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 |
|
A77 F1 I1 R1
|
21 |
53.0 |
3608474 |
95.6% |
3449701 |
76.0 |
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 | 97.6%
| 158.7
/ ‑2.4
| 42 | 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 . (1/0); new base T (19/22); total (20/22) |
| Fisher's exact test for biased strand distribution p-value = 4.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.99e-01 |
TTTTTATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAA > REL606/1332068‑1332212
|
tttttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑t > 1:624338/1‑76 (MQ=255)
tttttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑t > 1:624349/1‑76 (MQ=255)
tttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑ttt > 2:1234212/1‑76 (MQ=255)
ttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tttt > 1:862940/1‑76 (MQ=255)
ttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tttt > 2:658847/1‑76 (MQ=255)
ttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑tttt > 1:301165/1‑76 (MQ=255)
ttGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑ttttttt > 2:1525073/1‑75 (MQ=255)
ttGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑ttttttt > 2:482410/1‑75 (MQ=255)
tGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑ttttttta > 1:1502697/1‑74 (MQ=255)
attattTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTttattatt < 1:270500/76‑1 (MQ=255)
tattTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTaa > 1:285695/1‑76 (MQ=255)
attTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTaaa < 1:1716053/76‑1 (MQ=255)
ttttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAAt < 1:751213/76‑1 (MQ=255)
ttttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAAt > 1:645358/1‑76 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATc > 1:646542/1‑76 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATAAAATc < 2:1323070/76‑1 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATAAAATc < 2:28536/76‑1 (MQ=255)
ttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCg > 1:254072/1‑76 (MQ=255)
ttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCg < 1:332714/76‑1 (MQ=255)
ttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCg < 1:1394220/76‑1 (MQ=255)
ttcttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTa < 1:1561232/76‑1 (MQ=255)
cttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTAtt < 1:550370/76‑1 (MQ=255)
ttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTa < 1:1263405/76‑1 (MQ=255)
tcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAg > 2:429458/1‑76 (MQ=255)
tcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAg < 2:296009/76‑1 (MQ=255)
acacCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTc < 1:748467/76‑1 (MQ=255)
cacCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCa < 1:62078/76‑1 (MQ=255)
acCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCAc > 1:483226/1‑76 (MQ=255)
cTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCTC‑CTTTTTTTATTATTAAATCGTATTAGTCAccc > 2:113209/1‑76 (MQ=255)
tataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCg < 1:1228271/76‑1 (MQ=255)
ataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGc > 1:314094/1‑76 (MQ=255)
cTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGgt > 2:488237/1‑76 (MQ=255)
aaGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg > 1:804809/1‑76 (MQ=255)
aGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg < 1:1017336/76‑1 (MQ=255)
aGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg < 1:376700/76‑1 (MQ=255)
ataAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaa > 1:211711/1‑76 (MQ=255)
ataAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGCGACGaa < 2:436052/76‑1 (MQ=255)
taAATGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaa > 2:292219/1‑76 (MQ=255)
aTGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa > 1:1402704/1‑76 (MQ=255)
aTGATATAGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa > 1:637882/1‑76 (MQ=255)
taGTGGTTATAGTTAGCCC‑CTTTTTTTATTATAAAATCGTATTAGTCCCCCGCCAGGTGTGACGAAAAAACGATGt < 1:1153326/76‑1 (MQ=255)
taGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGt > 1:498504/1‑76 (MQ=255)
taGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGt < 2:615676/76‑1 (MQ=255)
taGTGGTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGt > 1:1281102/1‑76 (MQ=255)
ggTTATAGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTg < 2:815287/76‑1 (MQ=255)
ttATAGTTAGCACTT‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGAt < 1:342866/76‑1 (MQ=255)
ataGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATgg > 1:46946/1‑76 (MQ=255)
ataGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATgg > 1:1344194/1‑76 (MQ=255)
taGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGc > 2:521558/1‑76 (MQ=255)
aGTTAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCg > 1:673286/1‑76 (MQ=255)
ttAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTc < 1:1484198/76‑1 (MQ=255)
tAGCAC‑CTTTTTTTATTATTAAATCGTATTAGTCCCCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCt < 1:289238/76‑1 (MQ=255)
gCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTaa < 1:371479/76‑1 (MQ=255)
gCAC‑CTTTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTaa < 1:371459/76‑1 (MQ=255)
|
TTTTTATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCAC‑C‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAA > REL606/1332068‑1332212
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
