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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
978,518 |
A→G |
S117G (AGC→GGC) |
h16_B0862 → |
cytosine deaminase or related metal‑dependent hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 978,518 | 0 | A | G | 100.0%
| 70.2
/ NA
| 19 | S117G (AGC→GGC) | h16_B0862 | cytosine deaminase or related metal‑dependent hydrolase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/7); total (12/7) |
CCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCGCGC > AM260480/978436‑978646
|
ccaccTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAgg > 1:143862/1‑95 (MQ=255)
ccaccTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAgg < 2:143862/95‑1 (MQ=255)
ccaccTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCATGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTg > 1:526351/1‑133 (MQ=255)
tGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAgcg > 2:636088/1‑134 (MQ=255)
cAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCgg > 1:474185/1‑88 (MQ=255)
cAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCgg < 2:474185/88‑1 (MQ=255)
cAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAg < 1:244773/90‑1 (MQ=255)
cAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAg > 2:244773/1‑90 (MQ=255)
cAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCacctgt > 2:199358/1‑97 (MQ=255)
cAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCacctgt < 1:199358/97‑1 (MQ=255)
gCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGcc > 1:140130/1‑62 (MQ=255)
gCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGcc < 2:140130/62‑1 (MQ=255)
ccATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCgcggcg < 1:733593/106‑1 (MQ=255)
ccATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCgcggcg > 2:733593/1‑106 (MQ=255)
cgTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTg > 2:612931/1‑133 (MQ=255)
cgTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTg > 2:674448/1‑133 (MQ=255)
ggTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGcgcg > 2:343266/1‑77 (MQ=255)
ggTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGcgcg < 1:343266/77‑1 (MQ=255)
tGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTcgcgcgc > 2:517715/1‑134 (MQ=255)
|
CCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCGCGC > AM260480/978436‑978646
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
ATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCGCGCGCGGTCGCCGATGCCGGCGT > AM260480/978401‑978666
|
cgtgggctcggagatgtgtataagagacaGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCG < GWNJ‑0478:712:GW2002102894th:2:1116:19692:33132/121‑1 (MQ=60)
cggagatgtgtataagagacaGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGC < GWNJ‑0478:712:GW2002102894th:2:1112:1754:74587/128‑1 (MQ=60)
GATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCctgtctcttatacacatctccgagc > GWNJ‑0478:712:GW2002102894th:2:1111:14067:49449/1‑125 (MQ=60)
GATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCATGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGG > GWNJ‑0478:712:GW2002102894th:2:2101:19399:56008/1‑149 (MQ=60)
CACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCtgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:1215:8477:55850/1‑119 (MQ=60)
gtagctccgtctcgtgggctcggagatgtgtataagagacagCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCG < GWNJ‑0478:712:GW2002102894th:2:1207:3446:95994/107‑1 (MQ=60)
GTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtct > GWNJ‑0478:712:GW2002102894th:2:1111:16648:26814/1‑92 (MQ=60)
gtataagagacaGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGG < GWNJ‑0478:712:GW2002102894th:2:2115:11296:74600/137‑1 (MQ=60)
AGGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCGCGCGCGGTCGCCGATGCCGGCGT > GWNJ‑0478:712:GW2002102894th:2:1204:15399:5800/1‑150 (MQ=60)
|
ATGCTGCTGATGCCCGGCATGATCGACACGCACCACCACCTGACGCAGTCGTTCGGCAAGTCGCTGGTGTTCGGCGAACCATCGGAGATCTTCCGGCGCGTGTGGGTGCCGCTGGAAAGCAGCCTGAAGGCGGAGCACCTGTACCTGTCGTCCAAGCTGGCGGCGCTGGAAGCGCTGCGCGGCGGCTTCACCACCGTGGTCGATGCCGGCACGCGCAGCGACGCCGGGCTGGATGCGGTCGCGCGCGCGGTCGCCGATGCCGGCGT > AM260480/978401‑978666
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
