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 |
2,292,091 |
+G |
coding (36/39 nt) |
ECW_RS27980 ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,292,091 | 1 | . | G | 100.0%
| 85.0
/ NA
| 41 | V12V (GTA→GTC) | ECW_RS27980 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (10/31); total (10/31) |
GCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACC > NC_017635/2292045‑2292130
|
gCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTtatg < 1:2427676/48‑2 (MQ=255)
gCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTtatg < 2:2386008/48‑2 (MQ=255)
cGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTtatga < 1:2261679/48‑3 (MQ=255)
cccGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGcac < 2:808384/48‑1 (MQ=17)
cccGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGcac < 1:1920437/48‑1 (MQ=17)
cccTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACg < 1:2479118/48‑1 (MQ=17)
cTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgat < 2:2145027/48‑1 (MQ=17)
gTAGTCTTATTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 1:1824611/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatga < 2:2115733/47‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 1:1005078/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:1391168/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:2134369/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:2218872/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:2408773/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:275619/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:381574/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:574630/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:610048/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 2:943499/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 1:1020343/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 1:2197041/46‑1 (MQ=17)
gTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 1:874044/46‑1 (MQ=17)
tAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatgat > 2:2616223/1‑47 (MQ=17)
tAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatgat > 1:263201/1‑47 (MQ=17)
tAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatgat > 2:2035247/1‑47 (MQ=17)
gTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGAtgatga < 2:16121/47‑1 (MQ=17)
gTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAg < 2:1285544/48‑1 (MQ=17)
tCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAg > 2:1582430/1‑47 (MQ=17)
aGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGc < 1:1536138/47‑1 (MQ=17)
gTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCtt > 2:1156647/1‑48 (MQ=17)
tAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCtt > 2:1007007/1‑47 (MQ=17)
tAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtc < 1:2567127/48‑1 (MQ=17)
aGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtca < 1:1233865/47‑1 (MQ=17)
aGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtca < 2:2042113/47‑1 (MQ=17)
gCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtcatc < 1:2514836/48‑1 (MQ=14)
gCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtcatc < 2:333998/48‑1 (MQ=14)
gCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtcatc < 1:433668/48‑1 (MQ=14)
ggAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGa > 2:214543/1‑48 (MQ=11)
ggAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGa > 2:1358007/1‑48 (MQ=11)
ggAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGa > 1:1185055/1‑48 (MQ=11)
gAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGAc < 2:2202672/48‑1 (MQ=11)
gAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGAc < 1:985085/48‑1 (MQ=11)
aaGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGAcc > 1:2132748/1‑48 (MQ=11)
aaGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGAcc < 2:667906/48‑1 (MQ=11)
|
GCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACC > NC_017635/2292045‑2292130
|
| 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
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTCCTT > NC_017635/2292042‑2292138
|
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑G < M01420:84:000000000‑ABVEH:1:2114:10722:12629/51‑1 (MQ=52)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:2108:14927:25489/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:1106:25580:24047/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:1107:12968:7976/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:2112:20620:17734/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:1109:7881:18619/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:1110:10109:19425/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:2110:10311:13258/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:1112:12939:24073/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:2104:6333:7286/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:2101:7526:15311/50‑1 (MQ=53)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:2109:9340:26353/50‑1 (MQ=53)
AGAGCGGGGTTCCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:84:000000000‑ABVEH:1:2109:22907:18601/50‑1 (MQ=49)
AGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATgac < M01420:84:000000000‑ABVEH:1:2107:15997:20613/51‑4 (MQ=60)
GCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACT < M01420:84:000000000‑ABVEH:1:2106:7077:11474/51‑1 (MQ=49)
CGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTA < M01420:84:000000000‑ABVEH:1:1113:12737:20825/51‑1 (MQ=49)
GGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTA > M01420:84:000000000‑ABVEH:1:1114:26368:22831/1‑50 (MQ=49)
CCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCA < M01420:84:000000000‑ABVEH:1:2103:19972:12247/51‑1 (MQ=52)
GCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGAT < M01420:84:000000000‑ABVEH:1:2108:18494:7827/51‑1 (MQ=60)
CTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT > M01420:84:000000000‑ABVEH:1:2111:17573:7001/1‑51 (MQ=52)
CTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT > M01420:84:000000000‑ABVEH:1:2114:3492:9432/1‑51 (MQ=52)
GGTAGTCTTATTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT < M01420:84:000000000‑ABVEH:1:2102:21566:15878/49‑1 (MQ=60)
GGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATG > M01420:84:000000000‑ABVEH:1:1103:19714:10118/1‑50 (MQ=53)
GGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT < M01420:84:000000000‑ABVEH:1:2105:23203:21348/49‑1 (MQ=60)
GGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT < M01420:84:000000000‑ABVEH:1:2112:21182:27310/49‑1 (MQ=60)
GGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT < M01420:84:000000000‑ABVEH:1:2113:18802:13400/49‑1 (MQ=60)
GGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT < M01420:84:000000000‑ABVEH:1:1109:7404:20704/49‑1 (MQ=60)
GGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT < M01420:84:000000000‑ABVEH:1:1109:19210:17739/49‑1 (MQ=60)
GGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGAT < M01420:84:000000000‑ABVEH:1:1108:16528:15244/49‑1 (MQ=60)
TAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTT < M01420:84:000000000‑ABVEH:1:1114:9107:4599/50‑1 (MQ=40)
GTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCAT < M01420:84:000000000‑ABVEH:1:2108:21810:25304/51‑1 (MQ=34)
GTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCAT > M01420:84:000000000‑ABVEH:1:2110:17775:21428/1‑51 (MQ=34)
AAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATC < M01420:84:000000000‑ABVEH:1:1111:27918:16175/50‑1 (MQ=28)
AAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATC < M01420:84:000000000‑ABVEH:1:2114:26341:23692/50‑1 (MQ=28)
AGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCAT < M01420:84:000000000‑ABVEH:1:2108:13606:14738/51‑1 (MQ=25)
AGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCAT < M01420:84:000000000‑ABVEH:1:1104:11717:20598/51‑1 (MQ=25)
GGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGAC > M01420:84:000000000‑ABVEH:1:1111:14208:6529/1‑51 (MQ=12)
GGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACC > M01420:84:000000000‑ABVEH:1:2113:9472:12292/1‑51 (MQ=9)
GGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCC > M01420:84:000000000‑ABVEH:1:2105:17333:8766/1‑51 (MQ=6)
GGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCC < M01420:84:000000000‑ABVEH:1:1109:28027:13979/51‑1 (MQ=6)
GCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTC < M01420:84:000000000‑ABVEH:1:2112:12688:17243/51‑1 (MQ=0)
TATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTCCTT > M01420:84:000000000‑ABVEH:1:2109:17507:8892/1‑51 (MQ=0)
|
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTCCTT > NC_017635/2292042‑2292138
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
