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
A8 F1 I2 R1 97 53.3 2484976 94.5% 2348302 111.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,904,586 T→C V231A (GTC→GCC)  manZ → mannose‑specific enzyme IID component of PTS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,904,5860TC100.0% 217.9 / NA 57V231A (GTC→GCC) manZmannose‑specific enzyme IID component of PTS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (24/33);  total (24/33)

AAACTGACGGAAGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGTCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTCAT  >  NC_000913/1904453‑1904706
                                                                                                                                     |                                                                                                                        
aaaCTGACGGAAGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGa                                                                                                                     <  2:149484/139‑1 (MQ=255)
     gACGGAAGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTAtt                                                                                                                <  2:85663/139‑1 (MQ=255)
       cGGAAGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCt                                                                                                              >  1:878917/1‑139 (MQ=255)
        ggAAGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTg                                                                                                             <  2:878917/139‑1 (MQ=255)
                cGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGtt                                                                                                     <  1:612524/139‑1 (MQ=255)
                            gCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGa                                                                                                                     <  1:749852/111‑1 (MQ=255)
                            gCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGa                                                                                                                     >  2:749852/1‑111 (MQ=255)
                             ccTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTg                                                                                        >  1:700938/1‑139 (MQ=255)
                                 tttGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                          <  2:66097/117‑1 (MQ=255)
                                 tttGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                          >  1:66097/1‑117 (MQ=255)
                                 tttGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTAc                                                                                    >  2:935003/1‑139 (MQ=255)
                                 tttGTCATGGGGGCACTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAATACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTAc                                                                                    >  2:826998/1‑139 (MQ=255)
                                                    ttAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGc                                                                 >  2:847580/1‑139 (MQ=255)
                                                    ttAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGc                                                                 <  1:458403/139‑1 (MQ=255)
                                                     tAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCATGCCTGGTACCACTGCTGCTGACCTTTGCt                                                                <  1:826998/139‑1 (MQ=255)
                                                     tAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCt                                                                <  2:914509/139‑1 (MQ=255)
                                                       aCAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTg                                                              <  2:1101534/139‑1 (MQ=255)
                                                       aCAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTg                                                              <  2:46061/139‑1 (MQ=255)
                                                           gTGGACACATGTCACCATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATCCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTAtg                                                          >  1:753340/1‑139 (MQ=255)
                                                             ggACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTAtgtg                                                        >  1:1137902/1‑139 (MQ=255)
                                                              gACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                          >  2:503494/1‑88 (MQ=255)
                                                              gACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                          <  1:503494/88‑1 (MQ=255)
                                                              gACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGcc                                                                                               <  2:556698/99‑1 (MQ=255)
                                                              gACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGcc                                                                                               >  1:556698/1‑99 (MQ=255)
                                                                        aaCATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGAc                                                                       >  1:399406/1‑113 (MQ=255)
                                                                        aaCATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGAc                                                                       <  2:399406/113‑1 (MQ=255)
                                                                        aaCATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTa                                                    <  2:314644/132‑1 (MQ=255)
                                                                        aaCATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTa                                                    >  1:314644/1‑132 (MQ=255)
                                                                             cccGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCt                                                                     >  1:888967/1‑110 (MQ=255)
                                                                             cccGCTGGTTGTCTCTCGCATTACTGACCAGACAGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCt                                                                     <  2:888967/110‑1 (MQ=255)
                                                                              ccGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAg                                       <  2:1137902/139‑1 (MQ=255)
                                                                               cGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                          <  1:100179/71‑1 (MQ=255)
                                                                               cGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                          >  2:100179/1‑71 (MQ=255)
                                                                               cGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGt                                      >  2:627564/1‑139 (MQ=255)
                                                                                gCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCAc                                                                                 >  1:517085/1‑95 (MQ=255)
                                                                                gCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCAc                                                                                 <  2:517085/95‑1 (MQ=255)
                                                                                  tGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTaa                                   <  2:700938/139‑1 (MQ=255)
                                                                                   ggTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAAc                                  <  1:627564/139‑1 (MQ=255)
                                                                                   ggTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAAc                                  <  2:1068799/139‑1 (MQ=255)
                                                                                   ggTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAAc                                  <  1:935003/139‑1 (MQ=255)
                                                                                    gTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAAcc                                 <  2:1170294/139‑1 (MQ=255)
                                                                                      tGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCg                               <  2:1188649/139‑1 (MQ=255)
                                                                                      tGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCg                               <  1:15884/139‑1 (MQ=255)
                                                                                      tGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACCGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAATCCg                               <  2:796109/139‑1 (MQ=255)
                                                                                                  tACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGatcatc                   >  2:139266/1‑139 (MQ=255)
                                                                                                    cTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGt                 >  2:681549/1‑139 (MQ=255)
                                                                                                      gACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGtt                <  1:267748/138‑1 (MQ=255)
                                                                                                      gACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGtt                >  2:267748/1‑138 (MQ=255)
                                                                                                        ccAGACGGGCAAAGAACACGTTACTACTGCCCAGACTAtt                                                                                                                >  1:30802/1‑40 (MQ=255)
                                                                                                        ccAGACGGGCAAAGAACACGTTACTACTGCCCAGACTAtt                                                                                                                <  2:30802/40‑1 (MQ=255)
                                                                                                        ccAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCACTGTGGATCATCGTTGGc             <  2:343312/139‑1 (MQ=255)
                                                                                                          aGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGc                                                                 <  1:86258/85‑1 (MQ=255)
                                                                                                          aGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGc                                                                 >  2:86258/1‑85 (MQ=255)
                                                                                                            aCGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAgg                                                                                            <  1:409056/56‑1 (MQ=255)
                                                                                                            aCGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAgg                                                                                            >  2:409056/1‑56 (MQ=255)
                                                                                                                 cAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTc    >  1:397857/1‑139 (MQ=255)
                                                                                                                   aaGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTCAt  <  1:847580/139‑1 (MQ=255)
                                                                                                                                     |                                                                                                                        
AAACTGACGGAAGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGTCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTCAT  >  NC_000913/1904453‑1904706

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A