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 |
|
A15 F70 I1 R2
|
12 |
34.5 |
799746 |
91.8% |
734166 |
135.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP000730 |
2,522,286 |
A→G |
P782P (CCT→CCC) |
nirB ← |
nitrite reductase (NAD(P)H) large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 2,522,286 | 0 | A | G | 96.3%
| 84.3
/ NA
| 27 | P782P (CCT→CCC) | nirB | nitrite reductase (NAD(P)H) large subunit |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (11/15); minor base T (0/1); total (11/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACCTTTTTTCCAATTAGGGGTGTTAATTCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAAGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGTCTTCTTAACCATGGCGCTGTTCTTTCAG > CP000730/2522154‑2522416
|
aaCCTTTTTTCCAATTAGGGGTGTTAATTCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGc > 1:309909/1‑141 (MQ=255)
ttttCCAATTAGGGGTGTTAATTCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGAc > 1:268614/1‑141 (MQ=255)
tgtTAATTCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATc > 2:397383/1‑141 (MQ=255)
tAATTCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCAt < 1:399191/141‑1 (MQ=255)
tAATTCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCAt < 2:100260/141‑1 (MQ=255)
tCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGAGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATg > 1:288168/1‑141 (MQ=255)
taGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCaa > 1:364741/1‑141 (MQ=255)
cACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTc < 2:111854/141‑1 (MQ=255)
ttAATTTTCTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCAttt < 2:319171/141‑1 (MQ=255)
aaTTTTTTTTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCATGGTTCAGCTTCGACTGCTTTTTTAGCACCCAGAATGCGTTCAAATAGTTCATTTTg < 2:357731/141‑1 (MQ=255)
aaTTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTg < 2:271050/141‑1 (MQ=255)
ttCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTc > 1:369747/1‑141 (MQ=255)
ttttGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTgg < 2:282413/141‑1 (MQ=255)
aTGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAg > 1:50626/1‑141 (MQ=255)
tGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGa < 2:248254/141‑1 (MQ=255)
gTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGAc < 1:317030/141‑1 (MQ=255)
cacCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCttt < 2:268614/141‑1 (MQ=255)
tctcCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACAt < 1:397383/141‑1 (MQ=255)
aCTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCa > 1:196778/1‑141 (MQ=255)
aCTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCa < 2:296110/141‑1 (MQ=255)
cAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATc < 2:267836/141‑1 (MQ=255)
ttCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGtc < 2:151610/141‑1 (MQ=255)
gTGCTTGCGCATTGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGTCTTCTTa > 1:245892/1‑141 (MQ=255)
ttGCTAGTTATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGTCTTCTTAACCATGGCGCt < 2:349594/141‑1 (MQ=255)
tATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGTCTTCTTAACCATGGCGCTGTTCTTTc > 1:180541/1‑141 (MQ=255)
tATTGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGTCTTCTTAACCATGGCGCTGTTCTTTc > 1:180536/1‑141 (MQ=255)
ttGCTTCCCAGGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGTCTTCTTAACCATGGCGCTGTTCTTTCAg < 1:187019/141‑1 (MQ=255)
|
AACCTTTTTTCCAATTAGGGGTGTTAATTCATCTATAGTTGTCACTTTAATTTTTTCTTTTGTTTCCATGTATTACACCTTCTCCACTTCAAAAATTCTACGTGCTTGCGCATTGCTAGTTATTGCTTCCCAAGGTTCAGCTTCGACTGCTTTTTTAGCATCCATAATGCGTTCAAATAGTTCATTTTGTCTTTCTGGGTCAAGTAAGACTTCTTTTACATTTTCAAATCCAAGTCTTCTTAACCATGGCGCTGTTCTTTCAG > CP000730/2522154‑2522416
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
