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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
3,529,607 |
+C |
intergenic (‑121/‑183) |
secA ← / → h16_A3265 |
preprotein translocase subunit SecA/Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,529,606 | 1 | . | C | 100.0%
| 107.1
/ NA
| 29 | intergenic (‑120/‑184) | secA/h16_A3265 | preprotein translocase subunit SecA/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (15/14); total (15/14) |
CGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGC > AM260479/3529477‑3529730
|
cGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccg < 1:492959/134‑3 (MQ=255)
tCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGt < 1:314128/133‑1 (MQ=255)
gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccg > 1:210932/1‑102 (MQ=255)
gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccg < 2:210932/104‑3 (MQ=255)
gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGcc > 2:741699/1‑118 (MQ=255)
gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGcc < 1:741699/118‑1 (MQ=255)
cGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGggcaggca < 1:629565/134‑1 (MQ=255)
gcACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTg > 2:73654/1‑134 (MQ=255)
ggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcg < 1:648253/134‑1 (MQ=255)
ctgctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGc > 2:863475/1‑117 (MQ=255)
ctgctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGc < 1:863475/117‑1 (MQ=255)
ctgctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcgcg > 1:591198/1‑134 (MQ=255)
ggcggcCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCaa < 2:992743/94‑1 (MQ=255)
ggcggcCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCaa > 1:992743/1‑94 (MQ=255)
cgcAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGcc > 1:888901/1‑54 (MQ=255)
cgcAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGcc < 2:888901/54‑1 (MQ=255)
cgcAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTgcg < 1:148378/134‑1 (MQ=255)
aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCa > 2:870350/1‑134 (MQ=255)
ccGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCg < 2:326621/81‑1 (MQ=255)
ccGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCg > 1:326621/1‑81 (MQ=255)
gTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCca > 2:896401/1‑132 (MQ=255)
cGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgcc > 1:960007/1‑134 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGAtt < 2:38439/86‑1 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGAtt > 1:38439/1‑86 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAt > 2:533301/1‑112 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAt < 1:533301/112‑1 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTg > 1:599217/1‑114 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTg < 2:599217/114‑1 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccg < 1:870350/134‑1 (MQ=255)
gtgTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccgc > 1:80257/3‑134 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGAtt < 2:549212/85‑1 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGAtt > 1:549212/1‑85 (MQ=255)
|
CGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGC > AM260479/3529477‑3529730
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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
CCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCCGCAGCTTCAATCC > AM260479/3529476‑3529744
|
CCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCC < GWNJ‑0478:712:GW2002102894th:2:1214:18090:73891/150‑1 (MQ=60)
agGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGC < GWNJ‑0478:712:GW2002102894th:2:2114:21273:49489/148‑1 (MQ=60)
GCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCtgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1115:17586:43397/1‑135 (MQ=60)
TTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGC < GWNJ‑0478:712:GW2002102894th:2:1204:14380:18175/149‑1 (MQ=60)
CCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCcttgcgg < GWNJ‑0478:712:GW2002102894th:2:2108:8238:80596/150‑8 (MQ=60)
cagccccagGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACG < GWNJ‑0478:712:GW2002102894th:2:2206:14594:38123/141‑1 (MQ=60)
CCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGT > GWNJ‑0478:712:GW2002102894th:2:2107:8159:32578/1‑150 (MQ=60)
GATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCttgcctgctgtctcttatacacatctccgagcc > GWNJ‑0478:712:GW2002102894th:2:2215:2001:6637/1‑117 (MQ=60)
GGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGA < GWNJ‑0478:712:GW2002102894th:2:2109:20968:97414/150‑1 (MQ=60)
GAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttg > GWNJ‑0478:712:GW2002102894th:2:2207:21221:97259/1‑84 (MQ=60)
GATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCtgtctcttatacacatctccgagcccacgagacggagc > GWNJ‑0478:712:GW2002102894th:2:1204:2899:99487/1‑112 (MQ=60)
GCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGT < GWNJ‑0478:712:GW2002102894th:2:1111:7192:71493/150‑1 (MQ=60)
agagacaGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGG < GWNJ‑0478:712:GW2002102894th:2:2103:6879:35602/143‑1 (MQ=60)
GAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCG > GWNJ‑0478:712:GW2002102894th:2:2213:11412:21893/1‑150 (MQ=60)
AGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCtgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:1105:10349:63054/1‑117 (MQ=60)
AGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCctgtct > GWNJ‑0478:712:GW2002102894th:2:2107:7467:82823/1‑144 (MQ=60)
GTTTATCATGTGCCGGTGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCC > GWNJ‑0478:712:GW2002102894th:2:1107:9001:44351/1‑150 (MQ=60)
GTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCtgtctcttatacacatctccgagcccacgagacg > GWNJ‑0478:712:GW2002102894th:2:2102:3050:49267/1‑116 (MQ=60)
CGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCCGCAGCTTCAATCC < GWNJ‑0478:712:GW2002102894th:2:2206:14317:82281/150‑1 (MQ=60)
|
CCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCCGCAGCTTCAATCC > AM260479/3529476‑3529744
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
