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 |
|
A6 F1 I1 R1
|
20 |
51.0 |
3438118 |
91.8% |
3156192 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,874,154 |
(GT)5→4 |
coding (513‑514/936 nt) |
lysR → |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,874,146 | 0 | G | . | 94.1%
| 142.3
/ 4.6
| 34 | coding (505/936 nt) | lysR | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base G (0/2); new base . (23/9); total (23/11) |
| Fisher's exact test for biased strand distribution p-value = 9.80e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
| * | REL606 | 2,874,147 | 0 | T | . | 96.9%
| 136.0
/ 2.3
| 34 | coding (506/936 nt) | lysR | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base T (0/1); major base . (22/9); minor base A (0/1); total (23/11) |
| Fisher's exact test for biased strand distribution p-value = 3.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.51e-01 |
CATGATTTAGGACTCACTGAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAAGTGTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAGGGTG > REL606/2874071‑2874215
||
cATGANTCAGGACTCACTGAAACGCTCCTTACGCCTGCGGGAACAGAACGTACCGAATTACNCTCTTTAGATGAAg > 2:1718828/1‑76 (MQ=255)
gATTTAGGACTCACTGAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAAgtgt > 1:875340/1‑76 (MQ=255)
tttAGGACTCACTGAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAAgtgtgt > 1:1212034/1‑76 (MQ=255)
aGGACTCACTGAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAAgtgtgtgtt < 1:1519190/76‑2 (MQ=255)
ggACTCACTGAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAAgtgtgtgtta < 2:1611315/76‑3 (MQ=255)
ggACTCACTGAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAAgtgtgtgtta < 2:1420575/76‑3 (MQ=255)
gAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGt > 2:543304/1‑76 (MQ=255)
gAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGt > 2:396908/1‑76 (MQ=255)
aaaCGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTGCTCTCTTTAGATGA‑‑CGTGTGTGTTACCTCCGGGTc > 2:1363265/1‑76 (MQ=255)
cGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATc > 2:164333/1‑76 (MQ=255)
gCTCCATACGCCTGCGGGAANAGAACGTACAGAATTNCTCTCTTTAGATG‑‑GACTGTGTCTTACCTCCGGGTCATcc < 2:1698907/76‑1 (MQ=255)
gCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATcc > 1:502793/1‑76 (MQ=255)
gCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATcc > 1:502796/1‑76 (MQ=255)
cATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTg > 2:615336/1‑76 (MQ=255)
aTACGNCGGAGGGAACAGAACGTACCGACATACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCNGGGTCATCCGCTgg > 2:1711019/1‑76 (MQ=255)
aTACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTgg > 1:476932/1‑76 (MQ=255)
aTACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTgg > 2:1231784/1‑76 (MQ=255)
ccTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTa < 1:1295386/76‑1 (MQ=255)
aaCAGAACGTACCGNATTACTCTCGTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGt > 1:8268/1‑76 (MQ=255)
aaCAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGt > 1:118230/1‑76 (MQ=255)
aaCAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGt < 2:1293642/76‑1 (MQ=255)
cAGAACGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTAt > 1:1524756/1‑76 (MQ=255)
aaCGTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTaa < 1:796892/76‑1 (MQ=255)
gTACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGc > 2:124127/1‑76 (MQ=255)
tACCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGcc > 1:75456/1‑76 (MQ=255)
aCCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCg > 2:1029384/1‑76 (MQ=255)
aCCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCg > 1:938966/1‑76 (MQ=255)
aCCGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCg > 1:813241/1‑76 (MQ=255)
ccGAATTACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCgg < 1:277771/76‑1 (MQ=255)
cGAATTACTCTCTTTAGATGAAGTGTG‑G‑GTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGga < 1:173649/76‑1 (MQ=255)
aaTTACTCTCTTTANATGAA‑‑GTGTGTGTTACCTCCGGGTCATACGCTGGCGGTAAAAAAGTTAGTAACGCCGgatg < 1:1466549/76‑1 (MQ=255)
tACTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGAtt > 2:721882/1‑76 (MQ=255)
aCTCTCTTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGAATTAACGCCGGATGAttt > 2:52671/1‑76 (MQ=255)
tctctTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTc < 2:1145979/76‑1 (MQ=255)
ctTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAgg < 1:1095913/76‑1 (MQ=255)
ctTTAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAgg < 1:1518208/76‑1 (MQ=255)
tttAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAggg > 2:1012426/1‑76 (MQ=255)
tttAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAggg > 2:641908/1‑76 (MQ=255)
ttAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAGGGt < 1:156901/76‑1 (MQ=255)
tAGATGAA‑‑GTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAGGGTg > 2:735510/1‑76 (MQ=255)
||
CATGATTTAGGACTCACTGAAACGCTCCATACGCCTGCGGGAACAGAACGTACCGAATTACTCTCTTTAGATGAAGTGTGTGTGTTACCTCCGGGTCATCCGCTGGCGGTAAAAAAGGTATTAACGCCGGATGATTTTCAGGGTG > REL606/2874071‑2874215
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
