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 |
1,191,771 |
Δ1 bp |
coding (5/390 nt) |
h16_A1095 ← |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,191,769 | 0 | C | . | 100.0%
| 68.0
/ NA
| 16 | coding (7/390 nt) | h16_A1095 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (9/7); total (9/7) |
TCGCGTCGCGCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGC > AM260479/1191642‑1191874
|
tcgcgtcgcgCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACg > 2:1011582/1‑134 (MQ=255)
gtcgcgCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCg < 2:647741/134‑1 (MQ=255)
gtcgcgCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCg < 1:78496/134‑1 (MQ=255)
gCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGa > 1:519248/1‑134 (MQ=255)
gCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCg > 2:973306/1‑132 (MQ=255)
gCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCg < 1:973306/132‑1 (MQ=255)
tGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGc > 2:357680/1‑134 (MQ=255)
ggCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGActct > 2:1001419/1‑100 (MQ=255)
ggCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGActct < 1:1001419/100‑1 (MQ=255)
gcgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCg < 1:294635/68‑1 (MQ=255)
gcgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCg > 2:294635/1‑68 (MQ=255)
cgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGccgca < 1:387323/61‑4 (MQ=255)
cgcggcgAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGccgca > 2:387323/1‑58 (MQ=255)
aCCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCg < 1:4407/51‑1 (MQ=255)
aCCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCg > 2:4407/1‑51 (MQ=255)
gccgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCcagcgcag < 2:271937/71‑1 (MQ=255)
gccgGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCcagcgcag > 1:271937/1‑71 (MQ=255)
ggCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGc > 2:1139783/1‑134 (MQ=255)
|
TCGCGTCGCGCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGC > AM260479/1191642‑1191874
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ 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
GCATCGCGTCGCGCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCACGC > AM260479/1191639‑1191918
|
aagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCacaacag < GWNJ‑0478:712:GW2002102894th:2:1206:9328:43649/91‑8 (MQ=60)
catacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagatcgccagcgggcCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGAC < GWNJ‑0478:712:GW2002102894th:2:1201:10192:66796/85‑1 (MQ=60)
CGTCGCGCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGAC < GWNJ‑0478:712:GW2002102894th:2:1104:18113:98221/150‑1 (MQ=60)
ttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCacaacaggaggag < GWNJ‑0478:712:GW2002102894th:2:1101:16216:30154/81‑14 (MQ=60)
aggaagctcgctgatttttgtgttattttattttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTC < GWNJ‑0478:712:GW2002102894th:2:2101:20001:48884/40‑1 (MQ=60)
gagatgtgtataagagacagTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGAC < GWNJ‑0478:712:GW2002102894th:2:2207:11757:85694/130‑1 (MQ=60)
GCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGAC > GWNJ‑0478:712:GW2002102894th:2:1215:15091:41040/1‑150 (MQ=60)
ACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGC < GWNJ‑0478:712:GW2002102894th:2:2206:14654:23929/150‑1 (MQ=60)
GGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:1116:20724:38324/1‑102 (MQ=60)
gctcggagatgtgtataagagacaggttgtgCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTC < GWNJ‑0478:712:GW2002102894th:2:1103:17621:42225/119‑1 (MQ=60)
CTCCTGTTGTG‑CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCctgtctcttatacacatctccgagcccacgagacactcgctaatc > GWNJ‑0478:712:GW2002102894th:2:2112:6682:76278/1‑105 (MQ=60)
CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaaacgt > GWNJ‑0478:712:GW2002102894th:2:1112:10518:49887/1‑59 (MQ=60)
CCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2215:16071:49611/1‑122 (MQ=60)
|
GCATCGCGTCGCGCGGCCTGCGCCGCCTGCAGGCGCGCGGCTTCTTCCTGCACCGCCATGGCCAGCGTTGGCGGCGCGGCGAAGGGCAGGACCGCCGCGCCGGCCCGCTGGCGATCCTCCTCCTGTTGTGCCCGCACGTGCGGCCGCGTGCACCGACTCTGCCAGCGCAGCGGACGGCGCGTAAGCGGGCAGCTCCCGCAGCAGCGCCGAAAGCCGGTCCTTGCCGTCGATAAAGCGGTCGGCCGCGTTCACGACGGCGTCTCCTGCGAGCCCGGCACGC > AM260479/1191639‑1191918
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
