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 |
|
A1 F1 I1 R1
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
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%
| 53.6
/ 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) |
CGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGA > AM260479/1191652‑1191892
|
cgGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCcgcg < 1:395352/134‑1 (MQ=255)
ggCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCt > 1:350764/1‑134 (MQ=255)
gCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCgc < 1:809253/134‑1 (MQ=255)
gCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCg > 1:872356/1‑133 (MQ=255)
cgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGc > 1:769833/1‑69 (MQ=255)
cgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGc < 2:769833/69‑1 (MQ=255)
cgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCg > 1:464472/1‑123 (MQ=255)
cgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCg < 2:464472/123‑1 (MQ=255)
ccGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGActct < 1:532912/55‑1 (MQ=255)
ccGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGActct > 2:532912/1‑55 (MQ=255)
ctcctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCacga > 2:812705/1‑134 (MQ=255)
ctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGAc > 1:822486/1‑52 (MQ=255)
ctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGAc < 2:822486/52‑1 (MQ=255)
|
CGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGA > AM260479/1191652‑1191892
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ 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
GCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCAC > AM260479/1191651‑1191916
|
GCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCC < GWNJ‑0478:712:GW2002102894th:2:1211:3323:16224/150‑1 (MQ=60)
aagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagaCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGAC < GWNJ‑0478:712:GW2002102894th:2:2101:18827:101087/88‑1 (MQ=60)
gacaacttttgctagttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGG < GWNJ‑0478:712:GW2002102894th:2:2201:2289:96972/57‑1 (MQ=60)
TTCCCGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTC > GWNJ‑0478:712:GW2002102894th:2:1206:16886:43085/1‑150 (MQ=60)
caacaggaggaggatcgccagcgggcCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCC > GWNJ‑0478:712:GW2002102894th:2:2106:13213:15326/27‑150 (MQ=60)
GCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGC > GWNJ‑0478:712:GW2002102894th:2:2206:16826:60632/1‑149 (MQ=60)
ACCGCCATGGCCAGCGTTGGCGGCGCGGC‑‑‑GGTCCTGCCCTTCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGC < GWNJ‑0478:712:GW2002102894th:2:2201:13521:35096/150‑1 (MQ=60)
GGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCctgtctcttatacacatctcccagcccacgagccggagctaaaactcgtat > GWNJ‑0478:712:GW2002102894th:2:2116:12703:80404/1‑99 (MQ=60)
GGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCG > GWNJ‑0478:712:GW2002102894th:2:1215:1477:6617/1‑149 (MQ=60)
AGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGC < GWNJ‑0478:712:GW2002102894th:2:2202:14316:51545/150‑1 (MQ=60)
CTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttga > GWNJ‑0478:712:GW2002102894th:2:2204:4816:42340/1‑82 (MQ=60)
GTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCAC > GWNJ‑0478:712:GW2002102894th:2:1111:8094:35626/1‑150 (MQ=60)
|
GCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCAC > AM260479/1191651‑1191916
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
