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 |
|
A31 F1 I1 R1
|
21 |
37.9 |
2424921 |
96.5% |
2340048 |
76.0 |
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 | 91.4%
| 122.1
/ 5.8
| 35 | 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 . (3/0); new base T (18/14); total (21/14) |
| Fisher's exact test for biased strand distribution p-value = 2.59e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.04e-01 |
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875550‑3875693
|
aTAGCATTGTTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa > 2:1053296/1‑76 (MQ=255)
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa > 2:1053285/1‑76 (MQ=255)
aGCATTATTCAACANACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tn < 2:168154/76‑2 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑ttt‑t < 1:283793/76‑1 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGNATTTAAATCGATTCACCTTGAAAAAACTACA‑ttt‑ntt‑tt > 1:150216/1‑75 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑ttt‑tt > 1:415235/1‑75 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑ttt‑tt < 1:619736/76‑2 (MQ=255)
aCATACGCGTCCTGACTGTAATTTCAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCg > 2:261329/1‑76 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGt < 2:448833/76‑1 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTg > 2:539399/1‑76 (MQ=255)
gcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAAt < 2:982591/76‑1 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATg < 1:1051083/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACag < 1:734548/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACaga < 1:383474/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCATCACCTTGAAAAAACTACATTTT‑TTT‑TCATCNTGAAATGGACaga > 2:1108503/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACagag < 2:1065461/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGa > 1:1013833/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATa > 2:889202/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATaa > 2:518852/1‑76 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAAt < 2:112955/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAAtt > 1:875194/1‑76 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAAtt < 2:848090/76‑1 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTAGAAAAAACTACA‑TTTGNTT‑NCATCGTGAAATGGANAGAGGATAAATTg > 2:1091995/1‑76 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATTGTGGAATGGACAGAGGGTAAATTGt > 1:786627/1‑76 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAANGGACAGAGGATAAATTGtt < 1:1130251/76‑1 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCa > 2:52781/1‑76 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCaa > 1:520160/1‑76 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCaa > 1:520166/1‑76 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAAAAAACTACNTTTT‑TTT‑TCATCGTGAAATGGANAGAGGATATANTGTTCAAt > 2:1010495/1‑76 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 1:511546/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:477019/1‑76 (MQ=255)
aaaCGGCTTCACCTTGACAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACGGAGGATAAATTGTTCAATTACGNAt > 2:1141382/1‑76 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 2:495749/76‑1 (MQ=255)
cGCTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATc > 2:1067795/1‑76 (MQ=255)
cTTCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 1:950744/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg < 1:187662/76‑1 (MQ=255)
aCCTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCt < 2:380310/76‑1 (MQ=255)
aCCTCGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCt > 2:1193500/1‑76 (MQ=255)
ccTTGAAAAAACTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg > 1:547603/1‑76 (MQ=255)
tGAAAAAACTACA‑TTT‑TTTNTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACCGATTATCCCCGCTGACg > 1:1127589/1‑76 (MQ=255)
aaaCTACATTTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc < 1:796997/76‑1 (MQ=255)
aaCTACATTTT‑TTT‑TCATCGTGAAATGGACAGANGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg > 2:1022544/1‑76 (MQ=255)
|
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTT‑TTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875550‑3875693
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
