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 |
1,953,017 |
C→A |
69.7% |
V364V (GTG→GTT) |
pepP ← |
proline aminopeptidase P II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,953,017 | 0 | C | A | 69.7%
| 54.1
/ 36.2
| 56 | V364V (GTG→GTT) | pepP | proline aminopeptidase P II |
| Reads supporting (aligned to +/- strand): ref base C (3/14); new base A (12/27); total (15/41) |
| Fisher's exact test for biased strand distribution p-value = 5.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCTACGGTCAGTACCATGCCCGGTTCCAGAATGCGCGAGCGATCCTGACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGACGATGGGC > minE/1952958‑1953079
|
tctACGGTCAGTACCATGCCCGGTTCCAGAATGCGCGAGCGATCCTGACCATAAACACCCACGTCATg < 1:993092/68‑1 (MQ=255)
aCCATGCCCGGTTCCAGAATGCGCGAGCGATCCTGACCATAAACACCCACGTCATGGACATCCAGTCCt < 1:1825313/69‑1 (MQ=255)
ttCCAGAATGCGCGAGCGATCCTGACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCt < 1:2720012/69‑1 (MQ=255)
ttCCAGAATGCGCGAGCGATCCTGACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCt < 1:2819991/69‑1 (MQ=255)
gAATGCGCGAGCGATCCTGACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGc < 1:3289229/69‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2353903/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2723597/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2415683/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2455479/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2863611/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2902930/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2936452/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:3130585/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:3230472/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:444971/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:469322/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:499868/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:510156/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:659020/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:768255/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:933463/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:1430992/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:110443/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:1177762/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:1227694/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:1309713/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:1347343/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:1630512/53‑1 (MQ=255)
cgaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2204999/53‑1 (MQ=255)
gaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:214027/52‑1 (MQ=255)
gaTCCTGACCATAAACACCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:3329761/52‑1 (MQ=255)
tCCTGATCATAAACACCAACGTCATGAACATCCAGTCCt > 1:437537/1‑39 (MQ=37)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTcc > 1:1419222/1‑38 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:131156/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:2577899/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:35529/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:2330428/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:525719/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:3085831/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:667395/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:2928680/1‑39 (MQ=38)
tCCTGACCATAAACACCAACGTCATGAACATCCAGTCCt > 1:2062719/1‑39 (MQ=38)
tCCTGACCATAAACACCAAAGTCATGAACATCCAGTCCt > 1:3153358/1‑39 (MQ=25)
gACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGAc < 1:714860/69‑1 (MQ=255)
gACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGAc < 1:2450630/69‑1 (MQ=255)
gACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGAc < 1:1490562/69‑1 (MQ=255)
gACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGAc < 1:983971/69‑1 (MQ=255)
gACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGAc < 1:1031935/69‑1 (MQ=255)
aCCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCa < 1:2715988/56‑1 (MQ=255)
aCCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCa < 1:1348932/56‑1 (MQ=255)
aCCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCa < 1:1291699/56‑1 (MQ=255)
aCCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCa < 1:1720019/56‑1 (MQ=255)
aaCACCCACGTCATGGACATCCAGTCCTAGCCAGTGGCTAAGGCCATGCATAAAGAAAGGACGATGGGc > 1:756845/1‑69 (MQ=255)
aaCACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGACGATGGGc > 1:2305649/1‑69 (MQ=255)
aaCACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGACGATGGGc > 1:295500/1‑69 (MQ=255)
cacCAACGTCATGAACATCCAGTCCTAACCAGTGGCt < 1:2088515/37‑1 (MQ=38)
|
TCTACGGTCAGTACCATGCCCGGTTCCAGAATGCGCGAGCGATCCTGACCATAAACACCCACGTCATGGACATCCAGTCCTAACCAGTGGCTAAGGCCATGCATAAAGAAAGGACGATGGGC > minE/1952958‑1953079
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
