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 |
1,888,190 |
G→A |
62.0% |
R226R (CGC→CGT) |
gudD ← |
(D)‑glucarate dehydratase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,888,190 | 0 | G | A | 62.0%
| 34.1
/ 45.2
| 71 | R226R (CGC→CGT) | gudD | (D)‑glucarate dehydratase 1 |
| Reads supporting (aligned to +/- strand): ref base G (13/14); new base A (27/17); total (40/31) |
| Fisher's exact test for biased strand distribution p-value = 3.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.33e-01 |
ATTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCGGCCAGTACACCGCCCTTCA > minE/1888125‑1888251
|
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:76382/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:2595567/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:2887166/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:3038343/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:3088916/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:588251/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:665755/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:815349/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:1713762/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:1542418/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:1223995/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:1241129/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:972570/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:1311610/1‑69 (MQ=255)
aTTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGt > 1:1369268/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAGTACGCGCGTGCGGGAAGCGTTg > 1:3145944/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTg > 1:887547/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTg > 1:1047675/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTg > 1:313832/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTg > 1:3243567/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTg > 1:1999350/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTg > 1:1699163/1‑69 (MQ=255)
tttAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTg > 1:869379/1‑69 (MQ=255)
tCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGcc < 1:522727/68‑1 (MQ=255)
tCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGcc < 1:2519443/68‑1 (MQ=255)
gCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGt < 1:2335941/69‑1 (MQ=255)
gCGACCAGGCACCGTTAGGATTGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:3127169/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:49252/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:1029251/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:97654/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:893937/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:2750291/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:2143294/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:2567635/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:1734451/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:225136/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGCCAGTGCCACAATAg > 1:1662693/1‑69 (MQ=255)
gCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAACGTTGCGACAGTGCCACAATAg > 1:2428051/1‑69 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:1645594/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:2098724/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:2012780/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:2215382/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:2843319/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:2738846/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:2778588/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:2976730/69‑1 (MQ=255)
aCCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCctc < 1:948655/69‑1 (MQ=255)
cGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCg > 1:3081676/1‑68 (MQ=255)
cGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCg > 1:7610/1‑68 (MQ=255)
cGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCg > 1:3085709/1‑68 (MQ=255)
gCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCGGcc < 1:3223069/68‑1 (MQ=255)
gCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCGGcc < 1:2190605/68‑1 (MQ=255)
cgcgCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCGGCCAGTACACCg > 1:2522184/1‑69 (MQ=255)
cgcgCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCGGCCAGTACACCg > 1:58258/1‑69 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:1476181/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:1510826/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:80289/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:1514735/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:746257/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:217060/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:49082/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:3385967/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:3271018/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:3252117/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:3224267/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:226813/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:2341766/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:2359783/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:3074742/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:2909454/69‑1 (MQ=255)
gCGGGAAACGTTGCGCCAGTGCCACAATAGATTCGGCTTCTTCTTCCCCGGCCAGTACACCGCCTTTCa < 1:247733/69‑1 (MQ=255)
|
ATTTTAATCGCTTCGTTCAGCGACCAGGCACCGTTAGGATCGAGCGTAATACGCGCCTGCGGGAAGCGTTGCGCCAGTGCCACAATAGACTCGGCCTCTTCTTCCCCGGCCAGTACACCGCCCTTCA > minE/1888125‑1888251
|
| 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
