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
A8 F1 I1 R1 771 44.8 2153074 94.1% 2026042 109.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,187,415 G→A *302* (TAG→TAA)  insD1 → IS2 transposase TnpB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,187,4150GA100.0% 131.2 / NA 42*302* (TAG→TAA) insD1IS2 transposase TnpB
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/16);  total (26/16)

CATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCA  >  NC_000913/3187305‑3187550
                                                                                                              |                                                                                                                                        
cATTATAACGAATTGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         <  1:600609/128‑1 (MQ=19)
cATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         >  2:600609/1‑128 (MQ=21)
             ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTa                                                                                                  >  1:352262/1‑138 (MQ=255)
             ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTa                                                                                                  <  2:352262/138‑1 (MQ=255)
             ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTAt                                                                                                 >  1:471508/1‑139 (MQ=255)
                aTCCGCATAGTGCGCTGGGTTATCGCTCGCCACGAGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑cc                                                                                             >  1:210562/1‑139 (MQ=255)
                 tCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCg                                                                                            >  1:34171/1‑139 (MQ=255)
                  ccGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAACATCTGCGGCAGCGGGCTTGTAATGGGATAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGt                                                                                           >  1:683826/1‑139 (MQ=255)
                   cGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGtt                                                                                          <  2:454231/139‑1 (MQ=255)
                            cgcTGGGTTATCGCTGGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTcaac                                                                                 >  2:716602/1‑139 (MQ=255)
                            cgcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTc                                                                                                        >  2:519344/1‑117 (MQ=255)
                            cgcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTc                                                                                                        <  1:519344/117‑1 (MQ=255)
                                         ctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCg                                                                    <  2:471508/139‑1 (MQ=255)
                                           cgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGaa                                                                  >  2:872779/1‑139 (MQ=255)
                                                         cTGCGGCAGCGGGCTTGTAATGGGTTGAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGa                                                    <  2:683826/139‑1 (MQ=255)
                                                         cTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGa                                                    <  1:716602/139‑1 (MQ=255)
                                                           gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCg                                                                    <  1:199763/121‑1 (MQ=255)
                                                           gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCg                                                                    >  2:199763/1‑121 (MQ=255)
                                                           gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGaaa                                                  >  1:656874/1‑139 (MQ=255)
                                                                  cGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGtt                                                                                                                            >  1:594264/1‑59 (MQ=16)
                                                                  cGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGtt                                                                                                                            <  2:594264/59‑1 (MQ=16)
                                                                               ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAttt                              >  1:314956/1‑139 (MQ=255)
                                                                               ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAttt                              >  1:474345/1‑139 (MQ=255)
                                                                               ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAtt                               >  1:1035813/1‑138 (MQ=255)
                                                                               ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAtt                               <  2:1035813/138‑1 (MQ=255)
                                                                                 ttAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           <  1:435800/45‑1 (MQ=255)
                                                                                 ttAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           >  2:435800/1‑45 (MQ=255)
                                                                                   aaGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGaa                                                                                       <  2:292596/78‑1 (MQ=255)
                                                                                   aaGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGaa                                                                                       >  1:292596/1‑78 (MQ=255)
                                                                                    aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         >  2:1029553/1‑44 (MQ=255)
                                                                                    aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         <  1:1029553/44‑1 (MQ=255)
                                                                                    aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           >  2:592397/1‑42 (MQ=255)
                                                                                    aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           <  1:592397/42‑1 (MQ=255)
                                                                                         tAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATg                    >  2:389812/1‑139 (MQ=255)
                                                                                               aTGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCaa               >  2:473/1‑139 (MQ=255)
                                                                                                 gTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTAATGGCCAATTa            >  1:695891/1‑139 (MQ=255)
                                                                                                  tCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTg                                                     <  2:223053/97‑1 (MQ=255)
                                                                                                  tCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTg                                                     >  1:223053/1‑97 (MQ=255)
                                                                                                   cTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTAcc          >  1:1041459/1‑139 (MQ=255)
                                                                                                         atatAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCg        <  2:914027/135‑1 (MQ=255)
                                                                                                         atatAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCg        >  1:914027/1‑135 (MQ=255)
                                                                                                           ataAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCa  >  2:1048509/1‑139 (MQ=255)
                                                                                                              |                                                                                                                                        
CATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCA  >  NC_000913/3187305‑3187550

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A