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 |
|
A4 F1 I1 R1
|
73 |
24.7 |
1166784 |
93.9% |
1095610 |
107.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,350,675 |
Δ1 bp |
noncoding (99/121 nt) |
arcZ → |
sRNA positive antisense regulator of rpoS, binds Hfq |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,350,672 | 0 | C | . | 100.0%
| 127.6
/ NA
| 30 | noncoding (96/121 nt) | arcZ | sRNA positive antisense regulator of rpoS, binds Hfq |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (16/14); total (16/14) |
TCATTTAAGTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCC > NC_000913/3350550‑3350794
|
tCATTTAAGTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGt > 2:286598/1‑139 (MQ=255)
ttGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGt > 1:502600/1‑139 (MQ=255)
tGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTg > 2:57782/1‑139 (MQ=255)
tgcgGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCgggg > 1:358999/1‑110 (MQ=255)
tgcgGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCgggg < 2:358999/110‑1 (MQ=255)
tgcgGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACg > 1:37691/1‑139 (MQ=255)
gCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCttt < 1:57782/139‑1 (MQ=255)
cTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCa < 2:37691/139‑1 (MQ=255)
gTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCAc > 2:292350/1‑139 (MQ=255)
tAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCAct < 1:292350/139‑1 (MQ=255)
catcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACtcttct < 2:502600/139‑1 (MQ=255)
atcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTgg > 2:54837/1‑88 (MQ=255)
atcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTgg < 1:54837/88‑1 (MQ=255)
tcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAg < 1:119348/84‑1 (MQ=255)
tcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAg > 2:119348/1‑84 (MQ=255)
tcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCttt > 1:299542/1‑139 (MQ=255)
catAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAg < 1:321299/108‑1 (MQ=255)
catAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAg > 2:321299/1‑108 (MQ=255)
ataataATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCa > 2:14097/1‑139 (MQ=255)
taataaTTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCAt < 1:14097/139‑1 (MQ=255)
tACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCgggg > 2:399767/1‑62 (MQ=255)
tACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCgggg < 1:399767/62‑1 (MQ=255)
tACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACCCTTTCAGCACTTCTACGTCGTAACGCCACTCTTCTTCCATCCCTTCaa > 2:516336/1‑139 (MQ=255)
cgcAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTa < 1:467400/101‑1 (MQ=255)
cgcAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTa > 2:467400/1‑101 (MQ=255)
ggTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACtt > 1:85574/1‑80 (MQ=255)
ggTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACtt < 2:382262/80‑1 (MQ=255)
ggTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACtt > 1:382262/1‑80 (MQ=255)
ggTGTTGGCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACtt < 2:85574/80‑1 (MQ=255)
ggCGCAGTATTCGCGCA‑CCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGcc < 1:249588/139‑1 (MQ=255)
|
TCATTTAAGTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTAGCCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCC > NC_000913/3350550‑3350794
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ 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
N/A
