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
A4 F1 I1 R1 73 24.7 1166784 93.9% 1095610 107.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,756,359 T→C I221T (ATC→ACC)  pykF → pyruvate kinase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,756,3590TC100.0% 76.4 / NA 21I221T (ATC→ACC) pykFpyruvate kinase I
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (10/11);  total (10/11)

TCCTTTATTCGTAAGCGTTCTGACGTTATCGAAATCCGTGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAATCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATCCCGGTAGAAGAAGTTATCTTCGCCCAGAAGATGATG  >  NC_000913/1756271‑1756486
                                                                                        |                                                                                                                               
tCCTTTATTCGTAAGCGTTCTGACGTTATCGAAATCCGTGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAAcc                                                                                                                         <  2:573578/97‑1 (MQ=255)
tCCTTTATTCGTAAGCGTTCTGACGTTATCGAAATCCGTGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAAcc                                                                                                                         >  1:573578/1‑97 (MQ=255)
               cGTTCTGACGTTATCGAAATCCGTGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAATAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTg                                                                >  1:377391/1‑139 (MQ=255)
                    tGACGTTATCGAAATCCGTGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGcatc                                                                       >  1:160238/1‑127 (MQ=255)
                    tGACGTTATCGAAATCCGTGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGcatc                                                                       <  2:160238/127‑1 (MQ=255)
                                      tGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCg                                                                                        <  1:399081/92‑1 (MQ=255)
                                      tGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCg                                                                                        >  2:399081/1‑92 (MQ=255)
                                      tGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGaa                                         >  1:476915/1‑139 (MQ=255)
                                          cACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATcc                                     >  2:420954/1‑139 (MQ=255)
                                           aCCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATccc                                    <  1:572280/139‑1 (MQ=255)
                                             cTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGAc                                                     <  1:2744/120‑1 (MQ=255)
                                             cTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGAc                                                     >  2:2744/1‑120 (MQ=255)
                                                aaaGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATCCCGGTag                               <  2:476915/139‑1 (MQ=255)
                                                  aGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATCCCGGTag                               >  2:92876/1‑137 (MQ=255)
                                                  aGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATCCCGGTag                               <  1:92876/137‑1 (MQ=255)
                                                           cggcgAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATcc                                     <  1:262406/122‑1 (MQ=255)
                                                           cggcgAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATcc                                     >  2:262406/1‑122 (MQ=255)
                                                              cgAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGcat                                                                        <  1:579099/84‑1 (MQ=255)
                                                              cgAAAACATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGcat                                                                        >  2:579099/1‑84 (MQ=255)
                                                                 aaaCATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATCCCGGTAGAAGAAGTTATCTTCGcc              <  1:458455/139‑1 (MQ=255)
                                                                 aaaCATCCACATCATCTCCAAAACCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATCCCGGTAGAAGAAGTTATCTTCGcc              <  1:420954/139‑1 (MQ=255)
                                                                             catcGCCAAAACCGATAACCAGGACGGCGTCAACAACTTCGGTGAAATCCTCGAAGTCTCGGGCGTGTTCATGGTTGCGCGTGGCGAGCTTCGTGGATATATCCCGGTAGTAGTAGTTACCTTTGCCTAGAAgatgatg  <  1:323574/139‑1 (MQ=255)
                                                                                        |                                                                                                                               
TCCTTTATTCGTAAGCGTTCTGACGTTATCGAAATCCGTGAGCACCTGAAAGCGCACGGCGGCGAAAACATCCACATCATCTCCAAAATCGAAAACCAGGAAGGCCTCAACAACTTCGACGAAATCCTCGAAGCCTCTGACGGCATCATGGTTGCGCGTGGCGACCTGGGTGTAGAAATCCCGGTAGAAGAAGTTATCTTCGCCCAGAAGATGATG  >  NC_000913/1756271‑1756486

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