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 |
|
A3 F110 I0 R1
|
60 |
98.0 |
4713732 |
96.7% |
4558178 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| JC |
NC_000913 |
3,596,220 |
(TCA)3→2 |
61.9% |
coding (182‑184/927 nt) |
livH ← |
branched‑chain amino acid ABC transporter permease |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
NC_000913 |
3596215 = | 35 (0.400) | 51 (0.640) |
42/162 |
NT |
61.9% |
coding (189/927 nt) |
livH |
branched‑chain amino acid ABC transporter permease |
| ? | NC_000913 |
= 3596211 |
31 (0.390) | coding (193/927 nt) |
livH |
branched‑chain amino acid ABC transporter permease |
GCTACACCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < NC_000913/3596321‑3596215
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgatgatgGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCTTACCGC < NC_000913/3596211‑3596113
GCTACACCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCT > 1:151787/1‑100
TACACCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGA > 2:2063564/1‑100
ACACCATGGTTTACGGCATTATCGGCATGATCGACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGAT > 1:2235440/1‑100
CACCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATG < 1:1123964/100‑1
CACCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATG > 2:1445087/1‑100
CCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGAT < 1:1873404/100‑1
CCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTAAGTCTCATTTATGATCATCGCCGCGCTGATGA > 2:110907/1‑99
TGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGG < 2:877551/100‑1
GGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGC < 1:1224081/100‑1
GGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGC < 2:780556/100‑1
CGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGAT < 1:486194/100‑1
GCATTATCGGCATGATCAACTTCGCCCACCGCGAGGGTTATATGATTGGCAGCTAAGTCTCATTTATGAACATCGCCGCGCTGATGATGGGTATTGATAC > 2:1104058/1‑100
TATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGC < 1:788264/100‑1
TCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTG < 2:994196/100‑1
TCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTG < 1:1313887/100‑1
CGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGG > 2:1803164/1‑100
TGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCT > 1:660876/1‑100
ATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGG < 1:64075/100‑1
ATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGG > 1:636138/1‑100
CTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCT > 1:123355/1‑100
CTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCT < 1:26866/100‑1
TCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGC > 2:2164576/1‑100
TCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGC > 2:1563166/1‑100
CGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCG < 1:1258627/100‑1
GCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGG < 1:213621/100‑1
CCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGG < 2:1531460/100‑1
CCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGG > 1:155827/1‑100
CACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGAT < 2:973319/100‑1
ACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATT > 1:927949/1‑100
ACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATT < 2:1615541/100‑1
CGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTC > 1:358805/1‑100
CGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGAATTCGTC < 2:1235437/100‑1
AGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGG < 1:1437945/100‑1
GGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGAATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGC > 1:403483/1‑100
TATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATC > 1:578157/1‑100
TATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATC > 1:575369/1‑100
ATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGTCTGGCTGCTGGTCGCTGCGGTATTCGTCGGCGCAAT > 2:1059656/1‑98
TGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGT > 2:1888023/1‑100
TGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGT > 1:786760/1‑100
TGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGT > 1:915914/1‑100
GATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTC < 1:967646/100‑1
TTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCAT < 1:2092415/100‑1
TGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATT > 2:628210/1‑100
GGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTG > 2:632087/1‑100
TCTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTA > 1:1458726/1‑100
CTCATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTAC > 1:356452/1‑100
CATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGG > 2:2058914/1‑100
agTTATGATCAGCGCCGCGCTGATGATGGGCATTGAGACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGG < 2:468599/97‑1
ATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGC < 2:578154/100‑1
ATTTATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGC < 2:575366/100‑1
TTATGATCATCGCCGCGCTGATGATGGGCATTGAGACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTG < 1:192474/100‑1
TATGATCATCGCCGCGGTGATGAGGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGG < 2:375944/100‑1
ATGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGA > 2:982636/1‑100
TGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAG < 1:2063580/100‑1
TGATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAG < 1:1548880/100‑1
GATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGT > 1:1733905/1‑100
GATCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAG > 2:861079/1‑99
TCATCGCCGCGCTGATGATGGGCATTGATACCGGTTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTAT > 1:1778605/1‑100
TCATCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTAT > 1:900543/1‑100
TCGCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGA > 1:458092/1‑100
gtCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAAC > 2:547180/3‑100
GCCGCGCTGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAAC > 2:496675/1‑100
TGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGC < 1:1294216/100‑1
TGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGC > 2:1987053/1‑100
TGATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGC < 2:1928764/100‑1
GATGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCT < 2:123354/100‑1
TGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCTTA > 1:2022589/1‑100
TGATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCTT < 1:1331603/99‑1
GATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGATGGAGTATCGAACGGGTGGCTTA > 2:357920/1‑99
ATGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCTTACC < 1:1631101/100‑1
TGGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCTTACCG < 1:1042970/100‑1
GGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCTTACCGC > 1:835294/1‑100
GCTACACCATGGTTTACGGCATTATCGGCATGATCAACTTCGCCCACGGCGAGGTTTATATGATTGGCAGCTACGTCTCATTTATGATCATCGCCGCGCTGATGATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < NC_000913/3596321‑3596215
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgatgatgGGCATTGATACCGGCTGGCTGCTGGTAGCTGCGGGATTCGTCGGCGCAATCGTCATTGCCAGCGCCTACGGCTGGAGTATCGAACGGGTGGCTTACCGC < NC_000913/3596211‑3596113
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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
