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
A2 F60 I1 R1 57 32.8 3585168 30.6% 1097061 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
JC NC_000913 4,037,218 42 bp→TTATCAACACATGAGTGTTGATCCCAATAC intergenic (+1/‑1) ileT → / → alaT tRNA‑Ile/tRNA‑Ala

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 40372172 (0.060)20 (0.780)
+TTATCAACACATGAGTGTTGATCCCAATAC		 10/216 1.1 96.2% noncoding (77/77 nt) ileT tRNA‑Ile
?NC_000913 4037260 = 0 (0.000)noncoding (1/76 nt) alaT tRNA‑Ala

GCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4037143‑4037217
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCT  >  NC_000913/4037260‑4037338
                                                                           ||||||||||||||||||||||||||||||                                                                               
gccttTAGCTCAGCTGGTTAGAGCACACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTG                                              <  2:202297/135‑1
   ttTAGCTCAGCTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAa                                           >  1:1192624/3‑139
    tTAGCTCAGCTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAag                                          >  1:1001111/2‑138
                    GAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTT                          <  1:193817/140‑1
                       CGCACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGA                       <  1:241233/140‑1
                        GCACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGAT                      <  2:240913/140‑1
                          ACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCC                    >  2:1179866/1‑140
                          ACCCCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCC                    >  1:619772/1‑140
                             CCTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGC                 <  2:414813/140‑1
                              CTGATAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCt                <  2:834224/140‑2
                                  TAAGGGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCttggc            <  2:1001111/140‑6
                                      GGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCA        >  2:553503/1‑140
                                      GGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCA        >  2:626168/1‑140
                                      GGTGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCA        >  2:777186/1‑140
                                        TGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCAtt      >  1:998237/1‑138
                                        TGAGGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCAtt      >  1:1195724/1‑138
                                           GGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCAtttgt   >  1:797699/1‑135
                                           GGTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCAtttgt   >  2:984878/1‑135
                                            GTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCAtttgtt  <  1:566582/140‑7
                                            GTCGGTGGTTCGAGTCCACTAAGGCCCACCATTATCAACACATGAGTGTTGATCCCAATACGGGGCCATAGCTCAGCTGGGAGAGCGCCTGCCTTGCAAGCAGGAGGTCAGCGGTTCGATCCCGCTTGGCTCCAtttgtt  >  2:566582/1‑134
                                                                           ||||||||||||||||||||||||||||||                                                                               
GCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4037143‑4037217
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCT  >  NC_000913/4037260‑4037338

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ 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