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 |
|
A84 F1 I1 R1
|
17 |
47.9 |
3074446 |
96.0% |
2951468 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,194 |
+C |
coding (366/825 nt) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,192 | 1 | . | C | 97.7%
| 175.8
/ ‑2.8
| 43 | coding (368/825 nt) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (17/25); total (18/25) |
| Fisher's exact test for biased strand distribution p-value = 4.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
GCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCG‑CCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTAACAAATT > REL606/4202117‑4202262
|
gcgGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCg < 2:98120/76‑1 (MQ=255)
gcgGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCg > 2:82173/1‑76 (MQ=255)
ggACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCG‑cc > 1:1024578/1‑76 (MQ=255)
gACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCG‑ccc < 2:1399803/76‑2 (MQ=255)
gCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGa < 1:802392/76‑1 (MQ=255)
cAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGt > 1:1518956/1‑76 (MQ=255)
aGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGtt < 2:918667/76‑1 (MQ=255)
aGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGtt > 1:445865/1‑76 (MQ=255)
tGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCg < 2:94426/76‑1 (MQ=255)
gTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCa < 1:728400/76‑1 (MQ=255)
acacTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGa > 2:333878/1‑76 (MQ=255)
cacTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGAc < 1:1278077/76‑1 (MQ=255)
acTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGAct < 2:249246/76‑1 (MQ=255)
acTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGAct < 2:653784/76‑1 (MQ=255)
tGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGActct > 1:102096/1‑76 (MQ=255)
tACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTc > 1:1452402/1‑76 (MQ=255)
aCCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTcc > 2:1314125/1‑76 (MQ=255)
ccTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCa < 2:1432272/76‑1 (MQ=255)
tGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCAtt < 1:310347/76‑1 (MQ=255)
tCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTaaa < 2:523059/76‑1 (MQ=255)
cGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAAt > 2:1321425/1‑76 (MQ=255)
gATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAAtt < 2:75901/76‑1 (MQ=255)
gATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAAtt < 1:276730/76‑1 (MQ=255)
ataatCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTgcgc > 2:1073386/1‑76 (MQ=255)
atCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAgg < 1:320145/76‑1 (MQ=255)
atCGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAgg < 1:806166/76‑1 (MQ=255)
cGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGAt < 2:1474904/76‑1 (MQ=255)
cGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGAt < 1:1379452/76‑1 (MQ=255)
cGCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGAt < 1:569517/76‑1 (MQ=255)
gCTTCGTGATCGCTTTGATCCAGCCCCGCCCATATTGTCCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATa < 2:141685/76‑1 (MQ=255)
gCTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATa < 2:1270705/76‑1 (MQ=255)
cTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAg < 2:955446/76‑1 (MQ=255)
cTTCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAg > 2:1234570/1‑76 (MQ=255)
ttCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAgg > 2:1216338/1‑76 (MQ=255)
ttCGTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAgg > 1:82372/1‑76 (MQ=255)
ctCGCGACCGCTTTGATCAAGCACCG‑CCATATTGACCTTTTCGCCACACTCTTCCATTAAATTCCGCACGATAggc > 2:1179073/2‑75 (MQ=255)
gTGATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTg < 1:1255498/76‑1 (MQ=255)
gATCGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGaa > 2:295688/1‑76 (MQ=255)
cGCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACaa > 1:111920/1‑76 (MQ=255)
gCTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAAt > 2:147824/1‑76 (MQ=255)
cTTTGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAAta > 1:428867/1‑75 (MQ=255)
tttGATCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCg > 1:1333678/1‑76 (MQ=255)
aTCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTaa < 1:920170/76‑1 (MQ=255)
aTCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTaa < 1:1058620/76‑1 (MQ=255)
aTCAAGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTaa < 1:596790/76‑1 (MQ=255)
aTCAAGCACCGCCCATATTGACCGTTACGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTaa < 1:596796/76‑1 (MQ=255)
aaGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTAACaa > 2:1272601/1‑76 (MQ=255)
aGCACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTAACaaa < 2:762545/76‑1 (MQ=255)
cACCGCCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTAACAAAtt < 1:669068/76‑1 (MQ=255)
|
GCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCG‑CCATATTGACCGTTTCGCCAGACTCTTCCATTAAATTGCGCAGGATAGGGTGAACAATCGCTAACAAATT > REL606/4202117‑4202262
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
