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
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
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%
| 46.4
/ 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) |
CACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGC > AM260479/1402428‑1402670
|
cACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGc < 1:634503/119‑1 (MQ=255)
cACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGc > 2:634503/1‑119 (MQ=255)
cTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCgg > 1:879024/1‑134 (MQ=255)
gCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCTGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGgc > 1:47414/1‑134 (MQ=255)
ccATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCccgggccggg < 2:879024/133‑1 (MQ=255)
cGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCTGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGgcgcc < 2:47414/133‑2 (MQ=255)
cAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGCCATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGc < 2:75717/115‑1 (MQ=255)
cAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGc > 1:75717/1‑115 (MQ=255)
cAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCcgcccgcc > 2:291583/1‑134 (MQ=255)
aaTCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCcg < 1:416931/100‑1 (MQ=255)
aaTCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCcg > 2:416931/1‑100 (MQ=255)
aGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGt < 1:1005966/64‑1 (MQ=255)
aGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGt > 2:1005966/1‑64 (MQ=255)
aGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTgcgcggc > 2:860309/1‑134 (MQ=255)
|
CACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCGCGCCGGCTTGCGCGGC > AM260479/1402428‑1402670
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCG > AM260479/1402412‑1402654
|
GGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGA < GWNJ‑0478:712:GW2002102894th:2:2108:5306:67605/150‑1 (MQ=60)
GACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGC > GWNJ‑0478:712:GW2002102894th:2:2206:9644:75883/1‑150 (MQ=60)
tttctccttttgtgtttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGC < GWNJ‑0478:712:GW2002102894th:2:2206:18809:96344/47‑1 (MQ=60)
GCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCTGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCG > GWNJ‑0478:712:GW2002102894th:2:1102:20962:28239/1‑150 (MQ=60)
acggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGC < GWNJ‑0478:712:GW2002102894th:2:2215:8975:11846/94‑1 (MQ=60)
gagatgtgtataagaGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCC < GWNJ‑0478:712:GW2002102894th:2:1210:9900:23190/135‑1 (MQ=60)
GGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGGCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCtgtc > GWNJ‑0478:712:GW2002102894th:2:1107:2942:24306/1‑146 (MQ=60)
|
GGTCGCGGACGCGCGCCACGGCCTCGTCGCGGCTGCTCACGCCCAGCTTGCGGAAGATGTTGCGCAAGTGCCATTTCACCGTCTCCGGCGACAGGCCCAGGGTGCGCGCAATCTTCTTGTTGGGCAGGCCCTGGCCGAGCAGGCGCACGACATCGGCTTCGCGGTCGCTCAGTTCCTCGAGGCGCGCGTCGGCCCGGGCCGGGCTGCCGGCGGGCGCGGCAGCCGCGGCGGTGCCGCCCGCCG > AM260479/1402412‑1402654
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
