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 |
2,312,971 |
G→A |
G136G (GGC→GGT) |
ECW_RS11560 ← |
phage tail sheath protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,312,971 | 0 | G | A | 100.0%
| 44.1
/ NA
| 29 | G136G (GGC→GGT) | ECW_RS11560 | phage tail sheath protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (8/21); total (8/21) |
ATGCCAGTGCAACAGCCACCTCTTTGGTATCCAGTCCCGGCACGCCGAGAATACGCGGTTTAACACCGGTTACC > NC_017635/2312928‑2313001
|
aTGCCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACAcc > 2:675829/1‑46 (MQ=11)
ccAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCaaga < 2:334973/47‑1 (MQ=11)
ccAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCaaga < 1:1754046/47‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 2:2361106/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 2:320801/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 2:590040/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 1:620825/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 2:611327/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 2:885426/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 1:237836/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 1:2258624/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 1:2185859/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 1:1356751/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAt < 1:1203715/48‑1 (MQ=11)
cAGTGCAACAGCCACCTCCTTGGTATCCAGCCCCGGCACACCAAGAAt < 1:1739519/48‑1 (MQ=11)
tGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAcg > 2:2389897/1‑48 (MQ=11)
gCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAcgc > 2:45403/1‑48 (MQ=11)
gCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAcgc > 2:259884/1‑48 (MQ=11)
gCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAcgc > 1:1311448/1‑48 (MQ=11)
gCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAcgc > 2:2312469/1‑48 (MQ=11)
gCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAcgc > 2:1668007/1‑48 (MQ=11)
aaCAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCgg < 2:191075/48‑1 (MQ=11)
aCAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGt < 1:2453886/48‑1 (MQ=11)
gCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTa < 2:1863582/48‑1 (MQ=11)
gCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTa < 1:605305/48‑1 (MQ=11)
gCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTa < 2:843252/48‑1 (MQ=11)
cACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTAac < 2:2038753/48‑1 (MQ=11)
cACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTAac < 2:1516810/48‑1 (MQ=11)
tATCCAGCCCCGGCACACCAAGAATACGCGGTTTAACACCGGTTAcc > 1:446102/1‑47 (MQ=11)
|
ATGCCAGTGCAACAGCCACCTCTTTGGTATCCAGTCCCGGCACGCCGAGAATACGCGGTTTAACACCGGTTACC > NC_017635/2312928‑2313001
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCAGTGCAACAGCCACCTCTTTGGTATCCAGTCCCGGCACGCCGAGAATACGCGGTTTAACACCGGTTACCGACTCTGCCGCCAGC > NC_017635/2312930‑2313016
|
GCCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAAT < M01420:84:000000000‑ABVEH:1:2101:18717:25265/50‑1 (MQ=11)
CCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:1103:10288:4158/51‑1 (MQ=11)
CCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:2111:10636:14828/51‑1 (MQ=11)
CCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:2106:12096:10888/51‑1 (MQ=11)
CCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:2105:9952:19075/51‑1 (MQ=11)
CCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:1112:6955:16798/51‑1 (MQ=11)
CCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:1111:20079:10441/51‑1 (MQ=11)
CCAGTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:1106:20176:11674/51‑1 (MQ=11)
CCAGTGCAACAGCCACCTCCTTGGTATCCAGCCCCGGCACACCAAGAATAC < M01420:84:000000000‑ABVEH:1:2101:22232:21811/51‑1 (MQ=10)
GTGCAACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCG > M01420:84:000000000‑ABVEH:1:1112:11659:8125/1‑51 (MQ=11)
AACAGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTT < M01420:84:000000000‑ABVEH:1:2107:18773:26940/51‑1 (MQ=47)
AGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTAAC < M01420:84:000000000‑ABVEH:1:1106:10475:8535/51‑1 (MQ=47)
AGCCACCTCTTTGGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTAAC > M01420:84:000000000‑ABVEH:1:2111:12648:9065/1‑51 (MQ=47)
GGTATCCAGCCCCGGCACACCAAGAATACGCGGTTTAACACCGGTTACCG > M01420:84:000000000‑ABVEH:1:1104:15257:23241/1‑50 (MQ=8)
GTCCCGGCACGCCGAGAATACGCGGTTTAACACCGGTTACCGACTCTGCCG > M01420:84:000000000‑ABVEH:1:2109:15841:7890/1‑51 (MQ=0)
CGGCACGCCGAGAATACGCGGTTTAACACCGGTTACCGACTCTGCCGCC > M01420:84:000000000‑ABVEH:1:2113:22942:25030/1‑49 (MQ=0)
ACACCAAGAATACGCGGTTTAACACCGGTTACCGACTCTGCCGCCAGC > M01420:84:000000000‑ABVEH:1:1102:20381:22460/1‑48 (MQ=0)
|
GCCAGTGCAACAGCCACCTCTTTGGTATCCAGTCCCGGCACGCCGAGAATACGCGGTTTAACACCGGTTACCGACTCTGCCGCCAGC > NC_017635/2312930‑2313016
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
