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
A13 F1 I1 R1 86 24.1 1002126 98.1% 983085 121.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,865,112 Δ1 bp coding (1162/1662 nt) yidE ← putative transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,865,1100G.100.0% 70.7 / NA 17coding (1164/1662 nt)yidEputative transporter
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (9/8);  total (9/8)

CGAGGTTGGCGCTTGGCGGCATAAACCAGTACAGCTTGCCGATACTGCCGATACGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGACGGGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTCCCCAGCACATTGGCAACGGCATCAATTGCGGACGGACGCCCCAC  >  NC_000913/3864977‑3865238
                                                                                                                                     |                                                                                                                                
cgAGGTTGGCGCTTGGCGGCATAAACCAGTACAGCTTGCCGATACTGCCGATACGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGACggaata                                                                                                                             <  2:471112/139‑5 (MQ=255)
      tGGCGCTTGGCGGCATAAACCAGTACAGCTTGCCGATACTGCCGATACGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCt                                                                                                                      <  1:120636/139‑1 (MQ=255)
           cTTGGCGGCATAAACCAGTACAGCTTGCCGATACTGCCGATACGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACaa                                                                                                                 <  2:305127/139‑1 (MQ=255)
                         ccAGTACAGCTTGCCGATACTGCCGATACGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGa                                                                                                   <  2:420876/139‑1 (MQ=255)
                               cAGCTAGCCTATACTGCCGATACGCCCTAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTGTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCaa                                                                                             <  1:45265/139‑1 (MQ=255)
                                                    acGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGgc                                                                                  <  1:283104/129‑1 (MQ=255)
                                                    acGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGgc                                                                                  >  2:283104/1‑129 (MQ=255)
                                                        ccGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTg                                                                    >  2:163190/1‑139 (MQ=255)
                                                                  aCGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATa                                                                                           >  2:342643/1‑106 (MQ=255)
                                                                  aCGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATa                                                                                           <  1:342643/106‑1 (MQ=255)
                                                                  aCGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGtttt                                                          >  2:435111/1‑139 (MQ=255)
                                                                      cATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGACggaata                                                                                                                             >  1:35011/1‑65 (MQ=255)
                                                                      cATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGACggaata                                                                                                                             <  2:35011/69‑5 (MQ=255)
                                                                        tAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAGTCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATCCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGGTTTtgctac                                                    >  1:9395/1‑137 (MQ=255)
                                                                              gCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTc                                              >  1:275645/1‑139 (MQ=255)
                                                                                  tCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTCCCCa                                          >  2:141429/1‑139 (MQ=255)
                                                                                    cgcccgccAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTCCCCAGc                                        >  2:206256/1‑139 (MQ=255)
                                                                                                ccAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTCCCCAGCACATTGGCAACg                            >  1:45068/1‑139 (MQ=255)
                                                                                                                    aaTCCTGGCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTCCCCAGCACATTGGCAACGGCATCAATTGCGgacggacg        <  2:45068/139‑1 (MQ=255)
                                                                                                                          ggCACAAAGAC‑GGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTCCCCAGCACATTGGCAACGGCATCAATTGCGGACGGACGCCccac  <  1:435111/139‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                
CGAGGTTGGCGCTTGGCGGCATAAACCAGTACAGCTTGCCGATACTGCCGATACGCCCGAGGATCAACGCCATAATCAGCGGTCCGCCCGCCAGCCCCAGTTTCAACGCGGCCGGGAATCCTGGCACAAAGACGGGAATAGAACCTAACAATACGCCTAGCCCGATGCCAATAAACACTGGCAGCATCTGAACCTGTTGCAGTTTTTGCTGCGCATTCCCCAGCACATTGGCAACGGCATCAATTGCGGACGGACGCCCCAC  >  NC_000913/3864977‑3865238

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