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 |
|
A143 F1 I1 R1
|
16 |
39.8 |
2536279 |
96.2% |
2439900 |
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 | 88.9%
| 126.9
/ 9.2
| 36 | 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 . (2/2); new base T (18/14); total (20/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875560‑3875695
|
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttt‑tt‑ttca < 2:126946/76‑4 (MQ=255)
aCATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCg > 1:403520/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTg < 1:804449/76‑1 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGa < 2:424327/76‑1 (MQ=255)
aCGCGTCCTGACTGTAATCTGAGAACGNATNTCNACTGCTTNACATTGGAAAAACTACATT‑TTT‑TT‑TCATCGTGaa < 1:1098435/76‑1 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGaaa > 1:292232/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATgg < 1:374055/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACaga > 2:764626/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACagag > 1:698634/1‑76 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAgg > 2:676946/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGAt > 1:999709/1‑76 (MQ=255)
aaTTTGAGAACGAAGTCAAACCGCTTCACCGTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATaa < 1:21481/76‑1 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAAt < 1:895961/76‑1 (MQ=255)
tttGAGAAAGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTCTT‑TCATCGTGAAATCGACAGAGGATAAAt > 2:29250/1‑76 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAAtt > 2:1188371/1‑76 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGtt < 1:416402/76‑1 (MQ=255)
gaACGAATTTAANCCNCTTCACCTTGAAAAAACTNCA‑T‑TTTATT‑TCATCGTGAAATGGACAGAGGATAAATTGTTc < 1:1037010/76‑1 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCaa < 1:991582/76‑1 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAAt > 2:258051/1‑76 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 2:902744/1‑76 (MQ=255)
gAATTTAAACAGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 1:104448/1‑76 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 1:728932/76‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc > 1:351083/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 1:1024422/1‑76 (MQ=255)
tAAACCGCTTCANCTNGAAAAAACTACA‑T‑TTT‑TTNTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 1:1032019/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 1:1051784/76‑1 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt < 2:595213/76‑1 (MQ=255)
cTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 2:489980/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:818280/1‑76 (MQ=255)
ccTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg < 1:914826/76‑1 (MQ=255)
cTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:771043/1‑76 (MQ=255)
aaaaaaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 2:1129379/1‑76 (MQ=255)
aaaaaaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa < 1:587794/76‑1 (MQ=255)
aaaaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 2:149862/1‑76 (MQ=255)
aaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg < 1:489058/76‑1 (MQ=255)
aaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg < 2:842889/76‑1 (MQ=255)
aaCTACA‑TCTTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCACGCTGACGAAAgcg > 2:27233/1‑76 (MQ=255)
cTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 2:822552/1‑76 (MQ=255)
|
TCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875560‑3875695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ 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
