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
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
963,917 |
Δ1 bp |
intergenic (+84/‑3) |
h16_B0849 → / → h16_B0850 |
Acyl‑CoA dehydrogenase/Acyl‑CoA dehydrogenase, short‑chain specific |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 963,914 | 0 | A | . | 100.0%
| 82.0
/ NA
| 19 | intergenic (+81/‑6) | h16_B0849/h16_B0850 | Acyl‑CoA dehydrogenase/Acyl‑CoA dehydrogenase, short‑chain specific |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (9/10); total (9/10) |
ACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTG > AM260480/963803‑964039
|
aCTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGaaag < 2:751967/115‑2 (MQ=255)
aCTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGaaag > 1:751967/1‑114 (MQ=255)
ctgGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAAcgcg < 1:228902/134‑1 (MQ=255)
ccTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAgcgc < 2:683362/134‑1 (MQ=255)
tGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGcgccg > 2:843628/1‑134 (MQ=255)
tGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCgcgg > 1:1164880/1‑134 (MQ=255)
ccAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTg > 2:799540/1‑134 (MQ=255)
cAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTgc < 1:589251/83‑1 (MQ=255)
cAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTgc > 2:589251/1‑83 (MQ=255)
cAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTAc < 1:451773/106‑1 (MQ=255)
cAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTAc > 2:451773/1‑106 (MQ=255)
aCCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGc < 1:233841/134‑1 (MQ=255)
cTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCAc > 1:998322/1‑134 (MQ=255)
ccAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCg > 1:317839/1‑133 (MQ=255)
aaCGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGaaa > 1:483682/1‑134 (MQ=255)
aCGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTtct < 1:350797/103‑1 (MQ=255)
aCGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTtct > 2:350797/1‑103 (MQ=255)
aCGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGggc < 2:483682/134‑1 (MQ=255)
cGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGggct < 2:1164880/134‑1 (MQ=255)
aTGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGt < 2:998322/134‑1 (MQ=255)
tgctgcAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTg < 2:317839/134‑1 (MQ=255)
|
ACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTG > AM260480/963803‑964039
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCATTGCCGGCGGCTCCAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCT > AM260480/963769‑964032
|
CCATTGCCGGCGGCTCCAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAG < GWNJ‑0478:712:GW2002102894th:2:2108:3782:90928/149‑1 (MQ=60)
cggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCG < GWNJ‑0478:712:GW2002102894th:2:2115:8098:44869/96‑1 (MQ=60)
atttttccgttgtgtttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGC < GWNJ‑0478:712:GW2002102894th:2:2214:17587:33163/55‑1 (MQ=60)
agtgtctcgtgggctcggagatgtgtataagagacaGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAAC < GWNJ‑0478:712:GW2002102894th:2:2101:14939:94302/114‑1 (MQ=60)
CGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCtgtc > GWNJ‑0478:712:GW2002102894th:2:2110:13123:32671/1‑146 (MQ=60)
attttagtttcgtattccgagggtttttttaattttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGG < GWNJ‑0478:712:GW2002102894th:2:2214:11352:52301/42‑1 (MQ=60)
GCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGC < GWNJ‑0478:712:GW2002102894th:2:1115:6543:27440/150‑1 (MQ=60)
gtataagagacaGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGC < GWNJ‑0478:712:GW2002102894th:2:1210:14463:2296/137‑1 (MQ=60)
GTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGC > GWNJ‑0478:712:GW2002102894th:2:2216:2892:84626/1‑150 (MQ=60)
tttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGAT < GWNJ‑0478:712:GW2002102894th:2:1214:4881:60155/79‑1 (MQ=60)
AACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCAC < GWNJ‑0478:712:GW2002102894th:2:1115:2050:51413/150‑1 (MQ=60)
ACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACT > GWNJ‑0478:712:GW2002102894th:2:2207:8289:68353/1‑150 (MQ=60)
atgtgtataagagacagCACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGC < GWNJ‑0478:712:GW2002102894th:2:1204:16980:24417/133‑1 (MQ=60)
GAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGA > GWNJ‑0478:712:GW2002102894th:2:1202:21122:15572/1‑149 (MQ=60)
ACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAAT > GWNJ‑0478:712:GW2002102894th:2:1213:15031:66538/1‑150 (MQ=60)
TGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACctgtctcttatacccatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgacaaaaaaaacgcgaacaacgta > GWNJ‑0478:712:GW2002102894th:2:2115:12287:66991/1‑60 (MQ=60)
TGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaagaaaacaa > GWNJ‑0478:712:GW2002102894th:2:1206:14508:17581/1‑60 (MQ=60)
gtataagagacaGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCT < GWNJ‑0478:712:GW2002102894th:2:1215:2336:38814/137‑1 (MQ=60)
|
CCATTGCCGGCGGCTCCAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCT > AM260480/963769‑964032
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
