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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
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%
| 31.3
/ NA
| 10 | G893A (GGC→GCC) | h16_A1292 | ATP‑dependent transcriptional regulator,MalT‑family |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (5/5); total (5/5) |
ACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGC > AM260479/1402420‑1402670
|
aCGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAg < 1:638068/134‑1 (MQ=255)
cACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGa > 2:413418/1‑134 (MQ=255)
ggAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGgcgc < 2:382866/134‑1 (MQ=255)
aGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGcgcgcg > 1:137673/1‑134 (MQ=255)
cAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCccggg > 2:253553/1‑134 (MQ=255)
cACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCcg < 1:253553/133‑1 (MQ=255)
cGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAgg < 1:275972/55‑1 (MQ=255)
cGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAgg > 2:275972/1‑55 (MQ=255)
gttgGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCt < 1:112903/133‑1 (MQ=255)
aGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTgcgcggc > 2:606723/1‑134 (MQ=255)
|
ACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGC > AM260479/1402420‑1402670
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCTGGTCCAGCTCGCGGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGCGCGCGGC > AM260479/1402397‑1402677
|
CCTGGTCCAGCTCGCGGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGC < GWNJ‑0478:712:GW2002102894th:2:2107:19228:27505/150‑1 (MQ=60)
GACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGC < GWNJ‑0478:712:GW2002102894th:2:2105:19506:49797/150‑1 (MQ=60)
aagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagTTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCT < GWNJ‑0478:712:GW2002102894th:2:1116:6782:39851/85‑1 (MQ=60)
CGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGT > GWNJ‑0478:712:GW2002102894th:2:1109:2311:26628/1‑150 (MQ=60)
TCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCC < GWNJ‑0478:712:GW2002102894th:2:1114:20771:27883/149‑1 (MQ=60)
CGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCctcgaggaactgagcgaccgcgaagccgatgtcgtgcgc < GWNJ‑0478:712:GW2002102894th:2:1208:4976:54163/150‑40 (MQ=60)
CTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGCGCGCGG > GWNJ‑0478:712:GW2002102894th:2:2115:4300:9022/1‑150 (MQ=60)
TGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGCGCGCGGC < GWNJ‑0478:712:GW2002102894th:2:1106:17188:86037/149‑1 (MQ=60)
|
CCTGGTCCAGCTCGCGGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGCGCGCGGC > AM260479/1402397‑1402677
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
