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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
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%
| 79.7
/ NA
| 19 | coding (7/390 nt) | h16_A1095 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (9/10); total (9/10) |
CCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGA > AM260479/1191664‑1191848
|
ccTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGActct < 1:875306/134‑1 (MQ=255)
tGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGc > 1:780878/1‑92 (MQ=255)
tGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGc < 2:780878/92‑1 (MQ=255)
gCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCcagcgcag < 1:645640/115‑1 (MQ=255)
gCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCcagcgcag > 2:645640/1‑115 (MQ=255)
cATGGCCAGCGTTGGCGGCGCGGCG‑‑GTCCTGCCCTTCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGcgcg > 1:30971/1‑124 (MQ=25)
cgcggcgAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCg < 2:987215/134‑1 (MQ=255)
gcggcgAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCagcagc > 1:714365/1‑129 (MQ=255)
gcggcgAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCagcagc < 2:714365/129‑1 (MQ=255)
gggCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAg > 1:806174/1‑101 (MQ=255)
gggCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAg < 2:806174/101‑1 (MQ=255)
gccgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCgc > 1:89683/1‑100 (MQ=255)
gccgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCgc < 2:89683/100‑1 (MQ=255)
cgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGa > 1:519722/1‑109 (MQ=255)
cgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGa < 2:519722/109‑1 (MQ=255)
tcctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCgc > 1:456593/1‑78 (MQ=255)
tcctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCgc < 2:456593/78‑1 (MQ=255)
cctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTaa > 2:902452/1‑62 (MQ=255)
cctGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTaa < 1:902452/62‑1 (MQ=255)
|
CCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGA > AM260479/1191664‑1191848
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
GCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCACGCT > AM260479/1191663‑1191919
|
GCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGAC < GWNJ‑0478:712:GW2002102894th:2:2207:18311:13820/150‑1 (MQ=60)
CGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCacaacaggaggactgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2203:17028:3483/1‑110 (MQ=60)
gacaGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAG < GWNJ‑0478:712:GW2002102894th:2:2109:12652:82082/146‑1 (MQ=60)
TTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGC‑‑‑GGTCCTGCCCTTCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGC > GWNJ‑0478:712:GW2002102894th:2:1105:12801:14434/1‑148 (MQ=60)
agacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGC < GWNJ‑0478:712:GW2002102894th:2:2208:17303:82231/92‑1 (MQ=60)
GCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGA > GWNJ‑0478:712:GW2002102894th:2:2112:4869:90938/1‑149 (MQ=60)
ggccagcgttggcggcgcggcggtcctgcccttCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCG > GWNJ‑0478:712:GW2002102894th:2:1212:19720:69346/34‑149 (MQ=60)
ggcCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCActgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:2202:13379:71149/4‑131 (MQ=60)
GGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCtgtctcttatacacatctc > GWNJ‑0478:712:GW2002102894th:2:1106:10979:4922/1‑131 (MQ=60)
tgcccttCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2101:19979:42927/8‑139 (MQ=60)
gcgcggcggTCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCtgtctcttatacacatctccgagcccacgagacggagctac > GWNJ‑0478:712:GW2002102894th:2:1212:20627:74420/10‑109 (MQ=60)
CTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGC > GWNJ‑0478:712:GW2002102894th:2:2101:3500:80721/1‑150 (MQ=60)
CCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCG > GWNJ‑0478:712:GW2002102894th:2:2210:16767:50699/1‑149 (MQ=60)
CTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCG > GWNJ‑0478:712:GW2002102894th:2:2205:11235:14099/1‑148 (MQ=60)
CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCACGCT < GWNJ‑0478:712:GW2002102894th:2:1103:2853:94760/150‑1 (MQ=60)
|
GCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGAC‑‑‑CGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCACGCT > AM260479/1191663‑1191919
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
