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 F50 I2 R1 104 44.1 1376607 98.9% 1361464 150.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
JC NC_000913 2,765,463 (TATGGCAC)6→7 intergenic (‑310/+50) yfjL ← / ← yfjM CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 27654111 (0.040)21 (0.510)
+GCACTATG		 23/178 0.3 94.6% intergenic (‑258/+102) yfjL/yfjM CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein
?NC_000913 2765412 = 1 (0.020)intergenic (‑259/+101) yfjL/yfjM CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein

AGGTATCAAGCTTTTCAGGATTCCACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2765265‑2765411
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATGCTCTTTGAGCAAT  >  NC_000913/2765412‑2765558
                                                                                                                                                   ||||||||                                                                                                                                                   
AGGTATCAAGCTTTTCAGGATTCCACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCAC                                                                                                                                                         >  2:493406/1‑151
       AAGCTTTTCAGGATTCCACAAATATTGTAACCCTGACATCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCA                                                                                                                                                  <  1:375845/151‑1
           TTTTCAGGATTACACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGATCAGAGCTGAGACCGCCAACCGCACTATGGCACTA                                                                                                                                               >  1:262757/1‑150
            TTTCAGGATTCCACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATG                                                                                                                                             >  1:339670/1‑151
               CAGGATTCCACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGC                                                                                                                                           >  2:503408/1‑150
                    TTCCACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTAT                                                                                                                                      <  1:389550/150‑1
                     TCCACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATG                                                                                                                                     <  1:128296/150‑1
                         CAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACT                                                                                                                                <  1:170282/151‑1
                          AAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACT                                                                                                                                >  2:131397/1‑150
                          AAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGATCTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGTCACTATGGCAC                                                                                                                                 >  1:365189/1‑149
                              ATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGG                                                                                                                            <  2:285828/150‑1
                                        TGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCAC                                                                                                                 >  1:540848/1‑151
                                                AATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGG                                                                                                            <  2:344904/148‑1
                                                  TTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACT                                                                                                        >  1:147326/1‑150
                                                  TTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGACAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACT                                                                                                        >  1:69100/1‑150
                                                              ACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCC                                                                                             >  1:479337/1‑149
                                                                     GCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATT                                                                                      <  2:247042/149‑1
                                                                          AACTAACGTAAGGAAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCTCTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCA                                                                               <  1:583188/151‑1
                                                                                     GGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATT                                                                    <  1:518631/151‑1
                                                                                         GGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATA                                                                 >  1:210366/1‑150
                                                                                           CACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAA                                                              <  2:123326/151‑1
                                                                                               GCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACA                                                          <  2:421370/151‑1
                                                                                                        AAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGC                                                 >  1:183031/1‑151
                                                                                                            TTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATT                                              >  1:91154/1‑150
                                                                                                                     taAAATAGTTCAGGGGTGGGACCGCCAACCGTCCTATGGCCCTATGGCACTATGGCACTATGGCACTATTGCACTATGGCACGATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCT                                       <  1:526624/146‑1
                                                                                                                      CAAATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTT                                   >  2:196188/1‑151
                                                                                                                        AATAGTTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGG                                 <  2:479599/151‑1
                                                                                                                           AGTTCAGAGCTGAGACCGCCAACCTCACTATGGCACTATGGCACTATGGCATTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTA                               <  2:307254/150‑1
                                                                                                                             TTCAGAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGG                            >  2:227415/1‑151
                                                                                                                                 GAGCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCAT                        <  2:313472/151‑1
                                                                                                                                   GCTGAGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATAT                      >  2:679692/1‑151
                                                                                                                                       AGACCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAACGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTC                   >  1:201677/1‑150
                                                                                                                                          CCGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATG               <  1:415634/151‑1
                                                                                                                                           CGCCAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATGC              >  2:206605/1‑151
                                                                                                                                              CAACCGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATGCTCT           >  2:451149/1‑151
                                                                                                                                                  CGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATGCTCTTTGA       <  2:372598/151‑1
                                                                                                                                                  CGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATGCTCTTTG        >  2:339607/1‑150
                                                                                                                                                       TATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATGCTCTTTGAGCAAT  >  1:571415/1‑151
                                                                                                                                                   ||||||||                                                                                                                                                   
AGGTATCAAGCTTTTCAGGATTCCACAAATATTGTAACCCTGACGTCTAATTTGGTTATATAACATACTGCCCCAACTAACGTAAGGTAGGCACAGCCTTAATCAAGGTTTTGGTTTTCAAATAGTTCAGAGCTGAGACCGCCAACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2765265‑2765411
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACTATGGCACCGCCAGCGATTGTAATCACACTTGATATTATAAAACACAGTTGCACGCATTATTTCCTGGTTGGTAGGGTCATATCTCGATGCTCTTTGAGCAAT  >  NC_000913/2765412‑2765558

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ 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