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
A38 F1 I1 R1 17 54.1 3391312 97.1% 3292963 75.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
JC REL606 1,733,297 (CGTATGAA)1→2 coding (333/1413 nt) pykF → pyruvate kinase

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 1733288 =11 (0.200)71 (1.350) 49/146 0.1 89.5% coding (324/1413 nt) pykF pyruvate kinase
?REL606 = 1733295 6 (0.110)coding (331/1413 nt) pykF pyruvate kinase

CTTCCATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1733364‑1733288
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAGCTT  <  REL606/1733295‑1733221
                                                                                                                                                        
CTTCCATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGT                                                                              >  1:635104/1‑76
 TTCCATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTT                                                                             <  2:378522/76‑1
   CCATTCCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAATCCTTCATACGTTCA                                                                           <  2:1160115/76‑1
    CATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCAT                                                                          >  2:778536/1‑76
    CATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCAT                                                                          <  2:650988/76‑1
    CATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCAT                                                                          >  1:1620947/1‑76
      TACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATAC                                                                        >  2:1583389/1‑76
         CGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTT                                                                     >  1:1188546/1‑76
         CGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTT                                                                     <  1:73730/76‑1
         CGACCAGACCATCGTCATCCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTT                                                                     <  2:91484/76‑1
            TCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACC                                                                  >  1:1384880/1‑76
            TCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACC                                                                  >  2:5753/1‑76
             aAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCG                                                                 <  1:683883/75‑1
                ACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAA                                                              <  2:816125/76‑1
                        CAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCG                                                      >  1:391744/1‑76
                        CAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCG                                                      >  2:997551/1‑76
                          ACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCT                                                    >  1:1471785/1‑76
                          ACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCT                                                    >  1:33410/1‑76
                           CCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTG                                                   <  2:1003386/76‑1
                             AGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTT                                                 >  2:1032398/1‑76
                               TACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGC                                               >  1:1230832/1‑76
                                ACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCC                                              >  1:1452330/1‑76
                                   GTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGAT                                           <  2:263013/76‑1
                                    TGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATA                                          <  1:351122/76‑1
                                    TGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATA                                          <  2:1138933/76‑1
                                      TTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAAC                                        <  1:1090502/76‑1
                                      TTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAAC                                        <  2:544543/76‑1
                                       TGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACA                                       <  1:320286/76‑1
                                       TGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACA                                       >  1:556824/1‑76
                                       TGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACA                                       <  1:27603/76‑1
                                        GCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAG                                      >  1:468912/1‑76
                                        GCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAG                                      <  1:784889/76‑1
                                        GCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAG                                      <  1:1316423/76‑1
                                        GCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAG                                      <  2:58501/76‑1
                                         CCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGA                                     >  2:454954/1‑76
                                           AACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATT                                   >  2:488266/1‑76
                                           AACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATT                                   >  2:806442/1‑76
                                            ACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTT                                  <  2:65090/76‑1
                                            ACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTT                                  <  2:1346108/76‑1
                                            ACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTT                                  <  2:1348171/76‑1
                                              AGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTAT                                >  2:1572125/1‑76
                                                 CAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAG                             >  2:669140/1‑76
                                                  AGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGT                            <  1:1586899/76‑1
                                                    GTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGG                          >  1:97429/1‑76
                                                     TCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGT                         >  1:1062567/1‑76
                                                      CAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTG                        <  2:992472/76‑1
                                                        GTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAA                      <  1:82166/76‑1
                                                        GTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAA                      >  1:657649/1‑76
                                                         TAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAA                     <  1:71161/76‑1
                                                         TAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAA                     <  1:292761/76‑1
                                                         TAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAA                     <  1:292769/76‑1
                                                         TAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAA                     >  1:570743/1‑76
                                                          AGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAG                    >  1:63936/1‑76
                                                          AGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAG                    <  1:835634/76‑1
                                                            TGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTA                  <  2:597240/76‑1
                                                            TGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTA                  <  1:346390/76‑1
                                                             GAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAA                 <  1:1680207/76‑1
                                                              AAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAA                <  1:620239/76‑1
                                                              AAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAA                <  1:439642/76‑1
                                                                 CCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGT             <  2:118963/76‑1
                                                                  CTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTC            >  1:873844/1‑76
                                                                  CTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTC            <  1:160117/76‑1
                                                                   nTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCT           >  1:1261937/2‑76
                                                                   TTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCT           <  1:778536/76‑1
                                                                    TCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTG          >  1:1531585/1‑76
                                                                    TCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTG          >  1:35734/1‑76
                                                                     CATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGA         >  1:730572/1‑76
                                                                     CATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGA         >  2:169593/1‑76
                                                                      ATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGAC        <  1:879332/76‑1
                                                                       TACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACC       <  2:674665/76‑1
                                                                       TACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACC       <  1:1445696/76‑1
                                                                        tCGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCA      >  1:575268/2‑76
                                                                        ACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCA      <  1:106895/76‑1
                                                                            TCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGACAGTAAAGGTCTGACCAGCTT  <  1:484379/76‑1
                                                                                                                                                        
CTTCCATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1733364‑1733288
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAGCTT  <  REL606/1733295‑1733221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.

GATK/CNVnator alignment

N/A