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 |
1,042,407 |
T→G |
K131N (AAA→AAC) |
h16_A0947 ← |
Coproporphyrinogen III oxidase, Fe‑S oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,042,407 | 0 | T | G | 100.0%
| 33.9
/ NA
| 10 | K131N (AAA→AAC) | h16_A0947 | Coproporphyrinogen III oxidase, Fe‑S oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (5/5); total (5/5) |
CTTCGGCACCGCCGTGGATGCGCCCGAGCGCCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGTTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAGGCTGGGCGTGCCGCCGCCGATA > AM260479/1042277‑1042521
|
cTTCGGCACCGCCGTGGATGCGCCCGAGCGCCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTg < 2:57210/134‑1 (MQ=255)
aGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTg > 1:341414/1‑99 (MQ=255)
aGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTg < 2:341414/99‑1 (MQ=255)
cGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAgcgcg > 1:1076346/1‑134 (MQ=255)
aGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTg > 1:556056/1‑95 (MQ=255)
aGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTg < 2:556056/95‑1 (MQ=255)
cgcgGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAgg > 1:758457/1‑134 (MQ=255)
ggCCTCGAAGGTGCCTGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAGGCTGGGCGTGCCGCCGCCGATa < 2:1076346/133‑1 (MQ=255)
ggTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGAca > 1:1070406/1‑71 (MQ=255)
ggTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGAca < 2:1070406/71‑1 (MQ=255)
|
CTTCGGCACCGCCGTGGATGCGCCCGAGCGCCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGTTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAGGCTGGGCGTGCCGCCGCCGATA > AM260479/1042277‑1042521
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
TGCGCGCTTCGGCACCGCCGTGGATGCGCCCGAGCGCCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGTTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAGGCTGGGCGTGCCGCCGCCGATAAAGACCGTATG > AM260479/1042271‑1042532
|
TGCGCGCTTCGGCACCGCCGTGGATGCGCCCGAGCGCCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCAT < GWNJ‑0478:712:GW2002102894th:2:2210:5242:56865/148‑1 (MQ=60)
CGCCCGAGCGCCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCctgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1205:14965:71201/1‑129 (MQ=60)
CCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGC > GWNJ‑0478:712:GW2002102894th:2:2213:3105:78726/1‑150 (MQ=60)
GGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCActgtctcttatacacatctccgagc > GWNJ‑0478:712:GW2002102894th:2:1216:17803:5107/1‑125 (MQ=60)
GGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAGGC > GWNJ‑0478:712:GW2002102894th:2:2113:5658:5468/1‑150 (MQ=60)
agatgtgtataagagacagCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAGGCTGGGCGTGCCGCCGCCGATAA < GWNJ‑0478:712:GW2002102894th:2:2116:5504:42470/131‑1 (MQ=60)
CTTGTCGGCCTCGAAGGTGCCGGGGTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:2213:13839:48394/1‑104 (MQ=60)
|
TGCGCGCTTCGGCACCGCCGTGGATGCGCCCGAGCGCCTGGAGGTGCCGGTCGTTGAAGCTCTGGATGCCGATCGACAGCCGGTTGATGCCGCTGGCGCGGTAGCTGGCGAACTTGTCGGCCTCGAAGGTGCCGGGTTTGGCCTCCATCGTGATCTCGGCGTCGGCATCCAGCGGCAGCAGCGCGCGGATATCCGACAGCAGCCGGTCCATGCCTGCCGCCGACAGCAGGCTGGGCGTGCCGCCGCCGATAAAGACCGTATG > AM260479/1042271‑1042532
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
