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 |
AM260479 |
1,191,771 |
Δ1 bp |
coding (5/390 nt) |
h16_A1095 ← |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,191,769 | 0 | C | . | 100.0%
| 53.3
/ NA
| 13 | coding (7/390 nt) | h16_A1095 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (7/6); total (7/6) |
GCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACG > AM260479/1191663‑1191894
|
gccTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGActc > 1:1028872/1‑134 (MQ=255)
tGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGc > 1:222243/1‑134 (MQ=255)
ggcggcGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCcagc > 1:53545/1‑96 (MQ=255)
ggcggcGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCcagc < 2:53545/96‑1 (MQ=255)
aaGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCg < 2:1028872/134‑1 (MQ=255)
gccgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCcgcg > 1:585609/1‑49 (MQ=39)
gccgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCcgcg < 2:585609/49‑1 (MQ=39)
gccgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATa > 1:530178/1‑133 (MQ=255)
gCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCcgcg < 1:869500/41‑1 (MQ=255)
gCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCcgcg > 2:869500/1‑41 (MQ=255)
cctcctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAg > 1:999892/1‑116 (MQ=255)
cctcctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAg < 2:999892/116‑1 (MQ=255)
ctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCacgacg < 2:530178/133‑1 (MQ=255)
|
GCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACG > AM260479/1191663‑1191894
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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
CGCGCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGG > AM260479/1191648‑1191913
|
gcccttcgccGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCT > GWNJ‑0478:712:GW2002102894th:2:2210:11292:32461/11‑150 (MQ=60)
ttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCC < GWNJ‑0478:712:GW2002102894th:2:2201:12103:95046/71‑1 (MQ=60)
CTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCT > GWNJ‑0478:712:GW2002102894th:2:1112:21218:85984/1‑150 (MQ=60)
tcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGC < GWNJ‑0478:712:GW2002102894th:2:1110:2445:29753/82‑1 (MQ=60)
ttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaggttgtgCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGC < GWNJ‑0478:712:GW2002102894th:2:2111:19583:31354/71‑1 (MQ=60)
GCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGctgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1102:19340:39398/1‑126 (MQ=60)
GGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaa > GWNJ‑0478:712:GW2002102894th:2:2101:20856:77534/1‑79 (MQ=60)
GGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAA > GWNJ‑0478:712:GW2002102894th:2:1215:15922:80423/1‑149 (MQ=60)
CCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCctgt > GWNJ‑0478:712:GW2002102894th:2:2208:19815:74544/1‑146 (MQ=60)
CGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGC < GWNJ‑0478:712:GW2002102894th:2:1113:15026:20886/38‑1 (MQ=60)
CTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCC > GWNJ‑0478:712:GW2002102894th:2:2109:3337:63377/1‑150 (MQ=60)
GTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaacagccttgagtgtcagcgatccggacatgtacgatc > GWNJ‑0478:712:GW2002102894th:2:1105:13548:89815/1‑38 (MQ=60)
GTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaacaaatgagtgcgacaggccactggaca > GWNJ‑0478:712:GW2002102894th:2:2203:9589:68311/1‑38 (MQ=60)
|
CGCGCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGG > AM260479/1191648‑1191913
|
| 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: ‑ |
