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 |
|
A20 F1 I1 R1
|
17 |
44.7 |
2849266 |
96.8% |
2758089 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,838,721 |
T→G |
Y587S (TAC→TCC) |
gyrB ← |
DNA gyrase subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,838,721 | 0 | T | G | 97.0%
| 122.5
/ ‑3.9
| 33 | Y587S (TAC→TCC) | gyrB | DNA gyrase subunit B |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base G (19/13); total (20/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.53e-01 |
TAGATAAGCTCTTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGTACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTGGTGTGCAGCGTTG > REL606/3838649‑3838790
|
tagataAGCTCTTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACt > 2:58767/1‑76 (MQ=255)
agataAGCTCTTTCNGCATTGCTTTCGGATAACGNCGCTCCATNCGATTGATCATTTTCTGCGTCGCGTTGGACTc < 2:1175191/76‑1 (MQ=255)
agataAGCTCTTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTc < 1:844775/76‑1 (MQ=255)
ataAGCTCTTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAg < 2:379891/76‑1 (MQ=255)
ataAGCTCTTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAg > 2:305285/1‑76 (MQ=255)
aaGCCCTTTCAGCATTGCTTTCGGATAACGACGCCCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGAt > 2:1395339/1‑76 (MQ=255)
ctctTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATAcc < 1:330485/76‑1 (MQ=255)
ctctTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATAcc > 2:1245445/1‑76 (MQ=255)
tctTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCa > 2:258583/1‑76 (MQ=255)
ctTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAg < 1:354394/76‑1 (MQ=255)
tCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGttt > 1:278033/1‑76 (MQ=255)
aTTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTa < 1:626845/76‑1 (MQ=255)
aTTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTa > 1:661162/1‑76 (MQ=255)
cTTTCGTCTAACGACTCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGCTTCTCTAACGc > 2:956985/1‑76 (MQ=255)
tttCGGATAAGGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCt > 1:1319712/1‑76 (MQ=255)
tttCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCt > 2:843013/1‑76 (MQ=255)
gATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCgcc < 2:59324/76‑1 (MQ=255)
tAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCgccag < 2:885496/76‑1 (MQ=255)
tAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCgccag < 1:499257/76‑1 (MQ=255)
tAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCgccag > 1:295681/1‑76 (MQ=255)
tAACGACGCTCCATACGATTGATCATTGTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCgccag < 2:725742/76‑1 (MQ=255)
aaCGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCgccagc < 1:634618/76‑1 (MQ=255)
acgacgCTNCTTACGATTGNTCATTTTCTGCGTCGCGTTGGANTCAGATACCAGTTTCTCTAACGCTTCgccagcc < 2:1188431/76‑1 (MQ=255)
gacgCTCCATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCaa < 1:342897/76‑1 (MQ=255)
ccATACGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCgg > 1:425691/1‑76 (MQ=255)
tACGATTGATCATTTTCTGCGTCGCGTTGTACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGc > 1:1364143/1‑76 (MQ=255)
aCGATTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCa > 1:1070313/1‑76 (MQ=255)
aTTGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTg < 1:899157/76‑1 (MQ=255)
ttGATCATTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTgg > 2:542163/1‑76 (MQ=255)
aTTTTCTGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTgg > 1:574252/1‑76 (MQ=255)
tttCTGCGTCGCGTTGGACTCAGATACCATTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTGgtg < 2:367736/76‑1 (MQ=255)
ttCTGCGTCGCGTTGGACTCAGACCCCATTTTCTCAACCGCTTCCCCAGCCAATGCCGGTGCACTGGCGTTGgtgt < 1:710147/76‑1 (MQ=255)
tGCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTGGTGTGCa > 1:117019/1‑76 (MQ=255)
gCGTCGCGTTGGACTTAGATACCAGTTTCTCTANCGCTTCGCCAGCCAATGCCGGTNCACTGGCGATNGTGTGCAg > 2:1188978/1‑76 (MQ=255)
gCGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTGGTGTGCAg > 2:141073/1‑76 (MQ=255)
cGTCGCGTTGGACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTGGTGTGCAGc > 2:56687/1‑76 (MQ=255)
cgctTTGGACTCGGNTCCCATTTTCCCTGACGCTNCGCGATCCNATGCCGGTGCACTGGCGTTAGTGTGCAGCGtt < 2:1169707/76‑1 (MQ=255)
gcgTTGGCCTCAGATCCCAGTTTCTCAACCGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTGGTGTGCAGCGTTg < 2:569813/76‑1 (MQ=255)
|
TAGATAAGCTCTTTCAGCATTGCTTTCGGATAACGACGCTCCATACGATTGATCATTTTCTGCGTCGCGTTGTACTCAGATACCAGTTTCTCTAACGCTTCGCCAGCCAATGCCGGTGCACTGGCGTTGGTGTGCAGCGTTG > REL606/3838649‑3838790
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
