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
|
66 |
46.7 |
5280542 |
98.1% |
5180211 |
47.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
2,322,748 |
G→C |
intergenic (‑56/+44) |
ECW_RS11650 ← / ← ECW_RS11655 |
head completion/stabilization protein/terminase endonuclease subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,322,748 | 0 | G | C | 100.0%
| 26.5
/ NA
| 19 | intergenic (‑56/+44) | ECW_RS11650/ECW_RS11655 | head completion/stabilization protein/terminase endonuclease subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (12/7); total (12/7) |
AAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGC > NC_017635/2322704‑2322775
|
aaaaGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTc < 1:910531/47‑1 (MQ=11)
aaaaGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCa < 1:2279796/48‑1 (MQ=11)
aaaGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCAc > 2:2049858/1‑48 (MQ=11)
gTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGa < 1:456607/48‑1 (MQ=11)
gTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGa > 2:230051/1‑48 (MQ=11)
gTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGa < 1:701589/48‑1 (MQ=11)
gTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGa < 2:210158/48‑1 (MQ=11)
tGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTgc > 2:1978709/1‑48 (MQ=11)
aCGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTgccgc > 1:2488885/1‑48 (MQ=11)
cGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTgccgcc < 2:153596/48‑1 (MQ=11)
gCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGccc < 2:2614180/48‑1 (MQ=11)
tACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcg > 1:1294654/1‑48 (MQ=11)
tACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcg > 1:1972418/1‑48 (MQ=11)
tACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcg > 1:2553648/1‑48 (MQ=11)
aCAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcgc > 2:286283/1‑48 (MQ=11)
aCAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcgc > 2:2190977/1‑48 (MQ=11)
aCAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcgc > 1:509743/1‑48 (MQ=11)
aCAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcgc > 1:2534793/1‑48 (MQ=11)
aCAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcgc > 1:1383250/1‑48 (MQ=11)
|
AAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGC > NC_017635/2322704‑2322775
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTCGGTTGTTAAC > NC_017635/2322698‑2322796
|
CCTCTGAGAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCC < M01420:84:000000000‑ABVEH:1:2110:8762:16375/51‑1 (MQ=60)
CCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCC < M01420:84:000000000‑ABVEH:1:1105:17107:4914/51‑1 (MQ=13)
CCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCC < M01420:84:000000000‑ABVEH:1:2110:9001:6612/51‑1 (MQ=13)
CCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCC > M01420:84:000000000‑ABVEH:1:2110:25164:15614/1‑51 (MQ=13)
CTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTC > M01420:84:000000000‑ABVEH:1:2110:12896:17451/1‑50 (MQ=13)
TGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCAC > M01420:84:000000000‑ABVEH:1:2111:9059:26283/1‑51 (MQ=12)
GAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACT < M01420:84:000000000‑ABVEH:1:2106:2593:14909/51‑1 (MQ=12)
GAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCAC < M01420:84:000000000‑ABVEH:1:1108:6694:22411/50‑1 (MQ=12)
GAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCA < M01420:84:000000000‑ABVEH:1:2114:25381:19588/49‑1 (MQ=23)
AGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACC < M01420:84:000000000‑ABVEH:1:1104:24273:25854/51‑1 (MQ=60)
AGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACC < M01420:84:000000000‑ABVEH:1:1107:20377:3085/51‑1 (MQ=60)
GGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCC > M01420:84:000000000‑ABVEH:1:2113:4714:9095/1‑51 (MQ=12)
GGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCC > M01420:84:000000000‑ABVEH:1:2108:15796:9841/1‑51 (MQ=12)
GGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGC > M01420:84:000000000‑ABVEH:1:2103:17881:22443/1‑51 (MQ=6)
GGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGC > M01420:84:000000000‑ABVEH:1:1112:8518:3920/1‑51 (MQ=6)
GGTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGC > M01420:84:000000000‑ABVEH:1:2108:22479:22189/1‑51 (MQ=6)
GTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGCG > M01420:84:000000000‑ABVEH:1:2108:13723:18491/1‑51 (MQ=3)
GTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGCG > M01420:84:000000000‑ABVEH:1:1105:26464:12798/1‑51 (MQ=3)
GTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGCG > M01420:84:000000000‑ABVEH:1:1112:26402:21964/1‑51 (MQ=3)
GTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCG > M01420:84:000000000‑ABVEH:1:1109:18847:6391/1‑51 (MQ=0)
AGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTC < M01420:84:000000000‑ABVEH:1:1108:9134:24371/51‑1 (MQ=0)
AGGTGATTCACCCTCACTGACCGGCGTGCCGCCCCGGCGCGGGGCGCCTTC > M01420:84:000000000‑ABVEH:1:2110:16028:3951/1‑51 (MQ=0)
GGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCcatcg > M01420:84:000000000‑ABVEH:1:2104:24067:21783/1‑46 (MQ=0)
TGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTCGGT > M01420:84:000000000‑ABVEH:1:2108:21316:15323/1‑51 (MQ=0)
GATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTCGGTT < M01420:84:000000000‑ABVEH:1:2114:11838:5072/51‑1 (MQ=0)
ATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTCGGTTG > M01420:84:000000000‑ABVEH:1:1104:12188:17545/1‑51 (MQ=0)
CACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTCGGTTGTTA < M01420:84:000000000‑ABVEH:1:2109:5584:20777/51‑1 (MQ=0)
CCCTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTCGGTTGTTAAC < M01420:84:000000000‑ABVEH:1:2105:21024:13018/51‑1 (MQ=0)
|
CCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGGGCGCATTCGGTTGTTAAC > NC_017635/2322698‑2322796
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
