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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
974,990 |
A→T |
54.6% |
intergenic (+742/+250) |
lsrB → / ← ydeH |
AI2 transporter/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 974,990 | 0 | A | T | 54.6%
| 24.8
/ 103.5
| 77 | intergenic (+742/+250) | lsrB/ydeH | AI2 transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (23/12); new base T (17/25); total (40/37) |
| Fisher's exact test for biased strand distribution p-value = 3.92e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCAGGGTGCG > minE/974922‑975060
|
aCTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACt > 1:3358226/1‑71 (MQ=255)
cTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCtt > 1:3711763/1‑71 (MQ=255)
cTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCtt > 1:324801/1‑71 (MQ=255)
gCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCtt < 1:1190015/68‑1 (MQ=255)
gCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCtt < 1:2817536/68‑1 (MQ=255)
gCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGc > 1:1965568/1‑71 (MQ=255)
aaaTTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGccc > 1:1077307/1‑71 (MQ=255)
aaaTTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGccc > 1:3193967/1‑71 (MQ=255)
ttCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCg < 1:1858115/71‑1 (MQ=255)
cTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCg > 1:394305/1‑69 (MQ=255)
gACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGc > 1:233961/1‑62 (MQ=255)
gACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAAAAATGATAAATACTTCGc > 1:419501/1‑62 (MQ=255)
acacCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGc < 1:2477036/70‑1 (MQ=255)
acacCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGc < 1:1860882/70‑1 (MQ=255)
cTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATaa < 1:1699199/71‑1 (MQ=255)
gCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAg > 1:1820006/1‑63 (MQ=255)
gCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCg < 1:3706898/65‑1 (MQ=255)
gCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAAc > 1:3427146/1‑71 (MQ=255)
cACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAg < 1:2172868/62‑1 (MQ=255)
gACATGCTTCTTCATCATTAGCCGCTTTGACAATAATTATAAATTCTTCGCCCCCGTAGCGATAAACCGtt > 1:1182288/1‑71 (MQ=255)
gACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGtt < 1:2253071/71‑1 (MQ=255)
cATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTc < 1:3830649/71‑1 (MQ=255)
aTGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGtt < 1:175568/68‑1 (MQ=255)
gCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGt > 1:169892/1‑70 (MQ=255)
cttcttCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGc > 1:3675220/1‑45 (MQ=255)
ttcttcATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTaa > 1:2630398/1‑70 (MQ=255)
cttcATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATa < 1:3923167/55‑1 (MQ=255)
cttcATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAAc > 1:3165401/1‑58 (MQ=255)
cttcATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATc < 1:503374/70‑1 (MQ=255)
ttcATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCAc > 1:2607807/1‑71 (MQ=255)
ttcATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCAc > 1:2392169/1‑71 (MQ=255)
catcatTAGCCGCTTTGACAATAATGATAACTTCTTCGccc < 1:1613492/41‑1 (MQ=38)
atcatTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCAcgc < 1:31204/70‑1 (MQ=255)
atTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTc > 1:2270606/1‑70 (MQ=255)
aGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCAc > 1:1768521/1‑62 (MQ=255)
aGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGtt > 1:84144/1‑52 (MQ=255)
gCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACt < 1:3215864/71‑1 (MQ=255)
cGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTgg < 1:2119203/71‑1 (MQ=255)
gCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGc > 1:2858394/1‑71 (MQ=255)
cgatGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCt < 1:3045598/68‑1 (MQ=255)
tttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGt > 1:3944282/1‑60 (MQ=255)
tttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGt > 1:453000/1‑60 (MQ=255)
ttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGc > 1:1330057/1‑68 (MQ=255)
ttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCt > 1:1115448/1‑69 (MQ=255)
ttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCt > 1:565841/1‑69 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaag > 1:1425173/1‑71 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaag > 1:2420000/1‑71 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaa < 1:1665392/70‑1 (MQ=255)
tGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaa < 1:2164395/70‑1 (MQ=255)
gACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaa > 1:3298989/1‑69 (MQ=255)
aCAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagt < 1:459616/70‑1 (MQ=255)
aCAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagt < 1:2245837/70‑1 (MQ=255)
aCAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaa < 1:878866/68‑1 (MQ=255)
aCAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagta < 1:3771611/71‑1 (MQ=255)
cAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagtaa > 1:1665382/1‑71 (MQ=255)
aataatGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagtaag < 1:334920/71‑1 (MQ=255)
aataatGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagtaag < 1:3439713/71‑1 (MQ=255)
ataatGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTaagtaagt < 1:3779200/71‑1 (MQ=255)
taatGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTaagtaagt < 1:3377167/70‑1 (MQ=255)
aatGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTg > 1:1443756/1‑71 (MQ=255)
aatGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTg > 1:3909025/1‑71 (MQ=255)
tGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGc < 1:185613/70‑1 (MQ=255)
gATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCta > 1:3763870/1‑59 (MQ=255)
gATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagtaa > 1:3557492/1‑64 (MQ=255)
aTAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACt > 1:3546535/1‑53 (MQ=255)
aTAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCa < 1:1064024/70‑1 (MQ=255)
aTAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCa < 1:2412748/70‑1 (MQ=255)
aTAAATACTTCGCCACCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCa < 1:3907389/70‑1 (MQ=255)
aaaTTCTTCGCCGCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagt < 1:2241205/59‑1 (MQ=255)
aaaTTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:727750/35‑1 (MQ=255)
aaaTTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:1340235/35‑1 (MQ=255)
aaaTTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:1344741/35‑1 (MQ=255)
aaaTTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTaagtaagt > 1:3577168/1‑63 (MQ=255)
aaTTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAAt < 1:1813627/37‑1 (MQ=255)
aTACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCAGGGTg > 1:1369654/1‑71 (MQ=255)
aTACTTCGCCCCCGTAGCGATAAACCGTTTAGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCAGGGTg > 1:3050969/1‑71 (MQ=255)
tACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCAGGGTGc > 1:2223315/1‑71 (MQ=255)
aCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATAACGCGTCCAACTGGCTAAGTAAGTTGCCAGGGTGCg > 1:914351/1‑71 (MQ=255)
|
ACTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCAGGGTGCG > minE/974922‑975060
|
| 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
