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
A7 F1 I1 R1 776 60.0 3074904 90.1% 2770488 104.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,420,793 (G)6→7 coding (110/423 nt) ydaT → Rac prophage, uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,420,7871.G100.0% 166.3 / NA 47Q35R (CAG→CGG) ydaTRac prophage, uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (23/24);  total (23/24)

TACCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCTGGC  >  NC_000913/1420655‑1420919
                                                                                                                                     |                                                                                                                                    
tACCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑gggggg                                                                                                                                >  2:724188/1‑139 (MQ=255)
 aCCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTACAGAATATCTGCGCCA‑ggggggg                                                                                                                               >  2:118866/1‑138 (MQ=255)
                agGCAAATGATTCATGAAAATCAAGCATGAGCACATCAAATCAGTGTTGTTTGCCCTAGCATCCGAAAAAGGGCAGGCATGGGTATCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCt                                                                                                                 <  2:980506/139‑1 (MQ=255)
                  gCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTgg                                                                                                               >  1:1159903/1‑139 (MQ=255)
                  gCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTgg                                                                                                               >  2:729848/1‑139 (MQ=255)
                     aaTGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGcccc                                                                                                                  >  2:671503/1‑133 (MQ=255)
                     aaTGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGcccc                                                                                                                  <  1:671503/133‑1 (MQ=255)
                           tCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCa                                                                                                      <  2:1373915/139‑1 (MQ=255)
                                aaaaTCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGAc                                                                                                 >  1:1007882/1‑139 (MQ=255)
                                  aaTCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGaa                                                                                                                         >  1:182350/1‑113 (MQ=255)
                                  aaTCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGaa                                                                                                                         <  2:182350/113‑1 (MQ=255)
                                    tCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGa                                                                                             <  1:724188/139‑1 (MQ=255)
                                       aGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACa                                                                                          >  2:1411873/1‑139 (MQ=255)
                                         cATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAAt                                                                                        <  2:1032022/139‑1 (MQ=255)
                                           tGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATca                                                                                      <  2:1007882/139‑1 (MQ=255)
                                            gAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATcag                                                                                     <  1:729848/139‑1 (MQ=255)
                                                       aTCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAAtatcta                                                                          <  1:727570/139‑1 (MQ=255)
                                                         cAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAAtatctatc                                                                        <  2:378930/139‑1 (MQ=255)
                                                            tgttgtTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGc                                                                                                                     <  1:459669/91‑1 (MQ=255)
                                                            tgttgtTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGc                                                                                                                     >  2:459669/1‑91 (MQ=255)
                                                              ttgttTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCgt                                                                   >  1:1270409/1‑139 (MQ=255)
                                                                gttTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCgttg                                                                 >  1:351127/1‑139 (MQ=255)
                                                                   tGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCgttggtt                                                              >  2:1197382/1‑139 (MQ=255)
                                                                   tGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCgttggtt                                                              <  1:1411873/139‑1 (MQ=255)
                                                                                        gcaggcaTGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCa                                         <  1:1303528/139‑1 (MQ=255)
                                                                                           ggcaTGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGcccc                                                                                                                  <  1:324848/63‑1 (MQ=255)
                                                                                           ggcaTGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGcccc                                                                                                                  >  2:324848/1‑63 (MQ=255)
                                                                                           ggcaTGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACg                                           >  1:380943/1‑134 (MQ=255)
                                                                                           ggcaTGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACg                                           <  2:380943/134‑1 (MQ=255)
                                                                                                      ccAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTc                                                                                                            >  1:1535094/1‑58 (MQ=255)
                                                                                                      ccAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTc                                                                                                            <  2:1535094/58‑1 (MQ=255)
                                                                                                      ccAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCa                                                                       >  2:458560/1‑95 (MQ=255)
                                                                                                      ccAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCa                                                                       <  1:458560/95‑1 (MQ=255)
                                                                                                      ccAATGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTc                           <  1:1446663/139‑1 (MQ=255)
                                                                                                        aaTGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAg                         >  2:956289/1‑139 (MQ=255)
                                                                                                         attgcaTTGCTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTc                                                                                                            <  1:1238496/50‑1 (MQ=255)
                                                                                                          tGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAg                                                                                                    <  1:1370231/62‑1 (MQ=255)
                                                                                                          tGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAg                                                                                                    >  2:1370231/1‑62 (MQ=255)
                                                                                                          tGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCAcc                                                                     >  1:270089/1‑93 (MQ=255)
                                                                                                          tGCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCAcc                                                                     <  2:270089/93‑1 (MQ=255)
                                                                                                           gCAATTACTGAAGAATATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAg                      >  1:1273544/1‑139 (MQ=255)
                                                                                                                    gaagaaTATCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCa             >  2:1334194/1‑139 (MQ=255)
                                                                                                                            tCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCt                    >  2:930990/1‑124 (MQ=255)
                                                                                                                            tCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCt                    <  1:930990/124‑1 (MQ=255)
                                                                                                                            tCTGCGCCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCt     <  2:1270409/139‑1 (MQ=255)
                                                                                                                               gcgcCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCgt                                                                   <  2:689812/74‑1 (MQ=255)
                                                                                                                               gcgcCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCgt                                                                   >  1:689812/1‑74 (MQ=255)
                                                                                                                               gcgcCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCTGGc  >  2:875526/1‑139 (MQ=255)
                                                                                                                               gcgcCAGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCTGGc  >  2:1005212/1‑139 (MQ=255)
                                                                                                                                     |                                                                                                                                    
TACCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCTGGC  >  NC_000913/1420655‑1420919

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