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 |
2,566,476 |
T→C |
40.7% |
A192A (GCA→GCG) |
mtlD ← |
mannitol‑1‑phosphate dehydrogenase, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,566,476 | 0 | T | C | 40.7%
| 19.6
/ 41.0
| 59 | A192A (GCA→GCG) | mtlD | mannitol‑1‑phosphate dehydrogenase, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base T (24/11); new base C (9/15); total (33/26) |
| Fisher's exact test for biased strand distribution p-value = 3.19e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.11e-01 |
TTACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACTTCCAGCGG > minE/2566417‑2566541
|
ttACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTg < 1:1145248/69‑1 (MQ=255)
ttACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTg < 1:890001/69‑1 (MQ=255)
tACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGa > 1:2911975/1‑69 (MQ=255)
tACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGa < 1:1982950/69‑1 (MQ=255)
tACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGa > 1:2290288/1‑69 (MQ=255)
tACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGa < 1:2433804/69‑1 (MQ=255)
ttCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTg < 1:2675103/69‑1 (MQ=255)
gCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATc > 1:2665490/1‑68 (MQ=255)
gCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATc > 1:152780/1‑68 (MQ=255)
gCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATc > 1:1579838/1‑68 (MQ=255)
aTCAGGTTGTCGGTTAACTCCACGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACa > 1:321522/1‑69 (MQ=255)
gTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATcc > 1:1778188/1‑68 (MQ=255)
gTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCa > 1:1792763/1‑69 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:2486076/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:3125401/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:3065205/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:2706564/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:743692/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:100187/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:754062/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:1216927/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:91391/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:1393854/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:1601123/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:1430636/50‑1 (MQ=255)
tAATTCCATGCCTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:1463242/50‑1 (MQ=255)
ccTGGGATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:1438561/40‑1 (MQ=38)
tGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTAGCg < 1:2352130/68‑1 (MQ=255)
tGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCg < 1:516122/68‑1 (MQ=255)
tGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCg < 1:2566838/68‑1 (MQ=255)
tGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCg < 1:1580575/68‑1 (MQ=255)
tGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCg < 1:2286244/68‑1 (MQ=255)
ggATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCg < 1:291843/66‑1 (MQ=255)
gATGTTCGGCAGCGCGCCTTTGAACTGGGTTTTAt < 1:952849/35‑1 (MQ=37)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTa > 1:3283925/1‑61 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:316714/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:82009/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:34754/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:2955218/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:1076020/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:2792618/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:2893544/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:1259490/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:1610260/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:1778927/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:1914400/1‑69 (MQ=255)
aTGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACt > 1:1919067/1‑69 (MQ=255)
aTGTTAGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAAt > 1:2635553/1‑41 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTccg > 1:1189838/1‑68 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTccg > 1:2399553/1‑68 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTCCa > 1:3256386/1‑69 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTCCa > 1:409354/1‑69 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTCCa > 1:2529406/1‑69 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTCCa > 1:181888/1‑69 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTCCa > 1:3202237/1‑69 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTCCa > 1:2589782/1‑69 (MQ=255)
tCGGCAGCGCGCCTTTGAACTGGGTTTTATCAACAATCCATTCGCTGAATGTTTCTACCGTCACTTCCa > 1:3060920/1‑69 (MQ=255)
cAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACTTCCAGCgg > 1:1662977/1‑69 (MQ=255)
cAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACTTCCAGCgg > 1:2532689/1‑69 (MQ=255)
|
TTACGTTCGACAAATGCCATCAGGTTGTCGGTTAACTCCATGCCTGGGATGTTCGGCAGTGCGCCTTTGAACTGCGTTTTATCGACAATCCATTCGCTGAAGGTTTCTACCGTCACTTCCAGCGG > minE/2566417‑2566541
|
| 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
