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
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
245,288 |
T→G |
L247V (TTG→GTG) |
betA2 → |
choline dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 245,288 | 0 | T | G | 100.0%
| 113.3
/ NA
| 30 | L247V (TTG→GTG) | betA2 | choline dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (16/14); total (16/14) |
GCGTGCCTACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGTTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCCCGCCGCGCA > AM260479/245158‑245403
|
gcgTGCCTACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTgg > 1:614077/1‑134 (MQ=255)
aacaaGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAAct > 1:160449/1‑134 (MQ=255)
caaGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAActgc > 1:982736/1‑134 (MQ=255)
aCCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTgcgcgcg > 1:1103403/1‑134 (MQ=255)
aCCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTgcgcgcg > 2:24993/1‑134 (MQ=255)
aCCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTgcgcgcg < 1:24993/134‑1 (MQ=255)
ggCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGa < 2:338775/105‑1 (MQ=255)
ggCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGa > 1:338775/1‑105 (MQ=255)
aaTGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGt < 2:614077/134‑1 (MQ=255)
cTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTc < 2:1103403/134‑1 (MQ=255)
cGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCGGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTcgccgc < 1:83866/134‑1 (MQ=255)
cGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGc < 1:643001/70‑1 (MQ=255)
cGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGc > 2:643001/1‑70 (MQ=255)
cGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTgcgcgcgcgc > 2:250458/1‑94 (MQ=255)
cGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTgcgcgcgcgc < 1:250458/94‑1 (MQ=255)
cGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTcgccg > 2:241463/1‑133 (MQ=255)
cGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAgctg < 1:241463/134‑1 (MQ=255)
gCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAgctgc > 2:1136844/1‑134 (MQ=255)
gcATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAgct < 1:660390/121‑1 (MQ=255)
gcATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAgct > 2:660390/1‑121 (MQ=255)
gcATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGgt < 2:182163/130‑1 (MQ=255)
gcATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGgt > 1:182163/1‑130 (MQ=255)
ggCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATg < 1:1119924/114‑1 (MQ=255)
ggCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATg > 2:1119924/1‑114 (MQ=255)
ggCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCccgc < 2:168308/134‑1 (MQ=255)
ggCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCccgc < 2:596558/134‑1 (MQ=255)
cATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCCCGCCGCGCa > 2:625042/1‑134 (MQ=255)
cATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCCCGCCGCGCa > 1:221639/1‑134 (MQ=255)
tGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACtgctgc < 1:971829/47‑1 (MQ=255)
tGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACtgctgc > 2:971829/1‑47 (MQ=255)
|
GCGTGCCTACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGTTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCCCGCCGCGCA > AM260479/245158‑245403
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ 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
GCGCTGGAACGCGGCGCGTGCCTACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGTTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCCCGCCGCGCACTTGCGCGAACATGGCATCGCCGTC > AM260479/245143‑245428
|
GCGCTGGAACGCGGCGCGTGCCTACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGT > GWNJ‑0478:712:GW2002102894th:2:2102:14657:53362/1‑150 (MQ=60)
TACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCtgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:2112:3688:34727/1‑132 (MQ=60)
TACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTG > GWNJ‑0478:712:GW2002102894th:2:1111:14395:66254/1‑150 (MQ=60)
CCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCT > GWNJ‑0478:712:GW2002102894th:2:2206:16504:78929/1‑150 (MQ=60)
acgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTG < GWNJ‑0478:712:GW2002102894th:2:2104:6492:25306/100‑1 (MQ=60)
GTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGC > GWNJ‑0478:712:GW2002102894th:2:2214:18258:10579/1‑150 (MQ=60)
CAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAcccctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1205:15050:50498/1‑132 (MQ=60)
ttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACG < GWNJ‑0478:712:GW2002102894th:2:2206:17411:15732/77‑1 (MQ=60)
GACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATC < GWNJ‑0478:712:GW2002102894th:2:1103:17381:61505/150‑1 (MQ=60)
ggctcggagatgtgtataagagacagCCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTG < GWNJ‑0478:712:GW2002102894th:2:1114:5572:33709/124‑1 (MQ=60)
tttgtttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCG < GWNJ‑0478:712:GW2002102894th:2:2214:4138:49623/69‑1 (MQ=60)
CCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCGGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGT < GWNJ‑0478:712:GW2002102894th:2:1107:16449:30073/150‑1 (MQ=60)
ATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGG > GWNJ‑0478:712:GW2002102894th:2:1110:8034:85390/1‑150 (MQ=60)
ACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGC < GWNJ‑0478:712:GW2002102894th:2:1115:21064:87525/150‑1 (MQ=60)
ACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGG < GWNJ‑0478:712:GW2002102894th:2:2107:5466:29219/149‑1 (MQ=60)
GGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGG < GWNJ‑0478:712:GW2002102894th:2:2208:15772:72440/47‑1 (MQ=60)
agacaGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGC < GWNJ‑0478:712:GW2002102894th:2:2214:7596:87593/145‑1 (MQ=60)
GTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCCCGCCGCGCAC > GWNJ‑0478:712:GW2002102894th:2:1112:9794:90699/1‑150 (MQ=60)
GGGTGCAGGTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaacacaaa > GWNJ‑0478:712:GW2002102894th:2:1105:17250:73163/1‑67 (MQ=60)
|
GCGCTGGAACGCGGCGCGTGCCTACCTGCACGGTGGCAACAAGCGCGACCGGGCCTGCAATGGCGGCCGCGCGCACCTGCGGGTGCTGACCGATACGCAGGCGCTGCGCATAGTCTTCGAAGGCCGCCATGCGGCCGGGGTGCAGTTGGTGCGCGAGGGCCACCGGCAACTGCTGCGCGCGCGCCGCGACGTGATCGTGTGCGCGGGCACGTTCGGCTCGCCGCAGCTGCTGATGGTGTCGGGCGTCGGCCCCGCCGCGCACTTGCGCGAACATGGCATCGCCGTC > AM260479/245143‑245428
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
