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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,266,364 |
T→A |
61.0% |
*167R (TGA→AGA) |
tyrP → |
tyrosine transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,266,364 | 0 | T | A | 61.0%
| 46.1
/ 74.4
| 82 | *167R (TGA→AGA) | tyrP | tyrosine transporter |
| Reads supporting (aligned to +/- strand): ref base T (4/28); new base A (10/40); total (14/68) |
| Fisher's exact test for biased strand distribution p-value = 5.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATTTGCTGATTTAGCCCTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCAAACTGGTGCAATTACGTTT > minE/1266297‑1266424
|
tatttGCTGATTTAGCCCTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTg > 1:3294520/1‑69 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:3274818/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:2411078/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:2193034/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:2160319/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:3218342/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:2662378/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:43571/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:2630148/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttgt > 1:1516468/1‑66 (MQ=255)
tGATTTAGCCCTCGCCACGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGatttg > 1:2570144/1‑66 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTTATTTATTTCAGCGTTc < 1:3399623/69‑1 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTc < 1:623533/69‑1 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTc < 1:3239450/69‑1 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTc < 1:188318/69‑1 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTc < 1:2699817/69‑1 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTc < 1:1080130/69‑1 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTc < 1:1150597/69‑1 (MQ=255)
ccTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTc < 1:3144134/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:820825/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:2790353/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:2791876/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:856281/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:3136750/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:3214387/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:1896990/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:2541142/69‑1 (MQ=255)
cTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:1601620/69‑1 (MQ=255)
tCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCa < 1:1220904/68‑1 (MQ=255)
aCGTCCTTCCTCGTCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:1574527/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:3230574/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2762721/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:3021034/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:3082391/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2693473/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:3334992/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:713655/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:944699/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2526049/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2485707/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:1354473/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:1828988/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2320293/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2312632/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:191684/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2257788/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:1945261/65‑1 (MQ=25)
aCGTCCTTCCTCGGCGTAGCGTTAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCCTTCaaa < 1:2674440/65‑1 (MQ=21)
ctcGGCGTTGCGTTAGGCTTATTTGTTTATCTGGCTGATTTATTTCTGCGTTc < 1:3289956/53‑1 (MQ=255)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:3383131/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:1087926/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:1138731/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:1513930/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:640652/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:1613412/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:619102/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:613463/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:3428499/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:2167024/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:1717096/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:3302032/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:1774797/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:2031850/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:1807307/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:208607/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:2856762/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:3253801/67‑2 (MQ=38)
cgtagcgttAGGCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:3238596/67‑2 (MQ=38)
gcgttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaa < 1:2484360/69‑1 (MQ=255)
gcgttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaa < 1:3075446/69‑1 (MQ=255)
gcgttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaa < 1:459688/69‑1 (MQ=255)
gcgttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaa < 1:3254639/69‑1 (MQ=255)
gcgttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaa < 1:3315507/69‑1 (MQ=255)
gttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaaa < 1:873970/68‑1 (MQ=255)
gttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaaa < 1:2395379/68‑1 (MQ=255)
gttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaaa < 1:944445/68‑1 (MQ=255)
gttAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCaaa < 1:1677091/68‑1 (MQ=255)
ggCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCaaa < 1:2572609/41‑1 (MQ=37)
ggCTTATTTGATTATCTGGCAGATTTGTTTCAGCGTTCAAATACCGTTGGTGGACga < 1:570544/57‑2 (MQ=38)
cTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCAAACTGGTGc > 1:3388959/1‑69 (MQ=255)
tATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCAAACTGGTGCAATTACGttt > 1:20582/1‑69 (MQ=255)
tATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCAAACTGGTGCAATTACGttt > 1:1656974/1‑69 (MQ=255)
|
TATTTGCTGATTTAGCCCTCGCCACGTCATTTCTCGGCGTTGCGTTAGGCTTATTTGATTATCTGGCTGATTTATTTCAGCGTTCAAATACCGTTGGTGGACGGTTGCAAACTGGTGCAATTACGTTT > minE/1266297‑1266424
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
