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
|
61 |
39.0 |
4165548 |
97.4% |
4057243 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
2,322,282 |
A→G |
A137A (GCT→GCC) |
ECW_RS11650 ← |
head completion/stabilization protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,322,282 | 0 | A | G | 100.0%
| 43.7
/ NA
| 12 | A137A (GCT→GCC) | ECW_RS11650 | head completion/stabilization protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (6/6); total (6/6) |
CACAGCTCATCAATGGTGCTGTCAATGCTGTCAGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCGCGG > NC_017635/2322250‑2322321
|
cacaGCTCATCAATGGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCtt > 1:251278/1‑50 (MQ=255)
caGCTCATCAATGGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTgg < 2:1292756/50‑1 (MQ=255)
atcaATGGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACt < 2:409815/48‑1 (MQ=255)
aTGGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATc < 1:1131468/50‑1 (MQ=255)
aTGGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATc < 2:742704/50‑1 (MQ=255)
ggTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCa > 1:119798/1‑50 (MQ=255)
ggTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCa > 2:1632844/1‑50 (MQ=255)
ggTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCa > 2:606970/1‑50 (MQ=255)
cTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCAcgcc > 1:1833800/1‑50 (MQ=255)
cTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCAcgcc < 1:372916/50‑1 (MQ=255)
tCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCAcgccgc < 1:1340997/49‑1 (MQ=255)
aaTGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCGCgg > 2:941494/1‑49 (MQ=255)
|
CACAGCTCATCAATGGTGCTGTCAATGCTGTCAGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCGCGG > NC_017635/2322250‑2322321
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCCAGCGCATATCCCGCCACAGCTCATCAATGGTGCTGTCAATGCTGTCAGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCGCGGTAACGCT > NC_017635/2322232‑2322328
|
GCCCAGCGCATATCCCGCCACAGCTCATCAATGGTGCTGTCAATGCTGTCG > M01420:85:000000000‑AC936:1:1112:5040:7813/1‑51 (MQ=0)
TATCCCGCCACAGCTCATCAATGGTGCTGTCAATGCTGTCAGCCTTCTTGT > M01420:85:000000000‑AC936:1:2108:17172:9892/1‑51 (MQ=0)
CACAGCTCATCAATGGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTG > M01420:85:000000000‑AC936:1:1104:29104:12748/1‑51 (MQ=10)
AATGGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATC < M01420:85:000000000‑AC936:1:2102:16743:11910/51‑1 (MQ=32)
GGTGCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCAC > M01420:85:000000000‑AC936:1:1102:13037:17793/1‑51 (MQ=60)
GCTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCC < M01420:85:000000000‑AC936:1:1106:19468:2670/51‑1 (MQ=60)
CTGTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCG > M01420:85:000000000‑AC936:1:2111:22864:21537/1‑51 (MQ=60)
GTCAATGCTGTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCGC < M01420:85:000000000‑AC936:1:2105:5884:7857/50‑1 (MQ=33)
GTCGGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCGCGGTAACGCT < M01420:85:000000000‑AC936:1:2105:22530:5933/50‑1 (MQ=33)
|
GCCCAGCGCATATCCCGCCACAGCTCATCAATGGTGCTGTCAATGCTGTCAGCCTTCTTGTCGCCCTTGGCACTGGCATCCACGCCGCGGTAACGCT > NC_017635/2322232‑2322328
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
