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
A1 F1 I2 R1 65 21.2 1002576 96.5% 967485 111.4

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% 77.2 / NA 21V231A (GTC→GCC) manZmannose‑specific enzyme IID component of PTS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (11/10);  total (11/10)

AGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGTCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTCATCGGTATCGCTGGT  >  NC_000913/1904464‑1904719
                                                                                                                          |                                                                                                                                     
aGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                                       <  2:486922/139‑1 (MQ=255)
         tATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATg                                                                                                              >  1:174251/1‑139 (MQ=255)
                     gTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGa                                                                                                                                  >  1:113601/1‑107 (MQ=255)
                     gTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGa                                                                                                                                  <  2:113601/107‑1 (MQ=255)
                      tttGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTAc                                                                                                 >  2:278886/1‑139 (MQ=255)
                                gggCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCActgctgct                                                                                       >  2:123832/1‑139 (MQ=255)
                                     ttGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCt                                                                                  <  1:135709/139‑1 (MQ=255)
                                          tAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCt                                                                             <  1:254414/139‑1 (MQ=255)
                                              aaGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTa                                                                         <  1:302691/139‑1 (MQ=255)
                                                          gTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGcc                                                                                                            >  1:261301/1‑92 (MQ=255)
                                                          gTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGcc                                                                                                            <  2:261301/92‑1 (MQ=255)
                                                                    cGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTg                                                                               <  1:448790/111‑1 (MQ=255)
                                                                    cGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTg                                                                               >  2:448790/1‑111 (MQ=255)
                                                                        ggTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAAc                                               <  1:66289/139‑1 (MQ=255)
                                                                                       tACTGACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGatcatc                                >  2:278095/1‑139 (MQ=255)
                                                                                           gACCAGACGGGCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACTCGCTGTGGATCATCGTTg                            <  1:278886/139‑1 (MQ=255)
                                                                                                    ggCAAAGAACACGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCg                   >  2:196/1‑139 (MQ=255)
                                                                                                      cAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                                       >  2:220647/1‑37 (MQ=255)
                                                                                                      cAAAGAACACGTTACTACTGCCCAGACTATTCTGGAc                                                                                                                       <  1:220647/37‑1 (MQ=255)
                                                                                                               cGTTACTACTGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTCATCGGTATc        >  1:320751/1‑139 (MQ=255)
                                                                                                                     tactGCCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTCATCGGTATCGCTGGt  >  2:46199/1‑139 (MQ=255)
                                                                                                                          |                                                                                                                                     
AGGGGCGTCTATCCTCGGCCTGTTTGTCATGGGGGCATTGGTTAACAAGTGGACACATGTCAACATCCCGCTGGTTGTCTCTCGCATTACTGACCAGACGGGCAAAGAACACGTTACTACTGTCCAGACTATTCTGGACCAGTTAATGCCAGGCCTGGTACCACTGCTGCTGACCTTTGCTTGTATGTGGCTACTGCGCAAAAAAGTTAACCCGCTGTGGATCATCGTTGGCTTCTTCGTCATCGGTATCGCTGGT  >  NC_000913/1904464‑1904719

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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