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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,328,359 |
T→C |
20.8% |
N71S (AAC→AGC) |
greA ← |
transcription elongation factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,328,359 | 0 | T | C | 20.8%
| 103.0
/ 25.7
| 53 | N71S (AAC→AGC) | greA | transcription elongation factor |
| Reads supporting (aligned to +/- strand): ref base T (23/19); new base C (6/5); total (29/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.01e-01 |
CGTTACGGTAGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCACGAGCTGCG > W3110S.gb/3328292‑3328424
|
cGTTACGGTAGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTc < 1:3299325/70‑1 (MQ=255)
cGTTACGGTAGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTc < 1:2749629/70‑1 (MQ=255)
gTTACGGTAGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGa > 1:1734321/1‑71 (MQ=255)
aCGGTAGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAg > 1:664656/1‑71 (MQ=255)
gTAGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCtt < 1:1517250/71‑1 (MQ=255)
aGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGa > 1:4578708/1‑63 (MQ=255)
aGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGa > 1:3199649/1‑63 (MQ=255)
gCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGc > 1:4297463/1‑71 (MQ=255)
ccAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTc < 1:1669837/71‑1 (MQ=255)
aaaaaTAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGa > 1:1579385/1‑71 (MQ=255)
aaaaTAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGAt < 1:2668055/71‑1 (MQ=255)
aaTAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCTCGTTCGACAGCTTGGCTTCGATg > 1:4001338/1‑70 (MQ=255)
aTAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTc < 1:4331016/71‑1 (MQ=255)
cgcgCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTc > 1:3539101/1‑47 (MQ=255)
cgcgCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTa < 1:2856202/71‑1 (MQ=255)
gcgcCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTaa < 1:3216632/71‑1 (MQ=255)
gcgcCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTaa < 1:3393572/71‑1 (MQ=255)
cgcCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTa < 1:2051134/69‑1 (MQ=255)
cATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCtt < 1:1093155/49‑1 (MQ=255)
cATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCt > 1:2825553/1‑62 (MQ=255)
aTTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGCTCGa < 1:1253069/42‑1 (MQ=255)
ttgttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTgg > 1:4311312/1‑49 (MQ=255)
ttgttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTc > 1:4338137/1‑53 (MQ=255)
ttgttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTc > 1:3273744/1‑53 (MQ=255)
ttgttgGGCATTTTGGTGACATCAATCACCTGCGCGCTCGACAGCtt < 1:2264425/47‑1 (MQ=255)
tgttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCt > 1:3256930/1‑71 (MQ=255)
gttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGc > 1:2440248/1‑43 (MQ=255)
gttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTgg > 1:3927719/1‑47 (MQ=255)
gttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTgg > 1:2289339/1‑47 (MQ=255)
gttgGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATg > 1:3630914/1‑55 (MQ=255)
gggCATTTTGGTGACATCAATCACCTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCg < 1:2693327/70‑1 (MQ=255)
ttttGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTc < 1:2669606/43‑1 (MQ=255)
ttttGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGaaa < 1:997233/71‑1 (MQ=255)
ttGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGa > 1:4009064/1‑43 (MQ=255)
ttGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAAcc > 1:1636236/1‑71 (MQ=255)
ttGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAAc < 1:2642275/70‑1 (MQ=255)
gTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAAACctg < 1:2799834/71‑1 (MQ=255)
cATCAATCACCTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGt > 1:2667231/1‑71 (MQ=255)
atcaatcaCCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGtt > 1:4428749/1‑71 (MQ=255)
atcaatcaCCTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATACGGGCTTCGCAGAAACCCTGCTGtt > 1:1906662/1‑71 (MQ=255)
atcaatcaCCTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGtt > 1:4174132/1‑71 (MQ=255)
atcaatcaCCTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGtt > 1:4273094/1‑71 (MQ=255)
atcaatcaCCTGCGCGCTCGACAGCTTGGCTGCGATGTCttt < 1:4026544/42‑1 (MQ=37)
caatcaCCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCa > 1:702435/1‑71 (MQ=255)
aatcaCCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATAc > 1:773308/1‑44 (MQ=255)
aatcaCCTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCAc > 1:1675646/1‑71 (MQ=255)
atcaCCTGCGCGTTCGACAGCTTGGCTTCGATGTCttt < 1:3514150/38‑1 (MQ=255)
atcaCCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCACg < 1:2903715/71‑1 (MQ=255)
tcaCCTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCACg < 1:2365722/70‑1 (MQ=255)
cTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCACGAGCTg < 1:2990003/71‑1 (MQ=255)
cTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCACGAGCTg < 1:1440013/71‑1 (MQ=255)
cTGCGCGCTCGACAGCTTGGCTTCGATGTCTTTAATa > 1:1260680/1‑37 (MQ=255)
gcgcGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCACGAGCTGCg > 1:2425807/1‑71 (MQ=255)
|
CGTTACGGTAGCACCAAAAATAACGCGCCCATTGTTGGGCATTTTGGTGACATCAATCACCTGCGCGTTCGACAGCTTGGCTTCGATGTCTTTAATACGGCCTTCGCAGAAACCCTGCTGTTCACGAGCTGCG > W3110S.gb/3328292‑3328424
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
