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 |
581,821 |
+C |
coding (117/1734 nt) |
h16_A0555 → |
zinc metalloprotease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 581,820 | 1 | . | C | 100.0%
| 53.6
/ NA
| 15 | S39T (AGC→ACC) | h16_A0555 | zinc metalloprotease |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (6/9); total (6/9) |
CCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGT > AM260479/581702‑581939
|
ccATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTggcgg < 1:846068/134‑1 (MQ=255)
cgcTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCcg < 2:118790/134‑1 (MQ=255)
gcgcATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAgg < 2:66833/134‑1 (MQ=255)
ggCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTg > 2:676957/1‑133 (MQ=255)
ggCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGa < 2:124596/134‑1 (MQ=255)
ggTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGaa < 1:673831/134‑1 (MQ=255)
aCGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGc < 1:514879/67‑1 (MQ=255)
aCGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGc > 2:514879/1‑67 (MQ=255)
ccgcGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCggg < 1:676957/134‑1 (MQ=255)
cgcgCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCgg > 1:178233/1‑66 (MQ=255)
cgcgCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCgg < 2:178233/66‑1 (MQ=255)
ggCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGcc > 1:351323/1‑67 (MQ=255)
ggCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGcc < 2:351323/67‑1 (MQ=255)
ggCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGt > 1:484096/1‑134 (MQ=255)
ggCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGt > 2:970205/1‑134 (MQ=255)
|
CCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGT > AM260479/581702‑581939
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ 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
GCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAACAACG > AM260479/581701‑581966
|
GCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGggggcctggc < GWNJ‑0478:712:GW2002102894th:2:2209:16475:31991/150‑11 (MQ=60)
gcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCT < GWNJ‑0478:712:GW2002102894th:2:2101:12766:8684/98‑1 (MQ=60)
GGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CA > GWNJ‑0478:712:GW2002102894th:2:2103:18898:98080/1‑49 (MQ=60)
GGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgcc > GWNJ‑0478:712:GW2002102894th:2:1113:14636:50515/1‑96 (MQ=60)
GGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgc > GWNJ‑0478:712:GW2002102894th:2:1206:17061:56280/1‑97 (MQ=60)
GGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTC > GWNJ‑0478:712:GW2002102894th:2:1214:6610:25646/1‑150 (MQ=60)
GGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTC < GWNJ‑0478:712:GW2002102894th:2:2110:2237:48911/150‑1 (MQ=60)
GCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTT < GWNJ‑0478:712:GW2002102894th:2:2110:13087:67430/150‑1 (MQ=60)
GCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGC > GWNJ‑0478:712:GW2002102894th:2:2103:20467:51575/1‑150 (MQ=60)
CCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGC > GWNJ‑0478:712:GW2002102894th:2:1113:8532:17050/1‑149 (MQ=60)
CAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAACAACG < GWNJ‑0478:712:GW2002102894th:2:2213:8547:79548/150‑1 (MQ=60)
|
GCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAACAACG > AM260479/581701‑581966
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
