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 4,213,680 C→T *148* (TAG→TAA)  yjaB ← GNAT‑family putative N‑acetyltransferase, acetyl coenzyme A‑binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,213,6800CT100.0% 191.6 / NA 60*148* (TAG→TAA) yjaBGNAT‑family putative N‑acetyltransferase, acetyl coenzyme A‑binding protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (29/31);  total (29/31)

AGTTCCACATCCATGCGCAATCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCCTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTTATAGAACCCAACCGCCTGCTCATTTTG  >  NC_000913/4213547‑4213799
                                                                                                                                     |                                                                                                                        
aGTTCCACATCCATGCGCAATCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGc                                                                                                                     <  2:1235073/139‑1 (MQ=255)
  ttCCACATCCATGCGCAATCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGccc                                                                                                                   <  1:453821/139‑1 (MQ=255)
  ttCCACATCCATGCGCAATCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGccc                                                                                                                   >  2:615831/1‑139 (MQ=255)
            aTGCGCAATCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGc                                                                                                         >  1:1318910/1‑139 (MQ=255)
            aTGCGCAATCAGCGGAACTCAGTGATAGTGCGCTCTTGGCACTGCTTAAACAGAAGTAATCGTGTCACTATTCCTGGGTCCTCAACCTGCAGTTCAGCCCATCGGAATGTGCCAACATAGCTTACGCCCTCACATACGc                                                                                                         >  2:1103547/1‑139 (MQ=255)
                gcAATCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑Ga                                                                                                    <  2:1012023/139‑1 (MQ=255)
                  aaTCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑ggat                                                                                                  >  1:520165/1‑136 (MQ=255)
                                            gTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCaaa                                                                         >  1:460612/1‑138 (MQ=255)
                                            gTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCaaa                                                                         <  2:460612/138‑1 (MQ=255)
                                                tGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTc                                                                    <  1:615831/139‑1 (MQ=255)
                                                tGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTc                                                                    <  2:1318910/139‑1 (MQ=255)
                                                tGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCGGAAGTTCAGCCCACCGGGATGGGATAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTc                                                                    >  1:940353/1‑139 (MQ=255)
                                                 ggCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCAGGATTCAGCAACGGATACGGTTTCCCCAAATCGTc                                                                    <  2:520165/139‑1 (MQ=255)
                                                    aaTGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGa                                                                                        >  1:624747/1‑115 (MQ=255)
                                                    aaTGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGa                                                                                        <  2:624747/115‑1 (MQ=255)
                                                                  aataatCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGt                                                  <  2:134156/139‑1 (MQ=255)
                                                                      atCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACgg                                                                                   <  1:857994/102‑1 (MQ=255)
                                                                      atCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACgg                                                                                   >  2:857994/1‑102 (MQ=255)
                                                                       tCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGc                                                                                              >  2:1092795/1‑90 (MQ=255)
                                                                       tCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGc                                                                                              <  1:1092795/90‑1 (MQ=255)
                                                                       tCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCaaa                                                                         >  1:1531839/1‑111 (MQ=255)
                                                                       tCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCaaa                                                                         <  2:1531839/111‑1 (MQ=255)
                                                                           gtCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTaaa                                         >  1:1134483/1‑139 (MQ=255)
                                                                           gtCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTaaa                                         >  1:106494/1‑139 (MQ=255)
                                                                            tCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTa                                                                                                                        <  1:773612/60‑1 (MQ=255)
                                                                              aCCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAAcc                                      <  2:1134483/139‑1 (MQ=255)
                                                                                cATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCa                                    <  1:576633/139‑1 (MQ=255)
                                                                                cATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCa                                    <  1:1219779/139‑1 (MQ=255)
                                                                                cATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCa                                    <  2:106494/139‑1 (MQ=255)
                                                                                cATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCACCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCa                                    <  2:940353/139‑1 (MQ=255)
                                                                                 aTTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAG‑AAAAATCGCTTACGCCCCCACATTCGCCA‑GATTTCGCAACGGATAAGGTTTCCCCAAATCGTCCACCCCCGAGCGTCCCGTAACCTTAAAAccccac                                  >  2:297008/1‑136 (MQ=255)
                                                                                    ggtggGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACctt                                >  2:112558/1‑139 (MQ=255)
                                                                                     gtggGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACcttc                               >  1:186141/1‑139 (MQ=255)
                                                                                        ggTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTta                            >  1:1451986/1‑139 (MQ=255)
                                                                                         gTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCa                                    <  1:1162273/130‑1 (MQ=255)
                                                                                         gTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCa                                    >  2:1162273/1‑130 (MQ=255)
                                                                                          tACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTa                                                                                                                        >  2:91090/1‑46 (MQ=255)
                                                                                          tACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTc                                                                    >  1:1074572/1‑97 (MQ=255)
                                                                                          tACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTc                                                                    <  2:1074572/97‑1 (MQ=255)
                                                                                          tACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAAcc                                              <  1:837400/119‑1 (MQ=255)
                                                                                          tACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAAcc                                              >  2:837400/1‑119 (MQ=255)
                                                                                            cTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCa                                                                                             >  1:561776/1‑70 (MQ=255)
                                                                                            cTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCa                                                                                             <  2:561776/70‑1 (MQ=255)
                                                                                            cTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCagag                                                          <  1:260749/105‑1 (MQ=255)
                                                                                            cTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCagag                                                          >  2:260749/1‑105 (MQ=255)
                                                                                                   tGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTTATAGAACCCAAc                 <  2:186141/139‑1 (MQ=255)
                                                                                                    gAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGccc                                                                                                                   <  2:1345969/41‑1 (MQ=255)
                                                                                                    gAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGccc                                                                                                                   >  1:1345969/1‑41 (MQ=255)
                                                                                                    gAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGt                                                                     >  1:209230/1‑86 (MQ=255)
                                                                                                    gAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGt                                                                     <  2:209230/86‑1 (MQ=255)
                                                                                                    gAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAAcc                                      >  2:340280/1‑117 (MQ=255)
                                                                                                    gAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAAcc                                      <  1:340280/117‑1 (MQ=255)
                                                                                                    gAAGTTCAGCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTTATAGAACCCAAcc                >  1:882689/1‑139 (MQ=255)
                                                                                                      aGTTAAGCCCACCGGGATGAG‑AAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTTATAGAACCCAACCGcc             <  1:297008/139‑1 (MQ=255)
                                                                                                            gCCCACCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTTATAGAACCCAACCGCCTGCTc        >  1:151219/1‑139 (MQ=255)
                                                                                                                aCCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGc                                                                                              <  1:1137690/49‑1 (MQ=255)
                                                                                                                aCCGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGc                                                                                              >  2:1137690/1‑49 (MQ=255)
                                                                                                                  cGGGATGAGAAAAAATCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTTATAGAACCCAACCGCCTGCTCATTTTg  <  1:112558/139‑1 (MQ=255)
                                                                                                                            aaaaaTCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGAt                                                                                       >  2:722257/1‑44 (MQ=255)
                                                                                                                            aaaaaTCGCTTACGCCCCCACATACGCCA‑GATTCAGCAACGGAt                                                                                       <  1:722257/44‑1 (MQ=255)
                                                                                                                                     |                                                                                                                        
AGTTCCACATCCATGCGCAATCAGCGGTACTCAGTGATAGTGCGGTCATGGCAATGCTTAAGCAGAAATAATCGTGTCACCATTGGTGGGTACTAAACCTGAAGTTCAGCCCACCGGGATGAGAAAAAATCGCCTACGCCCCCACATACGCCA‑GATTCAGCAACGGATACGGTTTCCCCAAATCGTCCACCTCAGAGCGTCCCGTAACCTTAAAACCCACCTTCTTATAGAACCCAACCGCCTGCTCATTTTG  >  NC_000913/4213547‑4213799

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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