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
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,063,918 |
G→A |
P215L (CCG→CTG) |
h16_B1826 ← |
Acyl‑CoA dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,063,918 | 0 | G | A | 100.0%
| 101.6
/ NA
| 27 | P215L (CCG→CTG) | h16_B1826 | Acyl‑CoA dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/14); total (13/14) |
GCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCGGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCGC > AM260480/2063788‑2064044
|
gcgcATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCa < 1:715096/134‑1 (MQ=255)
cgcATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCAt < 2:817742/134‑1 (MQ=255)
aTGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATgg > 1:114566/1‑133 (MQ=255)
aTGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATgg > 2:701859/1‑133 (MQ=255)
cGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAg > 1:88315/1‑132 (MQ=255)
cGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCa > 2:974467/1‑107 (MQ=255)
cGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCa < 1:974467/107‑1 (MQ=255)
aTAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGc < 1:178763/132‑1 (MQ=255)
aTAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGc > 2:178763/1‑132 (MQ=255)
aGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGc < 1:701859/134‑1 (MQ=255)
gTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTc < 2:1015890/132‑1 (MQ=255)
cACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGAcc < 2:88315/133‑1 (MQ=255)
cAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCgg < 2:922416/100‑1 (MQ=255)
cAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCgg > 1:922416/1‑100 (MQ=255)
aGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACAtggt < 1:85172/134‑1 (MQ=255)
cTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCa < 1:277479/50‑1 (MQ=255)
cTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCa > 2:277479/1‑50 (MQ=255)
cACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGc > 2:875819/1‑97 (MQ=255)
cACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGc < 1:875819/97‑1 (MQ=255)
gcAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCg > 1:554895/1‑134 (MQ=255)
aTGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGt > 2:796023/1‑71 (MQ=255)
aTGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGt < 1:796023/71‑1 (MQ=255)
tGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTgcgcg > 1:584087/1‑118 (MQ=255)
tGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTgcgcg < 2:584087/118‑1 (MQ=255)
tGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGgc < 2:114566/134‑1 (MQ=255)
tGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGgc > 1:737676/1‑134 (MQ=255)
tGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCG‑‑CACCGGCGATGGTGAGCGCCATCAGGATGCCGgcgc > 1:380865/1‑134 (MQ=255)
|
GCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCGGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCGC > AM260480/2063788‑2064044
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
ACACCCCCGAACCAGCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCGGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCGCTGGCCCCTTC > AM260480/2063774‑2064054
|
aagagacaGAACCAGCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCAT < GWNJ‑0478:712:GW2002102894th:2:1115:4356:11005/141‑1 (MQ=60)
ACCCCCGAACCAGCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGA < GWNJ‑0478:712:GW2002102894th:2:1212:17305:18774/150‑1 (MQ=60)
CCCCCGAACCAGCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGA > GWNJ‑0478:712:GW2002102894th:2:1108:12556:71815/1‑149 (MQ=60)
CCCCCGAACCAGCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGA > GWNJ‑0478:712:GW2002102894th:2:2107:20172:43772/1‑149 (MQ=60)
ttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAAC < GWNJ‑0478:712:GW2002102894th:2:1105:19650:94969/81‑1 (MQ=60)
gtataagagacaGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGG < GWNJ‑0478:712:GW2002102894th:2:2213:5834:42713/138‑1 (MQ=60)
AGCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGG < GWNJ‑0478:712:GW2002102894th:2:2112:20255:44963/150‑1 (MQ=60)
tttcaagcagaagacggcatacgagatgtagctccgtctcgtgggcccggagatgtgtataagagacagGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGG < GWNJ‑0478:712:GW2002102894th:2:1203:17276:44065/80‑1 (MQ=60)
gtttttccgttatattttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGC < GWNJ‑0478:712:GW2002102894th:2:1108:8732:57468/52‑1 (MQ=60)
ATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGC > GWNJ‑0478:712:GW2002102894th:2:1106:12006:4415/1‑148 (MQ=60)
TGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1216:3009:21795/1‑135 (MQ=60)
CGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTC < GWNJ‑0478:712:GW2002102894th:2:1113:11630:52507/150‑1 (MQ=60)
AAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAAC < GWNJ‑0478:712:GW2002102894th:2:2113:4775:67268/150‑1 (MQ=60)
cggagatgtgtataagagaCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAAC < GWNJ‑0478:712:GW2002102894th:2:2206:9545:55605/130‑1 (MQ=60)
acgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGG < GWNJ‑0478:712:GW2002102894th:2:2203:2306:28709/101‑1 (MQ=60)
CTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCctgtctcttatacacatctc > GWNJ‑0478:712:GW2002102894th:2:2211:15513:45902/1‑130 (MQ=60)
CAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTC < GWNJ‑0478:712:GW2002102894th:2:1107:14424:83634/150‑1 (MQ=60)
atacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGC < GWNJ‑0478:712:GW2002102894th:2:2107:3692:97462/100‑1 (MQ=60)
GGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGC > GWNJ‑0478:712:GW2002102894th:2:2102:19988:28021/1‑150 (MQ=60)
cgtgggctcggagatgtgtataagagacaGGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGA < GWNJ‑0478:712:GW2002102894th:2:2204:7402:23751/118‑1 (MQ=60)
ATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCT > GWNJ‑0478:712:GW2002102894th:2:2104:6142:37920/1‑150 (MQ=60)
ATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCG > GWNJ‑0478:712:GW2002102894th:2:2115:2131:71876/1‑150 (MQ=60)
ATCAGGACCTGCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCG‑‑CACCGGCGATGGTGAGCGCCATCAGGATGCCGGCGCT > GWNJ‑0478:712:GW2002102894th:2:1209:10071:14161/1‑150 (MQ=60)
GCGCATGTCCGCCCAGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCGCTGGCCCCTT > GWNJ‑0478:712:GW2002102894th:2:2114:3616:48794/1‑150 (MQ=60)
gtataagagacaGGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCGCTGGCCCCTTC < GWNJ‑0478:712:GW2002102894th:2:1112:12647:11196/137‑1 (MQ=60)
|
ACACCCCCGAACCAGCGCATGCAATGCGACAGCCGCGCCGGCGACAAGCGAACCTGCGCATAACGGAAGCCCTCGTCCACCTCGCCCAGCACCTGGTCCTGCGGCACGCGCAGGCCGTCGATCAGGACCTGCGCATGTCCGCCCGGCATGGAACTGTCGATGGTGTCAAGCAGGCGTTCGATGCGGATCGCCGGATGGGGCAGGTCGACCAGGAACATGGTGGCCTGCGCGCGCTCACCATCGCCGGTGCGCGCCATCAGGATGCCGGCGCTGGCCCCTTC > AM260480/2063774‑2064054
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
