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
A0 F0 I1 R1 715 38.4 1606192 96.6% 1551581 120.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
JC NC_000913 1,757,753 Δ5 bp coding (969‑973/1005 nt) ldtE ← murein L,D‑transpeptidase

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 17577521 (0.030)25 (0.640) 22/236 0.6 96.2% coding (974/1005 nt) ldtE murein L,D‑transpeptidase
?NC_000913 1757758 = 1 (0.030)coding (968/1005 nt) ldtE murein L,D‑transpeptidase

CGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1757622‑1757752
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTTCTGATCTACAGCCTTATTGTCT  >  NC_000913/1757758‑1757892
                                                                                                                                                                                                                                                                          
CGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATT                                                                                                                                 >  1:378027/1‑139
                          CCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCAT                                                                                                       >  2:27780/1‑139
                           CGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATT                                                                                                      >  2:623314/1‑139
                              AAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCT                                                                                                   >  2:314904/1‑139
                                       TACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGG                                                                                          <  1:482905/139‑1
                                            GTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTG                                                                                     >  1:478095/1‑139
                                            GTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTG                                                                                     >  1:145669/1‑139
                                             TGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGC                                                                                                                           <  1:248040/100‑1
                                             TGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGC                                                                                                                           >  2:248040/1‑100
                                               AAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTC                                                                                  >  1:198545/1‑139
                                                 GTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGC                                                                                                                           <  1:253662/96‑1
                                                 GTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGC                                                                                                                           >  2:253662/1‑96
                                                            CGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGA                                                                     >  1:706530/1‑139
                                                                      GCGCCATTTTTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATAC                                                           >  1:647414/1‑139
                                                                               TTTTTGTCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGA                                                  >  1:526059/1‑139
                                                                                     TCTGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATAC                                            <  2:378027/139‑1
                                                                                       TGCCGTTTACCGTTACTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAA                                          >  1:798577/1‑139
                                                                                                      CTGCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAA                           >  2:359570/1‑139
                                                                                                        GCGTCACGCGTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACT                         >  2:61757/1‑139
                                                                                                                 GTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTTCTGATCTA                >  1:588189/1‑139
                                                                                                                 GTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTT                        <  2:152093/131‑1
                                                                                                                 GTAACATATTCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTT                        >  1:152093/1‑131
                                                                                                                          TCCCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTTCTGATCTACAGCCTTAT       <  1:359570/139‑1
                                                                                                                            CCTTGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTTCTGATCTACAGCCTTATTG     <  2:198545/139‑1
                                                                                                                               TGCTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTTCTGATCTACAGCCTTATTGTCT  >  2:555884/1‑139
                                                                                                                                                                                                                                                                          
CGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1757622‑1757752
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGATACCCTGCCCGACGATACAACGCTTTATCGACTAACTTCTGATCTACAGCCTTATTGTCT  >  NC_000913/1757758‑1757892

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ 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