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 |
1,293,320 |
C→G |
66.7% |
R302R (CGG→CGC) |
cbl ← |
DNA‑binding transcriptional activator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,293,320 | 0 | C | G | 66.7%
| 46.5
/ 37.1
| 51 | R302R (CGG→CGC) | cbl | DNA‑binding transcriptional activator |
| Reads supporting (aligned to +/- strand): ref base C (10/7); new base G (23/11); total (33/18) |
| Fisher's exact test for biased strand distribution p-value = 5.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
TCTGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACATAGTTA > minE/1293280‑1293383
|
tCTGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCt > 1:1474115/1‑68 (MQ=255)
tCTGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTg > 1:1442042/1‑69 (MQ=255)
tCTGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTg > 1:199931/1‑69 (MQ=255)
tCTGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTg > 1:763880/1‑69 (MQ=255)
tGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGc > 1:3075710/1‑68 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:1717882/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:2882802/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:3253787/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:2138765/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:2385126/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:1212435/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:734395/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:1551131/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:838536/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:1242511/61‑1 (MQ=255)
tAATCAATTTCCTCTTCACTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTc < 1:2662745/61‑1 (MQ=255)
tactctTCACTGCTTTCCATCACCTGCCGCTTGATATCCTc > 1:2726557/3‑41 (MQ=255)
tCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGt > 1:1468813/1‑66 (MQ=255)
tCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGt > 1:2827880/1‑66 (MQ=255)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTAc > 1:89404/1‑52 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTAc > 1:2304063/1‑52 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:3194037/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:597326/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:667560/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:715427/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:721442/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:805333/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2689226/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2408775/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2218375/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:1240379/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:1398729/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:1685529/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:1797702/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2074863/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2093034/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2253072/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2277630/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:233913/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATTACa > 1:2423296/1‑53 (MQ=39)
cTGTTTTCCATCACCTGGCGCTTGATATCCTCAACTGACAGTCCTGCATGACa > 1:3071955/1‑53 (MQ=38)
cTGTTTTCCATCACCTGGCGCTGGATATCCTCAACTGACAGTCCTGCATTACa > 1:3122992/1‑53 (MQ=38)
cATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTTCATTACAAAGTTCCAGAAAGCGCCAGACAt < 1:254215/68‑1 (MQ=255)
cATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACAt < 1:314052/68‑1 (MQ=255)
cATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACAt < 1:3165548/68‑1 (MQ=255)
tCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACATAGt < 1:2051130/69‑1 (MQ=255)
tCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACATAGt < 1:1303972/69‑1 (MQ=255)
tCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACATAGt < 1:2456183/69‑1 (MQ=255)
aCCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACATAGTTa > 1:1820538/1‑69 (MQ=255)
aCCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTACAGAAAGCGCCAGACATAGTTa > 1:2197699/1‑69 (MQ=255)
ccTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACAt < 1:2977227/63‑1 (MQ=255)
|
TCTGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACATAGTTA > minE/1293280‑1293383
|
| 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
