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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,002,152 |
T→C |
17.1% |
Y124C (TAC→TGC) |
fliY ← |
cystine transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,002,152 | 0 | T | C | 17.1%
| 91.9
/ 14.1
| 41 | Y124C (TAC→TGC) | fliY | cystine transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (12/22); new base C (3/4); total (15/26) |
| Fisher's exact test for biased strand distribution p-value = 6.93e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.52e-01 |
GGCTGTTTTAATGGTGCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATCAA > W3110S.gb/2002091‑2002221
|
ggCTGTTTTAATGGTGCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGtt > 1:2690791/1‑70 (MQ=255)
ttAATGGTGCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATc > 1:2510370/1‑71 (MQ=255)
ttAATGGTGCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGCACGGGGTTGAGAAATc > 1:1942367/1‑71 (MQ=255)
tGCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTAtttt > 1:360594/1‑71 (MQ=255)
gCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTa > 1:12417/1‑48 (MQ=255)
gCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTa > 1:2533469/1‑48 (MQ=255)
ttCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGt < 1:4659794/62‑1 (MQ=255)
ttCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCt > 1:620884/1‑71 (MQ=255)
ttCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCt > 1:614780/1‑71 (MQ=255)
tCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTTTACGGGGTTgag < 1:2474374/54‑1 (MQ=255)
cGTTACCTTTTTTCACCAGCGCCTGAATACCAGGAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTg > 1:4610798/1‑71 (MQ=255)
cGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCt < 1:3210749/69‑1 (MQ=255)
gTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTg < 1:1067354/70‑1 (MQ=255)
aCCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGCACgggg > 1:59208/1‑44 (MQ=255)
ccTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCt < 1:2401977/70‑1 (MQ=255)
ccTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCt < 1:2441586/70‑1 (MQ=255)
ccTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCt < 1:3033182/70‑1 (MQ=255)
cTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACgg < 1:1897341/40‑1 (MQ=255)
ttttttCACCAGCGCCTGAATACCAGAAATGGTGCAc < 1:4206555/37‑1 (MQ=255)
ttttttCACCAGCGCCTGAATACCAGAAATGGTGCAc < 1:1494050/37‑1 (MQ=255)
tttttCACCAGCGCCTGAATACCAGAAATGGTGCACGGGGTTGAGaa < 1:4196608/47‑1 (MQ=255)
ttttCACCAGCGCCTGAATACCAGAAATGGTGCACgg < 1:1350578/37‑1 (MQ=255)
tCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGa < 1:4151604/70‑1 (MQ=255)
tCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGa < 1:189386/70‑1 (MQ=255)
tCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGa < 1:612258/70‑1 (MQ=255)
gcgcCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTg < 1:450242/71‑1 (MQ=255)
gcgcCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTg < 1:4364269/71‑1 (MQ=255)
tGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATg < 1:3354632/63‑1 (MQ=255)
aaTACCAGAAATGGTGTACGGGGTTGAGAAATCGTAtttttt > 1:1875984/1‑42 (MQ=255)
tACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTa < 1:4873449/71‑1 (MQ=255)
aCCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTaa > 1:4487938/1‑71 (MQ=255)
aCCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTaa > 1:3686484/1‑71 (MQ=255)
ccAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTaa < 1:805451/70‑1 (MQ=255)
ccAGAAATGGTGCACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAAt > 1:2366987/1‑71 (MQ=255)
cAGAAATGGTGTACGGGGTTGAGAAATCGTAtttttt > 1:639839/1‑37 (MQ=255)
gAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGa < 1:1902746/50‑1 (MQ=255)
gAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATcac < 1:2671161/71‑1 (MQ=255)
gAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATcac < 1:2788466/71‑1 (MQ=255)
aaaTGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGa < 1:1533078/49‑1 (MQ=255)
aaaTGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGa < 1:2596850/49‑1 (MQ=255)
tGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATcac < 1:2134688/67‑1 (MQ=255)
gtgtACTGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATc < 1:3310097/71‑1 (MQ=255)
gtgtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCtcat > 1:3271657/1‑40 (MQ=255)
gtgtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCtcat > 1:2341220/1‑40 (MQ=255)
gtgtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCtcat > 1:3767032/1‑40 (MQ=255)
gtgtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGaa > 1:1329143/1‑45 (MQ=255)
gtgtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATc < 1:1438624/71‑1 (MQ=255)
gtgtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATc < 1:3372983/71‑1 (MQ=255)
tgtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCtc < 1:5046609/37‑1 (MQ=255)
gtACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATCaa > 1:5005747/1‑71 (MQ=255)
tACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATCaa < 1:2911981/70‑1 (MQ=255)
tACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATCaa < 1:4699225/70‑1 (MQ=255)
tACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATCaa < 1:4205545/70‑1 (MQ=255)
|
GGCTGTTTTAATGGTGCCTTCGTTACCTTTTTTCACCAGCGCCTGAATACCAGAAATGGTGTACGGGGTTGAGAAATCGTATTTTTTCTTGCGCTCATCAGAAATGGTGACCTGATTAATCACCACATCAA > W3110S.gb/2002091‑2002221
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
