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 |
|
A35 F1 I1 R1
|
21 |
46.3 |
3071142 |
93.0% |
2856162 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,332,148 |
(T)6→7 |
intergenic (+131/‑79) |
topA → / → cysB |
DNA topoisomerase I/DNA‑binding transcriptional dual regulator, O‑acetyl‑L‑serine‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,332,142 | 1 | . | T | 97.3%
| 134.2
/ ‑3.0
| 37 | intergenic (+125/‑85) | topA/cysB | DNA topoisomerase I/DNA‑binding transcriptional dual regulator, O‑acetyl‑L‑serine‑binding |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base T (19/17); total (19/18) |
| Fisher's exact test for biased strand distribution p-value = 4.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
TTTTTTATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAA > REL606/1332067‑1332212
|
ttttttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAc‑c > 1:1506734/1‑76 (MQ=255)
ttttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tt > 2:1182805/1‑76 (MQ=255)
ttttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tt > 1:1124259/1‑76 (MQ=255)
ttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tttt > 2:318751/1‑76 (MQ=255)
aTTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tttttt < 1:1460355/76‑1 (MQ=255)
aTTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tttttt > 1:169521/1‑76 (MQ=255)
tattTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTaa < 1:27521/76‑1 (MQ=255)
ttttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAAt < 2:761877/76‑1 (MQ=255)
ttcttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTa > 2:1403163/1‑76 (MQ=255)
tcttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTAt > 1:901262/1‑76 (MQ=255)
tcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAg < 1:119319/76‑1 (MQ=255)
tcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAg > 2:871377/1‑76 (MQ=255)
cacaCCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGt > 1:351421/1‑76 (MQ=255)
cacCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCa < 2:345394/76‑1 (MQ=255)
tataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCg > 1:844258/1‑76 (MQ=255)
ataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGc > 1:1464399/1‑76 (MQ=255)
ataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGc > 2:839410/1‑76 (MQ=255)
ataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGc > 2:695687/1‑76 (MQ=255)
ataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGc > 1:1464411/1‑76 (MQ=255)
aGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg > 2:202065/1‑76 (MQ=255)
aGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg > 2:189695/1‑76 (MQ=255)
aGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg > 2:202075/1‑76 (MQ=255)
ggCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGa > 1:896062/1‑76 (MQ=255)
ggCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGa < 2:805075/76‑1 (MQ=255)
tataAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGa > 1:282211/1‑76 (MQ=255)
ataAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaa < 1:1503708/76‑1 (MQ=255)
aTGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa < 2:341801/76‑1 (MQ=255)
aTGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa < 2:600864/76‑1 (MQ=255)
tGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAAc > 1:603858/1‑76 (MQ=255)
aGTGTTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGCCCCCCGCCAGGTGTGATGAAAAAACGATGtt < 1:602024/76‑1 (MQ=255)
aGTGGTTATAGTTAGCGCGT‑TTTTTTATTATTAATCCGTATTAGCCGCCCGCCAGGTGTGACGAAAAAACGATGtt < 2:586399/76‑1 (MQ=255)
aGTGGTTATAGTTAGCCCTT‑TTTTTTATTATTAAATCGTATTAGTCCCCCGCCAGGTGTGACGAAAAAACGATGtt < 1:996905/76‑1 (MQ=255)
aGTGGTTATAGTTAGCACTT‑TTTTTTATTATTAAATCGTATTAGTCCCCCGCCAGGTGTGACGAAAAAACGATGtt < 1:383765/76‑1 (MQ=255)
aGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCCCCCGCCAGGTATGACGAAAAAACGATGtt < 2:675446/76‑1 (MQ=255)
aGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGtt < 2:974605/76‑1 (MQ=255)
aGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGtt < 2:1051904/76‑1 (MQ=255)
aGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGtt < 2:1159436/76‑1 (MQ=255)
aGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGtt < 2:1048289/76‑1 (MQ=255)
gTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGa < 2:1185065/76‑1 (MQ=255)
gTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGa > 1:694054/1‑76 (MQ=255)
ttATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCCCCCGCCAGGTGTGACGAAAAAACGATGTTCTGAt < 1:1188010/76‑1 (MQ=255)
tAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCt > 2:299495/1‑76 (MQ=255)
aGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTa < 2:282211/76‑1 (MQ=255)
aGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTa < 2:1061718/76‑1 (MQ=255)
aGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTa > 1:477024/1‑76 (MQ=255)
gCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTaa > 1:7409/1‑76 (MQ=255)
|
TTTTTTATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAA > REL606/1332067‑1332212
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
