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 |
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%
| 46.5
/ NA
| 13 | S39T (AGC→ACC) | h16_A0555 | zinc metalloprotease |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (8/5); total (8/5) |
GGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCC > AM260479/581694‑581941
|
ggCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGcc > 2:119588/1‑134 (MQ=255)
gcTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCcgc > 2:472099/1‑134 (MQ=255)
gcggcggcCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGc > 2:1007758/1‑134 (MQ=255)
gcgcCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACaa > 2:241553/1‑134 (MQ=255)
cgggggCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGc > 1:540957/5‑116 (MQ=255)
cgggggCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGc < 2:540957/112‑1 (MQ=255)
ggCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGa < 1:241553/134‑1 (MQ=255)
cGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGc < 1:837252/86‑1 (MQ=255)
cGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGc > 2:837252/1‑86 (MQ=255)
ggCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGc > 1:961958/1‑62 (MQ=255)
ggCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGc < 2:961958/62‑1 (MQ=255)
ggCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGt > 1:321313/1‑134 (MQ=255)
ccccGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTcc < 1:1007758/134‑1 (MQ=255)
|
GGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCC > AM260479/581694‑581941
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ 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
CTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAACAA > AM260479/581757‑581964
|
gtctcgtgggctcggagatgtgtataagagacagAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGAC < GWNJ‑0478:712:GW2002102894th:2:2205:11474:38272/116‑1 (MQ=60)
ggcgggcaccggctgcgggGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACctgt > GWNJ‑0478:712:GW2002102894th:2:2103:6765:58075/20‑146 (MQ=60)
CGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGG < GWNJ‑0478:712:GW2002102894th:2:1116:12109:14636/150‑1 (MQ=60)
GGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtct > GWNJ‑0478:712:GW2002102894th:2:2212:10870:100655/1‑92 (MQ=60)
GGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTC > GWNJ‑0478:712:GW2002102894th:2:1204:6237:54468/1‑150 (MQ=60)
GCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGC > GWNJ‑0478:712:GW2002102894th:2:1206:12243:56182/1‑150 (MQ=60)
GCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGC < GWNJ‑0478:712:GW2002102894th:2:2215:14210:52265/150‑1 (MQ=60)
GCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAACAA < GWNJ‑0478:712:GW2002102894th:2:2202:6350:38966/150‑1 (MQ=60)
|
CTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAACAA > AM260479/581757‑581964
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
