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 |
|
A12 F1 I1 R1
|
18 |
38.4 |
2430560 |
95.7% |
2326045 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,997 |
(A)6→5 |
intergenic (‑198/‑125) |
yifB ← / → ilvL |
predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,911,992 | 0 | A | . | 97.1%
| 156.5
/ ‑1.2
| 34 | intergenic (‑193/‑130) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base . (18/15); minor base T (1/0); total (19/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.40e-01 |
ACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATTTA > REL606/3911917‑3912064
|
aCAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTa < 1:814099/76‑1 (MQ=255)
aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTaaa > 2:870352/1‑76 (MQ=255)
aGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTaaaaa < 2:106626/76‑1 (MQ=255)
aTGAACTACGAGGAAGGGAGCAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTaaaaacaa > 1:1030326/1‑73 (MQ=255)
gAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAacaaca < 1:889122/76‑1 (MQ=255)
aaCTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAAcaacaa < 2:1161790/76‑1 (MQ=255)
aCTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAAt < 1:44872/76‑1 (MQ=255)
cTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAAtt < 1:385533/76‑1 (MQ=255)
tACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAAttt < 1:919698/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTta > 1:1208125/1‑76 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTtata > 1:1027666/1‑76 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTtata < 2:255134/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTAATTTT‑AAAAACAACTNTTTatat < 2:983498/76‑1 (MQ=255)
gAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAatt > 1:415814/1‑76 (MQ=255)
aacaacATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAatta > 2:598509/1‑76 (MQ=255)
aTTCAACCTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAAc > 1:1114566/1‑76 (MQ=255)
ttCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACg < 2:642606/76‑1 (MQ=255)
aTACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGcat < 1:358327/76‑1 (MQ=255)
tACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGcatc > 2:867145/1‑76 (MQ=255)
aCTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGcatca < 2:631062/76‑1 (MQ=255)
cTGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGcatcat < 1:470054/76‑1 (MQ=255)
tGAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATa > 1:1026090/1‑76 (MQ=255)
gAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATaa > 1:631204/1‑76 (MQ=255)
gAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATaa < 1:698860/76‑1 (MQ=255)
gAAATTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATaa < 1:829244/76‑1 (MQ=255)
aaTTGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaa < 2:747887/76‑1 (MQ=255)
tGAATTTTTTTCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATc > 1:424374/1‑76 (MQ=255)
ttttttCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCa > 1:1097531/1‑76 (MQ=255)
tttttCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaa > 2:1041988/1‑76 (MQ=255)
ttttCACTCACTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaa > 1:422968/1‑76 (MQ=255)
tcactcacTATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaaaa > 2:70035/1‑76 (MQ=255)
cactcactATTTTATTTTT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAat > 2:1018552/1‑76 (MQ=255)
ttttattttT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTAc > 1:950226/1‑76 (MQ=255)
ttttattttT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTAc < 1:748884/76‑1 (MQ=255)
tttattttT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACt > 2:593181/1‑76 (MQ=255)
tttattttT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACt > 1:581346/1‑76 (MQ=255)
ttattttT‑AAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTa > 1:664014/1‑76 (MQ=255)
tattttTAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTAt > 2:1070789/3‑76 (MQ=255)
ttttAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATTTa < 1:711332/76‑1 (MQ=255)
ttttAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATTTa < 1:554869/76‑1 (MQ=255)
ttttAAAAACAACAATTTATATAGAAANTANTGNACGCATCNTACAAACCGGCCAAAAAATATCTTGTACTATTTa < 1:1052711/76‑1 (MQ=255)
|
ACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATTTA > REL606/3911917‑3912064
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
