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
A9 F1 I2 R1 78 48.0 2243616 94.8% 2126947 114.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 683,121 C→T A91A (GCG→GCA)  hscC ← Hsp70 family chaperone Hsc62, RpoD‑binding transcription inhibitor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913683,1210CT100.0% 190.0 / NA 55A91A (GCG→GCA) hscCHsp70 family chaperone Hsc62, RpoD‑binding transcription inhibitor
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (31/24);  total (31/24)

CTGCTAAACGGGTATGCTTGCGTTGTTCATCGCTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGCGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGTTTTCCGACTAAAATATGATTAT  >  NC_000913/682985‑683251
                                                                                                                                        |                                                                                                                                  
ctgctAAACGGGTATGCTTGCGTTGTTCATCGCTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGgtgc                                                                                                                                  >  1:1062203/1‑139 (MQ=255)
ctgctAAACGGGTATGCTTGCGTTGTTCATCGCTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGgtgc                                                                                                                                  >  2:147014/1‑139 (MQ=255)
       aCGGGTATGCTTGCGTTGTTCATCGCTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAAt                                                                                                                           <  1:169700/139‑1 (MQ=255)
                     gttgttCATCGCTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTaa                                                                                                             >  1:1041347/1‑139 (MQ=255)
                          tCATCGCTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGcc                                                                                                        >  2:895100/1‑139 (MQ=255)
                                cTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTgg                                                                                                  >  1:496329/1‑139 (MQ=255)
                                 tGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGt                                                                                                 >  1:783538/1‑139 (MQ=255)
                                          ccGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGcc                                                                                        <  2:1062122/139‑1 (MQ=255)
                                               aCGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTg                                                                                   <  1:370944/139‑1 (MQ=255)
                                               aCGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTg                                                                                   <  1:895100/139‑1 (MQ=255)
                                               aCGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTg                                                                                   <  2:95636/139‑1 (MQ=255)
                                               aCGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTg                                                                                   <  2:783147/139‑1 (MQ=255)
                                                        accacATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTaa                                                                          >  1:1078017/1‑139 (MQ=255)
                                                             aTCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGCGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAGTAAc                                                                     >  2:739359/1‑139 (MQ=255)
                                                              tCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACg                                                                    <  2:453468/139‑1 (MQ=255)
                                                               cTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCGCATTGCACGTTTAAATAACGc                                                                   >  2:659479/1‑139 (MQ=255)
                                                               cTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGc                                                                   >  1:611012/1‑139 (MQ=255)
                                                                 ttAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAATGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTg                                                                 >  1:292340/1‑139 (MQ=255)
                                                                 ttAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTg                                                                 >  2:711432/1‑139 (MQ=255)
                                                                 ttAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTg                                                                 >  1:1015291/1‑139 (MQ=255)
                                                                  tAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGc                                                                >  2:263214/1‑139 (MQ=255)
                                                                    aTCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCg                                                              >  1:568759/1‑139 (MQ=255)
                                                                         aCGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGt                                                                                                     >  2:202803/1‑95 (MQ=255)
                                                                         aCGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGt                                                                                                     >  1:713044/1‑95 (MQ=255)
                                                                         aCGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGt                                                                                                     <  1:202803/95‑1 (MQ=255)
                                                                         aCGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGt                                                                                                     <  2:713044/95‑1 (MQ=255)
                                                                         aCGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGcc                                                                                        <  1:696309/108‑1 (MQ=255)
                                                                         aCGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGcc                                                                                        >  2:696309/1‑108 (MQ=255)
                                                                         aCGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTa                                                         >  1:393347/1‑139 (MQ=255)
                                                                           gTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCACTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATc                                                       <  1:800296/139‑1 (MQ=255)
                                                                              gCAGAAATTGTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAAGAACGCTGCCGTTTTATCCgg                                                    <  1:659479/139‑1 (MQ=255)
                                                                                      tcttcGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAg                                            <  1:370912/139‑1 (MQ=255)
                                                                                      tcttcGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAg                                            <  2:611012/139‑1 (MQ=255)
                                                                                                cttcttTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGa                                  >  1:455242/1‑139 (MQ=255)
                                                                                                cttcttTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGa                                  <  2:393347/139‑1 (MQ=255)
                                                                                                          tGAGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGt                        >  1:221504/1‑139 (MQ=255)
                                                                                                            aGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCg                          >  2:519216/1‑135 (MQ=255)
                                                                                                            aGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCg                          <  1:519216/135‑1 (MQ=255)
                                                                                                            aGCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGttt                      <  2:1078017/139‑1 (MQ=255)
                                                                                                             gCGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGtttt                     >  2:859771/1‑139 (MQ=255)
                                                                                                              cGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCa                                                                                                       <  2:288047/56‑1 (MQ=255)
                                                                                                              cGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCa                                                                                                       >  2:798025/1‑56 (MQ=255)
                                                                                                              cGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCa                                                                                                       <  1:798025/56‑1 (MQ=255)
                                                                                                              cGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCa                                                                                                       >  1:263693/1‑56 (MQ=255)
                                                                                                              cGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCa                                                                                                       >  1:288047/1‑56 (MQ=255)
                                                                                                              cGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCa                                                                                                       <  2:263693/56‑1 (MQ=255)
                                                                                                              cGTAATACCAAAGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGTTTTc                    >  2:368948/1‑139 (MQ=255)
                                                                                                                  aTACCAAAGAGGACAGTTCTGGTGCGTTAAATgtgt                                                                                                                       <  2:1079122/36‑1 (MQ=255)
                                                                                                                  aTACCAAAGAGGACAGTTCTGGTGCGTTAAATgtgt                                                                                                                       >  1:1079122/1‑36 (MQ=255)
                                                                                                                        aaGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGaa                                             >  1:75968/1‑104 (MQ=255)
                                                                                                                        aaGAGGACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGaa                                             <  2:75968/104‑1 (MQ=255)
                                                                                                                             gACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTg                                                                                   >  2:261647/1‑61 (MQ=255)
                                                                                                                             gACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTg                                                                                   <  1:261647/61‑1 (MQ=255)
                                                                                                                             gACAGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGTTTTCCGACTAAAATATGat     >  1:1030757/1‑139 (MQ=255)
                                                                                                                                aGTTCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGTTTTCCGACTAAAATATGattat  >  2:286051/1‑139 (MQ=255)
                                                                                                                                  ttCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATc                                                       <  2:19265/84‑1 (MQ=255)
                                                                                                                                  ttCTGGTGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATc                                                       >  1:19265/1‑84 (MQ=255)
                                                                                                                                        |                                                                                                                                  
CTGCTAAACGGGTATGCTTGCGTTGTTCATCGCTGAAATAAGCCGGAACGGAGATCACCACATCTTTAATCGGACGTTGCAGAAATTCTTCGGCATCTTCTTTTAATGAGCGTAATACCAAAGAGGACAGTTCTGGCGCGTTAAATGTGTCGCTGCCTAACCGCCAGTTGGTATTACTGCCCATTGCACGTTTAAATAACGCTGCCGTTTTATCCGGATGCGAAGTACGCCGTGATACAGCCGGTTTTCCGACTAAAATATGATTAT  >  NC_000913/682985‑683251

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A