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 |
2,641,872 |
T→A |
78.6% |
L503M (TTG→ATG) |
ggt → |
gamma‑glutamyltranspeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,641,872 | 0 | T | A | 78.6%
| 95.0
/ 21.5
| 56 | L503M (TTG→ATG) | ggt | gamma‑glutamyltranspeptidase |
| Reads supporting (aligned to +/- strand): ref base T (4/8); new base A (36/8); total (40/16) |
| Fisher's exact test for biased strand distribution p-value = 2.32e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.62e-01 |
GCCCAGGCGGTAGCCGGATCATCACTACAGTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGTTTCCACCATCAGTGGTTGCCG > minE/2641807‑2641925
|
gCCCAGGCGGTAGCCGGATCATCACTACAGTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGa < 1:3216488/69‑1 (MQ=255)
gCCCAGGCGGTAGCCGGATCATCACTACAGTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGa < 1:3365212/69‑1 (MQ=255)
gCCCAGGCGGTAGCCGGATCATCACTACAGTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGa < 1:376167/69‑1 (MQ=255)
ccAGGCGGTAGCCGGATCATCACTACAGTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGa < 1:2421297/67‑1 (MQ=255)
atcatcACTACAGTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGAcc < 1:737827/69‑1 (MQ=255)
gTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGt > 1:1121149/1‑69 (MQ=255)
gTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGt > 1:272073/1‑69 (MQ=255)
gcAAATGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGTTTcc > 1:2309426/1‑68 (MQ=255)
aaTGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGTTTccac < 1:65074/67‑1 (MQ=255)
aaTGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGTTTccac < 1:314797/67‑1 (MQ=255)
aaTGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGAGTTTccac < 1:2739462/67‑1 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:470842/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:524463/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:321603/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:3113789/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:3012484/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:733916/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:918559/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:234870/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:1109430/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:161722/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:1076336/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:1389694/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:1401091/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:149337/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:1591894/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:1740706/1‑69 (MQ=255)
gtggtgAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:1884114/1‑69 (MQ=255)
gtggtcAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:619356/1‑69 (MQ=255)
gtggtcAACAGCATCAATTGTGGAATGAATGTTGCCGAAGCGACCAATGCGCCTCGTTTCCACCATCAg > 1:615464/1‑69 (MQ=255)
gAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGTTTCCACCATCAGTGGtt > 1:2272618/1‑69 (MQ=255)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:3135673/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:62628/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:618633/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:2150517/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:1398318/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:1546429/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:1170714/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:1162627/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:3083705/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:1652224/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:19871/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:2600870/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:2591087/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:2451074/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:2500606/1‑40 (MQ=38)
aTAGCATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:2467323/1‑40 (MQ=38)
aTAGAATCGATTATGGAATGAACGTCGCCGAAGCGACCaa > 1:2448372/1‑40 (MQ=37)
aGCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:2076706/69‑1 (MQ=255)
aGCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:723106/69‑1 (MQ=255)
aGCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:123148/69‑1 (MQ=255)
aGCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:1384427/69‑1 (MQ=255)
aGCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:2022315/69‑1 (MQ=255)
aGCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:1992684/69‑1 (MQ=255)
aGCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:2061700/69‑1 (MQ=255)
gCATCGATTATGGAATGAACGTCGCCGAAGCGACCAATGCGCCGCATTTCCACCATCAGTGGTTGCCg < 1:2562852/68‑1 (MQ=255)
|
GCCCAGGCGGTAGCCGGATCATCACTACAGTGCTGCAAATGGTGGTGAATAGCATCGATTATGGCTTGAACGTCGCCGAAGCGACCAATGCGCCGCGTTTCCACCATCAGTGGTTGCCG > minE/2641807‑2641925
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
