/84‑1 (MQ=255)
                                                                                                  tGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGgtaacgtaac                                                                                    >  1:44948/1‑84 (MQ=255)
                                                                                                               ctGGACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGCACAGAATCTAAGATCCCTGCCATTTGGCGGGGATTTTTTTAtt                >  2:663246/1‑139 (MQ=255)
                                                                                                                 ggACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAAcc                                                                                   <  1:114305/70‑1 (MQ=255)
                                                                                                                 ggACGAAGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAAcc                                                                                   >  2:114305/1‑70 (MQ=255)
                                                                                                                       aGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGgtaacgtaac                                                                                    >  2:531579/1‑63 (MQ=255)
                                                                                                                       aGGTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGgtaacgtaac                                                                                    <  1:531579/63‑1 (MQ=255)
                                                                                                                         gTCAGAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGCACAGAATCTAAGATCCCTGCCATTTGGCGGGGATTTTTTTATTTGTTTTCAgg      <  1:60493/139‑1 (MQ=255)
                                                                                                                             gAAAGTGCCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGCACAGAATCTAAGATCCCTGCCATTTGGCGGGGATTTTTTTATTTGTTTTCAGGaaat  <  1:663246/139‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                   
ATCGTAAAATGGTTCAACGCTGACAAAGGCTTCGGCTTCATCACTCCTGACGATGGCTCTAAAGATGTGTTCGTACACTTCTCTGCTATCCAGAACGATGGTTACAAATCTCTGGACGAAGGTCAGAAAGTGTCCTTCACCATCGAAAGCGGCGCTAAAGGCCCGGCAGCTGGTAACGTAACCAGCCTGTAATCTCTGCTTAAAAGCACAGAATCTAAGATCCCTGCCATTTGGCGGGGATTTTTTTATTTGTTTTCAGGAAAT  >  NC_000913/3720070‑3720333

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑