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 |
2,322,414 |
A→G |
V93V (GTT→GTC) |
ECW_RS11650 ← |
head completion/stabilization protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,322,414 | 0 | A | G | 100.0%
| 55.5
/ NA
| 25 | V93V (GTT→GTC) | ECW_RS11650 | head completion/stabilization protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (20/5); total (20/5) |
AGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGAACGTCCGCCAGACGCGAAAAACCGGCAGCAATTTTCTGTT > NC_017635/2322371‑2322454
|
agtaAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGt > 1:1014585/1‑48 (MQ=255)
agtaAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGt > 2:374916/1‑48 (MQ=255)
agtaAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGt > 2:2469949/1‑48 (MQ=255)
agtaAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGt > 1:21197/1‑48 (MQ=255)
taAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGt > 2:947992/1‑46 (MQ=255)
aaaaaaCTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTcag > 1:1393384/1‑46 (MQ=11)
aaaaaaCTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTcag > 1:1440410/1‑46 (MQ=11)
aaaaaaCTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTcag > 1:1639563/1‑46 (MQ=11)
aaaaaaCTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTcag > 1:2554947/1‑46 (MQ=11)
aaaaCTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGcc < 1:1361529/48‑1 (MQ=11)
aTGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGa > 2:1382313/1‑47 (MQ=14)
gCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGaaa > 2:34043/1‑47 (MQ=14)
cACCGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCgg > 1:2606281/1‑48 (MQ=14)
ccGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCgg > 2:1671655/1‑46 (MQ=14)
ccGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGgca < 2:1674748/48‑1 (MQ=17)
cGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCgg > 1:1715300/1‑45 (MQ=14)
cGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGgcag > 2:918583/1‑48 (MQ=17)
tCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGgcagca < 1:2411054/48‑1 (MQ=17)
tCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGgcagca < 2:1823767/48‑1 (MQ=17)
cGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCaa > 1:1419068/1‑48 (MQ=17)
tGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAAttt < 1:454391/48‑1 (MQ=17)
tGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAAttt > 2:52116/1‑48 (MQ=17)
gCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAAtttt > 1:645738/1‑48 (MQ=17)
cGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAATTTTCt > 2:582181/1‑48 (MQ=14)
ccgccgGGACGTCAGCCAGACGCGAAAAACCGGCAGCAATTTTCTGtt > 1:2047140/1‑48 (MQ=14)
|
AGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGAACGTCCGCCAGACGCGAAAAACCGGCAGCAATTTTCTGTT > NC_017635/2322371‑2322454
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ 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
GTAGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGAACGTCCGCCAGACGCGAAAAACCGGCAGCAATTTTCTGTTCGCGGTACTC > NC_017635/2322369‑2322464
|
GTAGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTC > M01420:84:000000000‑ABVEH:1:1101:10738:7991/1‑51 (MQ=13)
GTAGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTC > M01420:84:000000000‑ABVEH:1:2114:23914:5295/1‑51 (MQ=13)
GTAGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTC > M01420:84:000000000‑ABVEH:1:1109:28475:19586/1‑51 (MQ=13)
GTAGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTC > M01420:84:000000000‑ABVEH:1:2114:10912:9391/1‑51 (MQ=13)
GTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGC > M01420:84:000000000‑ABVEH:1:1112:6653:24206/1‑51 (MQ=12)
GTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGC > M01420:84:000000000‑ABVEH:1:1113:13639:10088/1‑51 (MQ=12)
GTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGC > M01420:84:000000000‑ABVEH:1:1114:22992:25743/1‑51 (MQ=12)
GTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGC > M01420:84:000000000‑ABVEH:1:2108:4929:22463/1‑51 (MQ=12)
GAAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGC > M01420:84:000000000‑ABVEH:1:2112:15032:21301/1‑51 (MQ=12)
AAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGCCAG < M01420:84:000000000‑ABVEH:1:1112:3355:17705/51‑1 (MQ=12)
AACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGGACGTCAGCCAGACG > M01420:84:000000000‑ABVEH:1:2113:24647:16415/1‑51 (MQ=12)
TTCACCGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGC > M01420:84:000000000‑ABVEH:1:2109:14558:9516/1‑51 (MQ=60)
ACCGTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGC > M01420:84:000000000‑ABVEH:1:2101:4588:16982/1‑48 (MQ=60)
GTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAAT > M01420:84:000000000‑ABVEH:1:1113:10258:5367/1‑51 (MQ=60)
GTCGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAAT < M01420:84:000000000‑ABVEH:1:2107:13114:17446/51‑1 (MQ=60)
CGATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAATTT > M01420:84:000000000‑ABVEH:1:2114:7733:6877/1‑51 (MQ=60)
ATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAATTTTC > M01420:84:000000000‑ABVEH:1:1106:9730:16431/1‑51 (MQ=60)
ATGCCGTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAATTTTC < M01420:84:000000000‑ABVEH:1:1104:9043:25244/51‑1 (MQ=60)
GTCCGCCGGGACGTCAGCCAGACGCGAAAAACCGGCAGCAATTTTCTGTTC > M01420:84:000000000‑ABVEH:1:2104:11561:14532/1‑51 (MQ=60)
GACGTCAGCCAGACGCGAAAAACCGGCAGCAATTTTCTGTTCGCGGTACTC < M01420:84:000000000‑ABVEH:1:2110:8772:17756/51‑1 (MQ=32)
GACGTCAGCCAGACGCGAAAAACCGGCAGCAATTTTCTGTTCGCGGTACTC < M01420:84:000000000‑ABVEH:1:1113:15985:2369/51‑1 (MQ=32)
|
GTAGTAAAAAACTTTGATGCTTTCACCGTCGATGCCGTCCGCCGGAACGTCCGCCAGACGCGAAAAACCGGCAGCAATTTTCTGTTCGCGGTACTC > NC_017635/2322369‑2322464
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
