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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,081,436 |
+C |
coding (437/447 nt) |
h16_A0989 → |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,081,433 | 1 | . | C | 100.0%
| 61.4
/ NA
| 17 | G145A (GGC→GCC) | h16_A0989 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (11/6); total (11/6) |
GGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCG > AM260479/1081329‑1081560
|
ggCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGAcc > 1:134953/1‑134 (MQ=255)
cGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACg > 2:986063/1‑134 (MQ=255)
ggCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGt > 1:257723/1‑134 (MQ=255)
aTGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCgg < 1:24261/99‑1 (MQ=255)
aTGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCgg > 2:24261/1‑99 (MQ=255)
ccGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCCGGccga < 1:986063/133‑3 (MQ=255)
cGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAg < 1:333823/100‑1 (MQ=255)
cGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAg > 2:333823/1‑100 (MQ=255)
ggggCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGcc > 1:29175/1‑134 (MQ=255)
gggCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGccc > 2:963968/1‑134 (MQ=255)
gcgcAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATAcc < 1:53476/109‑1 (MQ=255)
gcgcAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATAcc > 2:53476/1‑109 (MQ=255)
tGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTgcgcc > 1:1136588/1‑133 (MQ=255)
gcgTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGAc < 1:778926/59‑1 (MQ=39)
gcgTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGAc > 2:778926/1‑59 (MQ=39)
tCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCaa > 1:763746/1‑134 (MQ=255)
gCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCg < 2:763746/134‑1 (MQ=255)
|
GGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCG > AM260479/1081329‑1081560
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ 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
GGCAGCCGGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCG > AM260479/1081294‑1081581
|
tttttcaagcagaagacggcatacgatattagcgagtgtctcgtgggctcggagatgtgtataagagacagGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGAC < GWNJ‑0478:712:GW2002102894th:2:1104:20116:39128/78‑1 (MQ=60)
GATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCT > GWNJ‑0478:712:GW2002102894th:2:1109:21245:22847/1‑150 (MQ=60)
agaagacggcatacgagtttagcgagtgtctcgtgggctcggagatgtgtataagagacagATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGAC < GWNJ‑0478:712:GW2002102894th:2:2112:9377:11882/89‑1 (MQ=60)
ggagatgtgtataagagacagTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACG < GWNJ‑0478:712:GW2002102894th:2:1103:10354:57135/129‑1 (MQ=60)
gagatgtgtataagagacaGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACC < GWNJ‑0478:712:GW2002102894th:2:1205:19326:26086/131‑1 (MQ=60)
GTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTG > GWNJ‑0478:712:GW2002102894th:2:1114:10703:64834/1‑150 (MQ=60)
ataagagacagGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:1102:10876:39047/139‑1 (MQ=60)
GGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCC > GWNJ‑0478:712:GW2002102894th:2:1103:17929:87542/1‑150 (MQ=60)
GCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCcggccgaggcttcgacgcgggc < GWNJ‑0478:712:GW2002102894th:2:2207:4133:96112/149‑23 (MQ=60)
GCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCctggacctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaagagc > GWNJ‑0478:712:GW2002102894th:2:1205:18923:3259/1‑57 (MQ=60)
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCT > GWNJ‑0478:712:GW2002102894th:2:2216:13674:69907/1‑150 (MQ=60)
GCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAAC > GWNJ‑0478:712:GW2002102894th:2:2113:17852:32182/1‑150 (MQ=60)
GC‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCtgtctcttatacacatctccgagcccacgagacactcgctaaactcgtatgccgtcttctgctt > GWNJ‑0478:712:GW2002102894th:2:1116:19893:11036/1‑86 (MQ=60)
C‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCC > GWNJ‑0478:712:GW2002102894th:2:2216:5729:90243/1‑143 (MQ=60)
|
GGCAGCCGGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCG > AM260479/1081294‑1081581
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
