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 |
1,289,145 |
T→C |
33.8% |
H258H (CAT→CAC) |
amn → |
AMP nucleosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,289,145 | 0 | T | C | 33.8%
| 47.7
/ 36.5
| 68 | H258H (CAT→CAC) | amn | AMP nucleosidase |
| Reads supporting (aligned to +/- strand): ref base T (14/31); new base C (12/11); total (26/42) |
| Fisher's exact test for biased strand distribution p-value = 1.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGG > minE/1289079‑1289213
|
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:2615579/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:1082446/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:2015989/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:1957971/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:1946600/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:2895039/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:1768972/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:1669978/69‑1 (MQ=255)
gAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:1615664/69‑1 (MQ=255)
aaCTTGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:2809980/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAATAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:605898/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:2583153/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:2294862/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:2767898/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:2845513/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:1631134/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:475583/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:73929/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAg < 1:1060376/69‑1 (MQ=255)
aaCTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCCACCTTGCATGGAAAAAACATCAg < 1:1730419/69‑1 (MQ=255)
cTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAGAt < 1:2115735/69‑1 (MQ=255)
tCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAg < 1:3365199/69‑1 (MQ=255)
tCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAg < 1:107860/69‑1 (MQ=255)
tCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAg < 1:2748951/69‑1 (MQ=255)
gAAACCGCAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:1101179/69‑1 (MQ=255)
gAAACCGAAGCGCCAGAAGAATCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:3432404/69‑1 (MQ=255)
gAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:1659121/69‑1 (MQ=255)
gAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:2963479/69‑1 (MQ=255)
gAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:2364862/69‑1 (MQ=255)
gAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:485854/69‑1 (MQ=255)
gAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:2134106/69‑1 (MQ=255)
gAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATGGCAt < 1:1025151/69‑1 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACATCa < 1:643398/39‑1 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:2322493/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:3228550/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:275138/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:279070/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:380287/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:316270/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:3308152/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:1244341/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:1497298/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:1536276/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:1587393/1‑51 (MQ=255)
agaagaAGCCATTTCCGACCTTGCATGGAAAAAACACCAGATGCCAGCATg > 1:198387/1‑51 (MQ=255)
gaagCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATg > 1:2667963/1‑67 (MQ=255)
gaagCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATg > 1:1055663/1‑67 (MQ=255)
gaagCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATg > 1:3172583/1‑67 (MQ=255)
ccATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTAccgcc < 1:208990/59‑1 (MQ=255)
ccATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTAccgcc < 1:1463574/59‑1 (MQ=255)
tCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAg < 1:969877/63‑1 (MQ=255)
aCCTTGCATGGAAAAAACACCAGATGCCAGCATGGCATTTAATTACCGCTGATGGTCGGGGTATTAct < 1:75430/68‑1 (MQ=255)
aCCTTGCATGGAAAAAACACCAGATGCCAGCATGGCATTTAATTACCGCTGATGGTCGGGGTATTAct < 1:1090459/68‑1 (MQ=255)
aCCTTGCATGGAAAAAACACCAGATGCCAGCATGGCATTTAATTACCGCTGATGGTCGGGGTATTAct < 1:1355904/68‑1 (MQ=255)
gCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAg < 1:2136942/54‑1 (MQ=255)
tGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGaa < 1:3026426/68‑1 (MQ=255)
tGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGaa < 1:2777368/68‑1 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:348814/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:2450831/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:268369/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:1441203/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:350129/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:2803741/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:1017254/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:2211737/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:165000/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:3089293/1‑69 (MQ=255)
aCATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGt > 1:1754733/1‑69 (MQ=255)
tCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTggg < 1:2168977/69‑1 (MQ=255)
tCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTggg < 1:546801/69‑1 (MQ=255)
tCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTggg < 1:1169343/69‑1 (MQ=255)
tCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTggg < 1:1923152/69‑1 (MQ=255)
|
GAACTGGATCACCGCCGAAACCGAAGCGCCAGAAGAAGCCATTTCCGACCTTGCATGGAAAAAACATCAGATGCCAGCATGGCATTTAATTACCGCCGATGGTCAGGGTATTACTCTGGTGAATATTGGCGTGGG > minE/1289079‑1289213
|
| 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
