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
A14 F1 I1 R1 770 68.5 3470224 91.7% 3182195 103.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,737,495 G→A *114* (TAG→TAA)  raiA → cold shock protein associated with 30S ribosomal subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,737,4950GA100.0% 163.6 / NA 52*114* (TAG→TAA) raiAcold shock protein associated with 30S ribosomal subunit
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/26);  total (26/26)

ACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAGTCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAACACATACCGTTTTTCT  >  NC_000913/2737367‑2737620
                                                                                                                                |                                                                                                                             
acCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTatat                                                                                                                     >  2:1367091/1‑139 (MQ=255)
    cAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAg                                                                                                                 >  1:1219022/1‑139 (MQ=255)
    cAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTAGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGACGTTGAAGAAGAGTAATCCTTTATATTGAg                                                                                                                 >  2:262236/1‑139 (MQ=255)
        tAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTa                                                                                                             <  1:1367091/139‑1 (MQ=255)
              aTTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCa                                                                                                       <  2:510465/139‑1 (MQ=255)
                      acaaGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCt                                                                                               >  2:849150/1‑139 (MQ=255)
                          gCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCt                                                                                                                           >  2:1330190/1‑107 (MQ=255)
                          gCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCt                                                                                                                           <  1:1330190/107‑1 (MQ=255)
                           cTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCggg                                                                                          <  2:1255480/139‑1 (MQ=255)
                           cTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCATTTATATTGAGTGTATCGCCAACGCGCCTTCggg                                                                                          <  1:262236/139‑1 (MQ=255)
                            tGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGgc                                                                                         >  1:558726/1‑139 (MQ=255)
                                    cAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGttttt                                                                                 >  2:125045/1‑139 (MQ=255)
                                    cAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGttttt                                                                                 >  1:257029/1‑139 (MQ=255)
                                     aGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGtttttt                                                                                >  2:343227/1‑139 (MQ=255)
                                        tCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTttgtt                                                                             >  1:142280/1‑139 (MQ=255)
                                           aTAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                          <  1:343227/139‑1 (MQ=255)
                                                 tGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGACAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTg                                                                    >  1:196897/1‑139 (MQ=255)
                                                 tGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTg                                                                    >  2:1566445/1‑139 (MQ=255)
                                                   cagcaCAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACACCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGGGCGTTTTTTGTTGACAGCGTGaa                                                                  <  1:1529005/139‑1 (MQ=255)
                                                    agcaCAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGaaa                                                                 <  2:142280/139‑1 (MQ=255)
                                                    agcaCAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAACCCTTTatat                                                                                                                     <  1:928199/87‑1 (MQ=255)
                                                    agcaCAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAACCCTTTatat                                                                                                                     >  2:928199/1‑87 (MQ=255)
                                                      cacaAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAAc                                                               <  1:436745/139‑1 (MQ=255)
                                                           aGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTAc                                                          <  2:1219022/139‑1 (MQ=255)
                                                           aGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTAc                                                          <  1:125045/139‑1 (MQ=255)
                                                           aGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACACCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCCACGCGCCTTCGGGCGGGTTTTTTGTTGACAGAGTGAAAACAGTaa                                                          >  2:1529005/1‑138 (MQ=255)
                                                              cGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACggg                                                       <  1:1566445/139‑1 (MQ=255)
                                                                aaGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGgta                                                     <  1:849150/139‑1 (MQ=255)
                                                                   cACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGgtactg                                                  >  1:1161101/1‑139 (MQ=255)
                                                                     cgtcgtGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGgtactgta                                                >  1:22865/1‑139 (MQ=255)
                                                                      gtcgtGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATcc                                                                                                                            >  2:1269739/1‑62 (MQ=255)
                                                                      gtcgtGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATcc                                                                                                                            <  1:1269739/62‑1 (MQ=255)
                                                                       tcgtGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGgtactgtact                                              >  2:678020/1‑139 (MQ=255)
                                                                               cAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCAc                                      <  2:22865/139‑1 (MQ=255)
                                                                                  cATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTa                                   >  1:1428704/1‑139 (MQ=255)
                                                                                    tCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAg                                 >  1:91356/1‑139 (MQ=255)
                                                                                     cGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAgg                                <  2:558726/139‑1 (MQ=255)
                                                                                     cGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAgg                                >  2:425490/1‑139 (MQ=255)
                                                                                       gTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaa                              >  1:1536626/1‑139 (MQ=255)
                                                                                         gacaGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaac                            <  2:196897/136‑1 (MQ=255)
                                                                                           aaGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaacaa                          <  2:1161101/139‑1 (MQ=255)
                                                                                           aaGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaacaa                          <  2:257029/139‑1 (MQ=255)
                                                                                               cGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACAt                      >  2:1352527/1‑139 (MQ=255)
                                                                                               cGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACAt                      <  1:1352527/139‑1 (MQ=255)
                                                                                                gCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGaa                                                                  >  2:1125246/1‑94 (MQ=255)
                                                                                                gCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGaa                                                                  <  1:1125246/94‑1 (MQ=255)
                                                                                                gCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATg                     >  1:114359/1‑139 (MQ=255)
                                                                                                 ccAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGa                    <  2:1536626/139‑1 (MQ=255)
                                                                                                 ccAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGa                    <  1:678020/139‑1 (MQ=255)
                                                                                                                   ttGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAACACATACCGTTTttct  <  2:114359/139‑1 (MQ=255)
                                                                                                                           gagTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGa                    <  2:1269790/113‑1 (MQ=255)
                                                                                                                           gagTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGa                    >  1:1269790/1‑113 (MQ=255)
                                                                                                                            agtaatCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAg                                                             <  1:688865/71‑1 (MQ=255)
                                                                                                                            agtaatCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAg                                                             >  2:688865/1‑71 (MQ=255)
                                                                                                                             gtaatCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAacaaa              >  1:1702427/1‑115 (MQ=255)
                                                                                                                             gtaatCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAAcaca              <  2:1702427/117‑1 (MQ=255)
                                                                                                                                |                                                                                                                             
ACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAGTCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAACACATACCGTTTTTCT  >  NC_000913/2737367‑2737620

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A