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 |
|
A9 F1 I1 R1
|
16 |
55.7 |
3673927 |
94.4% |
3468187 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,875,632 |
(T)7→8 |
intergenic (‑66/+287) |
glmU ← / ← atpC |
bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,875,625 | 1 | . | T | 82.0%
| 116.1
/ 21.1
| 39 | intergenic (‑59/+294) | glmU/atpC | bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
| Reads supporting (aligned to +/- strand): ref base . (6/1); new base T (18/14); total (24/15) |
| Fisher's exact test for biased strand distribution p-value = 2.16e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGC > REL606/3875551‑3875694
|
tAGCATTATTCAACNTACGCGTCCTGACTGTAATTTGAGAACTAATTTAAACCGCTTCACCTTAAAAAAACTACA‑‑t < 1:1572590/76‑1 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑t‑t‑tt‑ttt < 2:1127649/76‑1 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAGCCGCTTCACCTTGAAAAAACTACA‑‑T‑TCTT‑TTT‑CATCGt < 1:96203/76‑1 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGa > 2:1362227/1‑76 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGaaa < 1:1209082/76‑1 (MQ=255)
gcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAAt > 1:340269/1‑76 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACaga < 1:1628711/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑T‑T‑TTATTT‑CATCGTGAAATGGACaga > 2:738572/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACagag < 1:1386655/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGa > 1:533972/1‑76 (MQ=255)
tGTAATTTGAGAACGAATCTANACNGCTTCACGTTGAAAAAACTACN‑‑T‑T‑TT‑TTTNCNTCGTGAAATGGACAGAGGa > 2:266340/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAGACCGCTTCACCTTGAAAAAACTACA‑‑T‑T‑TT‑TTTGCATCGTGAAATGGACAGAGGAt > 2:153753/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGAt > 2:1391379/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑T‑TCTT‑TTT‑CATCGTGAAATGGACAGAGGAt > 1:176745/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATa < 1:637491/76‑1 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATa > 1:758192/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATa > 2:1068838/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATa > 1:1174348/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATa < 2:533971/76‑1 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATa > 1:1372706/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATaa > 2:1736384/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATaa < 1:956056/76‑1 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATaaa < 2:871982/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAAtt > 1:904787/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAGCTACA‑‑TNT‑TT‑TTT‑CATCGTGAAATGNACNGAGGATAAATTg > 1:1492033/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTg > 2:1324975/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTg > 1:836671/1‑76 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGt > 2:1355861/1‑76 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATTAATTGTTCAAt < 1:100458/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 2:877348/1‑76 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 1:529148/76‑1 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 2:806807/76‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 2:1772050/76‑1 (MQ=255)
cGCTTCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATc > 1:1746487/1‑76 (MQ=255)
cGCTTCACCTTGAAAAAACTACA‑‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc > 1:1737959/1‑76 (MQ=255)
tCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg < 2:103165/76‑1 (MQ=255)
tCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:419638/1‑76 (MQ=255)
tCACCTTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:1706307/1‑76 (MQ=255)
aCCGTGAAAAAACTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCt > 1:1691819/1‑76 (MQ=255)
aaaaaaCTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa < 1:205690/76‑1 (MQ=255)
aaaaaaCTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa < 2:753355/76‑1 (MQ=255)
aCTACAT‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcgc < 1:632749/76‑1 (MQ=255)
|
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑T‑T‑TT‑TTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGC > REL606/3875551‑3875694
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
