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
A1 F1 I2 R1 730 35.1 2107516 91.4% 1926269 80.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,354,739 Δ1 bp coding (15/4461 nt) gltB → glutamate synthase subunit GltB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,354,7370A.100.0% 157.9 / NA 38coding (13/4461 nt)gltBglutamate synthase subunit GltB
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (20/18);  total (20/18)

CTCTTTCTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATAAATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAACCTAGCCACAAGGTAGTGC  >  NC_000913/3354657‑3354812
                                                                                |                                                                           
ctctTTCTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATa                                                                             <  2:633083/81‑1 (MQ=255)
  ctTTCTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATaat                                                                           >  1:633172/1‑80 (MQ=255)
   tttCTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATaatc                                                                          >  1:633157/1‑79 (MQ=255)
   tttCTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATaatc                                                                          >  1:633155/1‑79 (MQ=255)
     tCTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATaatccc                                                                        >  1:633150/1‑77 (MQ=255)
      cTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATaatccc                                                                        <  1:633085/80‑5 (MQ=255)
      cTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATaatccc                                                                        <  1:633084/80‑5 (MQ=255)
              gTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAggg                                                              <  2:633086/81‑1 (MQ=255)
              gTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAgg                                                               >  2:633135/1‑80 (MQ=255)
              gTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAgg                                                               >  1:633156/1‑80 (MQ=255)
                gcgcAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGa                                                             >  1:633146/1‑80 (MQ=255)
                   cAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAAc                                                         >  2:633136/1‑81 (MQ=255)
                    aGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACt                                                        >  1:633160/1‑81 (MQ=255)
                    aGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACt                                                        >  2:633164/1‑81 (MQ=255)
                      cGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACtgt                                                      <  1:633087/81‑1 (MQ=255)
                      cGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACtgt                                                      <  1:633088/81‑1 (MQ=255)
                       ggTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACtgtg                                                     >  1:633149/1‑81 (MQ=255)
                       ggTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACtgtg                                                     <  1:633089/81‑1 (MQ=255)
                            ggAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGttt                                                 <  2:633090/80‑1 (MQ=255)
                            ggAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTc                                                <  1:633091/81‑1 (MQ=255)
                                gTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGcc                                            >  2:633151/1‑81 (MQ=255)
                                gTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGcc                                            <  2:633092/81‑1 (MQ=255)
                                 tGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCt                                           >  1:633145/1‑81 (MQ=255)
                                 tGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCt                                           <  2:633093/81‑1 (MQ=255)
                                   gggTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTg                                          <  2:633095/80‑1 (MQ=255)
                                   gggTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGa                                         <  1:633094/81‑1 (MQ=255)
                                    ggTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGAt                                        >  1:633144/1‑81 (MQ=255)
                                      ttCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCg                                      >  2:633162/1‑81 (MQ=255)
                                       tCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGc                                     >  2:633143/1‑81 (MQ=255)
                                       acccGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATctc                                     >  1:633158/2‑79 (MQ=255)
                                         ccGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGcc                                    <  1:633096/80‑1 (MQ=255)
                                          cGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCca                                  <  1:633097/81‑1 (MQ=255)
                                          cGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCca                                  <  2:633098/81‑1 (MQ=255)
                                            cAGAGCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCcaca                                >  2:633131/1‑81 (MQ=255)
                                             agagCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCcaca                                >  2:633174/1‑80 (MQ=255)
                                              gagCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATa                              <  1:633099/81‑1 (MQ=255)
                                               agCCTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAg                             <  2:633100/81‑1 (MQ=255)
                                                  cTGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAg                          >  1:633134/1‑81 (MQ=255)
                                                   tGGGGGAGGTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAgg                         >  2:633139/1‑81 (MQ=255)
                                                          ggTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAAcc                   >  1:633170/1‑80 (MQ=255)
                                                          ggTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAACCt                  <  1:633101/81‑1 (MQ=255)
                                                          ggTTCACGATATGTTGTACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAACCt                  <  1:633102/81‑1 (MQ=255)
                                                                         gtACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAACCTAGCCACAAGGTAGTg   >  2:633171/1‑81 (MQ=255)
                                                                         gtACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAACCTAGCCACAAGGTAGTg   >  2:633177/1‑81 (MQ=255)
                                                                          tACGAT‑AATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAACCTAGCCACAAGGTAGTGc  <  2:633103/81‑1 (MQ=255)
                                                                                |                                                                           
CTCTTTCTGTGCCCGTGCGCAGCGGTTCGGAAGTGGGGTTCCCGCAGAGCCTGGGGGAGGTTCACGATATGTTGTACGATAAATCCCTTGAGAGGGATAACTGTGGTTTCGGCCTGATCGCCCACATAGAAGGCGAACCTAGCCACAAGGTAGTGC  >  NC_000913/3354657‑3354812

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A