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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,737,510 |
T→G |
intergenic (‑227/+17) |
h16_B2423 ← / ← h16_B2424 |
periplasmic solute binding protein/Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,737,510 | 0 | T | G | 100.0%
| 50.1
/ NA
| 14 | intergenic (‑227/+17) | h16_B2423/h16_B2424 | periplasmic solute binding protein/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (6/8); total (6/8) |
CAGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAACGACAATGGCTTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGC > AM260480/2737403‑2737634
|
cAGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCg < 2:432501/134‑1 (MQ=255)
aGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACg > 1:65362/1‑113 (MQ=255)
aGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACg < 2:65362/113‑1 (MQ=255)
gcggcgCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCcgcg > 1:284986/1‑134 (MQ=255)
gcgcgcCAGCAAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAAt < 1:319631/134‑1 (MQ=255)
aCGCGCGTGTTGCCGCGCGGCGGGAATCATGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCcgc > 1:135124/1‑99 (MQ=255)
aCGCGCGTGTTGCCGCGCGGCGGGAATCATGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCcgc < 2:135124/99‑1 (MQ=255)
cgcgTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTggcgg < 2:284986/134‑1 (MQ=255)
gcggGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGt < 2:913461/134‑1 (MQ=255)
gcgacaTGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACg > 1:888769/6‑133 (MQ=255)
gcgacaTGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACg < 2:888769/128‑1 (MQ=255)
gacaTGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCggg > 1:465750/4‑124 (MQ=255)
gacaTGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCggg < 2:465750/121‑1 (MQ=255)
gacaTGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGc > 1:825182/4‑133 (MQ=255)
|
CAGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAACGACAATGGCTTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGC > AM260480/2737403‑2737634
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ 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
TGGGCCGGTGCCGGCGTGTAGGTGGCCTGCGCATGGCCAGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAACGACAATGGCTTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGCCATGGGTGCGGTGTCCGCACGCTGG > AM260480/2737366‑2737659
|
tttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAA < GWNJ‑0478:712:GW2002102894th:2:1109:8789:9280/73‑1 (MQ=60)
GGGCCGGTGCCGGCGTGTAGGTGGCCTGCGCATGGCCAGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAAC < GWNJ‑0478:712:GW2002102894th:2:1111:2436:24255/149‑1 (MQ=60)
attagcgagtgtctcgtgggctcggagatgtgtataagagacaggctggctGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATG < GWNJ‑0478:712:GW2002102894th:2:1211:7682:26376/99‑1 (MQ=60)
GGCCTGCGCATGGCCAGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGctgtctc > GWNJ‑0478:712:GW2002102894th:2:1104:13070:15473/1‑143 (MQ=60)
GCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGG > GWNJ‑0478:712:GW2002102894th:2:1201:18061:17046/1‑150 (MQ=60)
ggcgccggagttcgcccgcatCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGC < GWNJ‑0478:712:GW2002102894th:2:2204:19255:79385/128‑1 (MQ=60)
ttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacatggagtcagcgacATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGC < GWNJ‑0478:712:GW2002102894th:2:2114:2941:18693/67‑1 (MQ=60)
ccctgattcccgcCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTctgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:1110:19114:16043/14‑100 (MQ=60)
GCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtct > GWNJ‑0478:712:GW2002102894th:2:1106:13296:51065/1‑92 (MQ=60)
CGCGCGCCAGCAAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGT < GWNJ‑0478:712:GW2002102894th:2:1202:15298:36295/150‑1 (MQ=60)
GCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCATGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCctgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1109:11064:23780/1‑129 (MQ=60)
CAGGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGC > GWNJ‑0478:712:GW2002102894th:2:2202:5394:17174/1‑150 (MQ=60)
GGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1111:8591:77003/1‑67 (MQ=60)
GGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGCC > GWNJ‑0478:712:GW2002102894th:2:1210:3528:63552/1‑149 (MQ=60)
GGGACGGGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGCC > GWNJ‑0478:712:GW2002102894th:2:2114:3407:46556/1‑149 (MQ=60)
GGAGTCAGCGAC‑ATGGCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2102:11382:59527/1‑117 (MQ=60)
GCGTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGgccgggggggggcggggggcgggggcggggccgggggcgcggggggccccgccccccccccgccgcccgcccccc > GWNJ‑0478:712:GW2002102894th:2:2116:19856:41492/1‑75 (MQ=60)
GTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaac > GWNJ‑0478:712:GW2002102894th:2:1203:8195:20980/1‑68 (MQ=60)
|
TGGGCCGGTGCCGGCGTGTAGGTGGCCTGCGCATGGCCAGCGGCCGGCAGGGCAAGCGCGGCGCCCGCGAGGGCGCGCGCCAGCCAGCGCCACGCGCGTGTTGCCGCGCGGCGGGAATCAGGGACGGGAGTCAACGACAATGGCTTCAAACGGTTCATGTTTCAGGGAGTCGAGGGCGCGCCTGGAGCCGCGGCAAGGCCAACGGCAATGGCGGGCGCCTGGGTGGCGGCGGGCAGCGTGGCAGTGGCCGGGGCCGCGGGCGCCACGGCCATGGGTGCGGTGTCCGCACGCTGG > AM260480/2737366‑2737659
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
