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
A11 F1 I1 R1 757 76.1 3598070 93.4% 3360597 108.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 371,542 C→T Q102* (CAA→TAA)  mhpC → 2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913371,5420CT100.0% 184.0 / NA 57Q102* (CAA→TAA) mhpC2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (28/29);  total (28/29)

ATATCGATCCGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATCAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAGT  >  NC_000913/371408‑371673
                                                                                                                                      |                                                                                                                                   
atatCGATCCGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACt                                                                                                                                 >  2:86175/1‑139 (MQ=255)
      aTCCGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGatat                                                                                                                           <  1:658543/139‑1 (MQ=255)
         cGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGc                                                                                                                        >  2:696985/1‑139 (MQ=255)
           cTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCa                                                                                                                      <  1:507835/139‑1 (MQ=255)
           cTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCa                                                                                                                      >  1:430901/1‑139 (MQ=255)
           cTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCa                                                                                                                      <  2:430901/139‑1 (MQ=255)
            tGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCaa                                                                                                                     <  1:1278737/139‑1 (MQ=255)
                        gCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACctgct                                                                                                         >  2:1068934/1‑139 (MQ=255)
                            tCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                                >  1:192665/1‑128 (MQ=255)
                            tCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                                <  2:192665/128‑1 (MQ=255)
                                     ccTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATg                                                                                            <  2:1401904/139‑1 (MQ=255)
                                        gctgGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATgggg                                                                                         <  1:696985/139‑1 (MQ=255)
                                         ctgGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATggggg                                                                                        >  2:592572/1‑139 (MQ=255)
                                             aTTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGatat                                                                                                                           <  2:951434/100‑1 (MQ=255)
                                             aTTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGatat                                                                                                                           >  1:951434/1‑100 (MQ=255)
                                              ttGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCAt                                                                                   >  2:1572412/1‑139 (MQ=255)
                                              ttGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCAt                                                                                   >  2:229729/1‑139 (MQ=255)
                                                 tCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGc                                                                                                                        <  2:1033089/99‑1 (MQ=255)
                                                 tCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGc                                                                                                                        >  1:1033089/1‑99 (MQ=255)
                                                  ccGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGtt                                                                               <  1:1787700/139‑1 (MQ=255)
                                                  ccGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGtt                                                                               <  1:592572/139‑1 (MQ=255)
                                                     ggTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCtg                                                                            <  2:680013/139‑1 (MQ=255)
                                                                gagCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCaa                                                                                                   <  2:999250/105‑1 (MQ=255)
                                                                gagCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCAcc                                                                 >  1:696290/1‑139 (MQ=255)
                                                                gagCGATTCGGTCGTTAACAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCaa                                                                                                   >  1:999250/1‑105 (MQ=255)
                                                                     aTTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTaa                                                            >  2:232382/1‑139 (MQ=255)
                                                                     aTTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTaa                                                            >  1:1100549/1‑139 (MQ=255)
                                                                                         tCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                                <  1:1586334/67‑1 (MQ=255)
                                                                                         tCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                                >  2:1586334/1‑67 (MQ=255)
                                                                                          cgcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCa                                                                                                                      <  1:1106145/60‑1 (MQ=255)
                                                                                          cgcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCa                                                                                                                      >  2:1106145/1‑60 (MQ=255)
                                                                                          cgcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGtt                                                                     <  2:1166256/109‑1 (MQ=255)
                                                                                          cgcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGtt                                                                     >  1:1166256/1‑109 (MQ=255)
                                                                                          cgcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCaa                                       >  1:683232/1‑139 (MQ=255)
                                                                                            cgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCa                                        >  2:1197537/1‑136 (MQ=255)
                                                                                            cgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCa                                        <  1:1197537/136‑1 (MQ=255)
                                                                                            cgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAAc                                     <  1:756370/139‑1 (MQ=255)
                                                                                                  gATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAg                                                  <  1:1683085/120‑1 (MQ=255)
                                                                                                  gATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAg                                                  >  2:1683085/1‑120 (MQ=255)
                                                                                                    tCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTg                             >  1:1643498/1‑139 (MQ=255)
                                                                                                             aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCgg                                          >  2:1490149/1‑117 (MQ=255)
                                                                                                             aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCgg                                          <  1:1490149/117‑1 (MQ=255)
                                                                                                             aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGAt                           >  2:910469/1‑132 (MQ=255)
                                                                                                             aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGAt                           <  1:910469/132‑1 (MQ=255)
                                                                                                             aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGggcggc                    >  1:1628975/1‑139 (MQ=255)
                                                                                                             aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGggcggc                    <  2:1100549/139‑1 (MQ=255)
                                                                                                                 aTCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTa                <  1:1572412/139‑1 (MQ=255)
                                                                                                                 aTCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTa                <  2:1628975/139‑1 (MQ=255)
                                                                                                                     tGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACggg            <  1:232382/139‑1 (MQ=255)
                                                                                                                       aaaaGCGTGGTGGATTAACTGGATATCGCCAAAATCCACctg                                                                                                           >  1:129362/1‑42 (MQ=255)
                                                                                                                       aaaaGCGTGGTGGATTAACTGGATATCGCCAAAATCCACctg                                                                                                           <  2:129362/42‑1 (MQ=255)
                                                                                                                            cGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATgg                                                                                           >  2:294122/1‑53 (MQ=255)
                                                                                                                            cGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATgg                                                                                           <  1:294122/53‑1 (MQ=255)
                                                                                                                             gtggtgGATTAACTGGATATCGCCAAAATCCACCTGCTGGGc                                                                                                     >  2:1128187/1‑42 (MQ=255)
                                                                                                                             gtggtgGATTAACTGGATATCGCCAAAATCCACCTGCTGGGc                                                                                                     <  1:1128187/42‑1 (MQ=255)
                                                                                                                              tggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAg   >  2:379036/1‑139 (MQ=255)
                                                                                                                               ggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAgt  <  2:545276/139‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                   
ATATCGATCCGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATCAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAGT  >  NC_000913/371408‑371673

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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