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 |
1,402,540 |
C→G |
G893A (GGC→GCC) |
h16_A1292 ← |
ATP‑dependent transcriptional regulator,MalT‑family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,402,540 | 0 | C | G | 100.0%
| 48.8
/ NA
| 14 | G893A (GGC→GCC) | h16_A1292 | ATP‑dependent transcriptional regulator,MalT‑family |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (8/6); total (8/6) |
CGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGC > AM260479/1402415‑1402655
|
cgcggACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGcc > 1:339759/1‑133 (MQ=255)
cgcggACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGcc > 1:861728/1‑133 (MQ=255)
ctCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCg < 1:113942/132‑1 (MQ=255)
ctCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCg < 1:866680/132‑1 (MQ=255)
gCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGgc > 1:239748/1‑134 (MQ=255)
cGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGgcg < 2:339759/134‑1 (MQ=255)
aGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGcgcgcg > 2:694457/1‑134 (MQ=255)
cGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGa < 1:825806/101‑1 (MQ=255)
cGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGa > 2:825806/1‑101 (MQ=255)
ctcCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGccc > 1:327779/1‑113 (MQ=255)
ctcCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGccc < 2:327779/113‑1 (MQ=255)
aTCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCcgccgc > 1:10663/1‑134 (MQ=255)
tgGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGt > 1:84909/1‑45 (MQ=255)
tgGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGt < 2:84909/45‑1 (MQ=255)
|
CGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGC > AM260479/1402415‑1402655
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
GGTCCAGCTCGCGGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGCGCGCGGC > AM260479/1402400‑1402677
|
GGTCCAGCTCGCGGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCG > GWNJ‑0478:712:GW2002102894th:2:1207:12467:74641/1‑149 (MQ=60)
GGTCCAGCTCGCGGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCG > GWNJ‑0478:712:GW2002102894th:2:2209:14633:91554/1‑149 (MQ=60)
GCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCG > GWNJ‑0478:712:GW2002102894th:2:1116:2676:4502/1‑150 (MQ=60)
GCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGG < GWNJ‑0478:712:GW2002102894th:2:1108:18749:65986/148‑1 (MQ=60)
GCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGG < GWNJ‑0478:712:GW2002102894th:2:2206:15100:23023/148‑1 (MQ=60)
agatgtgtataagagacaGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCC < GWNJ‑0478:712:GW2002102894th:2:2204:13634:63549/132‑1 (MQ=60)
GTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCtgtctc > GWNJ‑0478:712:GW2002102894th:2:1204:5640:98165/1‑144 (MQ=60)
CACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaca > GWNJ‑0478:712:GW2002102894th:2:1216:1637:5558/1‑64 (MQ=60)
CCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCG > GWNJ‑0478:712:GW2002102894th:2:1101:6522:79197/1‑150 (MQ=60)
GCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGActgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1107:16115:79775/1‑75 (MQ=60)
CTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGG < GWNJ‑0478:712:GW2002102894th:2:2213:15215:21207/44‑1 (MQ=60)
TTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGCGCGCGGC > GWNJ‑0478:712:GW2002102894th:2:2208:5991:89250/1‑150 (MQ=60)
|
GGTCCAGCTCGCGGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGCGCGCGGC > AM260479/1402400‑1402677
|
| 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: ‑ |
