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
A97 F1 I1 R1 18 21.9 1431356 95.6% 1368376 76.0

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 =7 (0.320)24 (1.110) 21/146 0.2 84.5% coding (324/1413 nt) pykF pyruvate kinase
?REL606 = 1733295 2 (0.090)coding (331/1413 nt) pykF pyruvate kinase

CATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1733360‑1733288
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAG  <  REL606/1733295‑1733224
                                                                                                                                                 
CATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCAT                                                                       <  2:171136/76‑1
          AGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGC                                                             >  2:631340/1‑76
          AGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGC                                                             <  1:57292/76‑1
          AGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGC                                                             >  2:541698/1‑76
              CATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACC                                                         <  1:715080/76‑1
              CATCGTCAACCAGTACGGTGGTGCCAACAGACAGGTCAGTAGTGAAACCTGCATACGTTCATACGTTACCGCACCC                                                         <  2:234991/76‑1
                   TCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTC                                                    <  2:267876/76‑1
                    CAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCG                                                   >  1:60595/1‑76
                     AACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGC                                                  >  1:47893/1‑76
                      ACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCT                                                 <  2:6429/76‑1
                           TACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGC                                            >  1:522822/1‑76
                             CGGTGTTGCCAACAGACAGGTCAGTAGTGAACCCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCG                                          <  2:313228/76‑1
                                      CAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGAT                                 <  1:471717/76‑1
                                        ACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTT                               <  1:233552/76‑1
                                        ACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTT                               <  1:603714/76‑1
                                                GTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGG                       >  2:337924/1‑76
                                                   AGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGA                    >  2:695864/1‑76
                                                      AGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAG                 >  2:97170/1‑76
                                                        TGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTA               >  2:657525/1‑76
                                                             CCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGT          <  1:623485/76‑1
                                                              CTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTC         >  1:431408/1‑76
                                                               TTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCT        >  2:435041/1‑76
                                                                     CGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAG  <  2:544453/76‑1
                                                                     CGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAG  >  1:205727/1‑76
                                                                                                                                                 
CATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1733360‑1733288
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAG  <  REL606/1733295‑1733224

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 32 ≤ 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