Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A2 F107 I2 R1 9 28.1 973420 94.3% 917935 142.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,277,819 G→T G118* (GGA→TGA)  soxR → redox‑sensitive transcriptional activator of soxS, autorepressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,277,8190GT100.0% 61.2 / NA 26G118* (GGA→TGA) soxRredox‑sensitive transcriptional activator of soxS, autorepressor
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (11/15);  total (11/15)

AAGCGTTTGGCGTGTTGCCCGAAGGGCATACGTTAAGTGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACGGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGAAGATGAACAAAACTAAAGCGCCACAAGGGCGCTTTAG  >  NC_000913/4277691‑4277953
                                                                                                                                |                                                                                                                                      
aatcttttCGCGTGTTGCCCCAAGCGCATACGTTACGTGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGTGCTGCGTGACTAACTGGACTGATGTATTGGTtgt                                                                                                                          <  1:135335/138‑1 (MQ=255)
                     aaGGGCATACGTTAAGTGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGAt                                                                                                     <  1:78511/143‑1 (MQ=255)
                        ggCATACGTTAAGTGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGc                                                                                                  >  2:425039/1‑143 (MQ=255)
                             gcGTTACGTGCGATAGATTGGAAACACCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGtt                                                                                             <  2:49415/142‑1 (MQ=255)
                             aCGTTAAGTGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGtt                                                                                             >  2:269488/1‑143 (MQ=255)
                                     tGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGCCGAACTGGACTGATGTATTGGTCGTGGCTGCCCTTCGCGCAGTGATTGCGCGTTGCCTAAcc                                                                                     >  2:88149/1‑143 (MQ=255)
                                     tGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCACGTTGCGTAAcc                                                                                     >  2:85835/1‑143 (MQ=255)
                                                   aaCAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAAGCCGCGCGAGCGCTTa                                                                       >  1:407747/1‑143 (MQ=255)
                                                   aaCAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGGTTa                                                                       >  1:291537/1‑143 (MQ=255)
                                                      aGCGTTCGTCCCAATGGCGAGAAGAGCTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGga                                                                    <  2:246320/143‑1 (MQ=255)
                                                          ttCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGACTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGagcag                                                                >  2:316158/1‑143 (MQ=255)
                                                              tCCCAATGGCGAGAAGTGTTGGATCGGCGCATTCATACCTTAGTCGCCCCGCCGGACTTACTGGACTGCTGTACTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAgg                                                            <  2:289706/143‑1 (MQ=255)
                                                                 cAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAGCCCGGGCGACCGCTTAGGAGAAGAAGGTAc                                                         <  1:126746/143‑1 (MQ=255)
                                                                 cAATGGCGAGAAGAGTTGGATCGACGCAATCATACATTAGTGGCGATGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCTAACTGTGATTGCCCGTTGCGTAACCCTGGCGACCGACTAAGAGaagaagatcc                                                         >  2:388621/1‑139 (MQ=255)
                                                                             gagTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCtt                                             <  1:267122/143‑1 (MQ=255)
                                                                                   gATCGGCGGATTCAGACCTTAGTGGCGTTGCGTGACGAAGTGGTCTGATGTATTGGTTGTGGCTGCCTTTCTCGCAGTGATTGCCTGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGa                                       <  2:39877/143‑1 (MQ=255)
                                                                                    aTCGGCGCATTCCTACCTTAGTGGCGCCGCGTGACGAACGGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGCTTGCCCGTTGCGTACCCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGaa                                      <  1:263356/143‑1 (MQ=255)
                                                                                    aTCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGaa                                      >  2:49608/1‑143 (MQ=255)
                                                                                    aTCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACACGGGTGGCTGGTGGGTAGAAGAAGGTACCGGCGCACGCTTGCTGGaa                                      <  1:333032/143‑1 (MQ=255)
                                                                                                 tACCTTAGTGGCGCTGCGTGACGAACTGGACTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGGGACCGCTTAGGGGAAGAAGGTACCGGCGCACGCTTGCTGGTTGATGTACGAAACt                         >  1:256091/1‑143 (MQ=255)
                                                                                                    cTTAGTGGCGCTGCGTGACGAACTGGCCTGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGCGAAGCAGGTACCGGCGCACGCGTGCTGGACGATGAACCCAACTcaa                      >  1:185081/1‑143 (MQ=255)
                                                                                                         tGGCGCTGCGTGACGAACTGCACTGGTGTATTGGTGGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGGTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGAAGATGAACAAAACTAAAGCGcc                 <  1:95255/143‑1 (MQ=255)
                                                                                                               cgCGTGACGAACCGGAGTGATGTATTGGTTGTGGCTGCCGTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGAAGATGAACAAAACTAAAGCGCCACAAgg           <  1:186099/142‑1 (MQ=255)
                                                                                                                 cGTTACGAACTGTACTGAGTTATTGGCGGTGGCTGCGTTTCGGGCAGTGAGTGCCGGTTGCGTAACCCGGGCGACGGCGTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGTAAGATGAACAGAACGAAAGGGCCACAAGGgc         <  2:412382/143‑1 (MQ=255)
                                                                                                                     aCGTACTGGACTGATTTATGTTTTTTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGAAGATGAACAAAACTAAAGCGCCACAAGGGCGCtt     <  1:208735/143‑1 (MQ=255)
                                                                                                                        aaCTGGACTGATGTAGTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGAAGATGAACAAAACTAAAGCGCCACAAGGGCGCTTTAg  <  2:344922/143‑1 (MQ=255)
                                                                                                                                |                                                                                                                                      
AAGCGTTTGGCGTGTTGCCCGAAGGGCATACGTTAAGTGCGAAAGAGTGGAAACAGCTTTCGTCCCAATGGCGAGAAGAGTTGGATCGGCGCATTCATACCTTAGTGGCGCTGCGTGACGAACTGGACGGATGTATTGGTTGTGGCTGCCTTTCGCGCAGTGATTGCCCGTTGCGTAACCCGGGCGACCGCTTAGGAGAAGAAGGTACCGGCGCACGCTTGCTGGAAGATGAACAAAACTAAAGCGCCACAAGGGCGCTTTAG  >  NC_000913/4277691‑4277953

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A