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 |
|
A66 F1 I1 R1
|
19 |
57.4 |
3651244 |
97.1% |
3545357 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,158 |
A→C |
I134M (ATT→ATG) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,158 | 0 | A | C | 97.6%
| 168.1
/ NA
| 42 | I134M (ATT→ATG) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base C (18/23); minor base T (0/1); total (18/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATT > REL606/4202085‑4202229
|
aaGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGatcat > 1:513047/1‑76 (MQ=255)
aaGCGGGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGatcat < 1:195020/76‑1 (MQ=255)
ggggCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATcataat < 1:59335/73‑1 (MQ=255)
cGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATcataat > 2:1043790/1‑76 (MQ=255)
tGCATCGGCAATTTCCCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCg < 1:87489/76‑1 (MQ=255)
cATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCt > 1:566822/1‑76 (MQ=255)
cATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCt > 2:446110/1‑76 (MQ=255)
cGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCg < 2:1727763/76‑1 (MQ=255)
ttttACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATc < 1:97834/75‑1 (MQ=255)
tttACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCg > 2:1107766/1‑76 (MQ=255)
tttACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCg > 2:13935/1‑76 (MQ=255)
ccgccgATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCttt < 1:1578507/76‑1 (MQ=255)
cgccgATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTg < 2:307607/76‑1 (MQ=255)
cgccgATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTg < 1:137205/76‑1 (MQ=255)
ccgATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGAt < 2:1338436/76‑1 (MQ=255)
ccgATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGAt < 2:1322749/76‑1 (MQ=255)
cgATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATc > 2:371234/1‑76 (MQ=255)
gATAGGGGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCa < 1:1424889/76‑1 (MQ=255)
gATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCa < 1:1049518/76‑1 (MQ=255)
gATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCa < 2:996305/76‑1 (MQ=255)
aTAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCaa < 1:90492/76‑1 (MQ=255)
ggCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCa < 2:442047/76‑1 (MQ=255)
ggCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCa > 1:989856/1‑76 (MQ=255)
gcgcGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCAc < 2:1435255/76‑1 (MQ=255)
cgcgGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCAcc < 2:806808/76‑1 (MQ=255)
cgGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGc < 2:1345783/76‑1 (MQ=255)
ggACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGcc < 2:595540/76‑1 (MQ=255)
gACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCa > 2:454145/1‑76 (MQ=255)
gACATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCa < 1:758001/76‑1 (MQ=255)
aCATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCat < 1:426552/76‑1 (MQ=255)
cATTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCata > 1:1352591/1‑76 (MQ=255)
aTTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCatat < 1:1692992/76‑1 (MQ=255)
aTTCGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCatat > 1:655420/1‑76 (MQ=255)
cGCATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGa < 2:133057/76‑1 (MQ=255)
cATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGAcc > 1:1555680/1‑76 (MQ=255)
cATCAGATGCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGAcc > 2:1342474/1‑76 (MQ=255)
gCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGcc < 1:989368/76‑1 (MQ=255)
gCGTACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGcc < 1:687698/76‑1 (MQ=255)
gTACGCTGTCCCGGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAg < 1:776471/76‑1 (MQ=255)
gTACACTGTCCCGGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAg < 1:731149/76‑1 (MQ=255)
tACACTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGa > 1:1307585/1‑76 (MQ=255)
acacTGTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGAc > 1:432548/1‑76 (MQ=255)
cacTTTCCCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGAct < 2:1748000/76‑1 (MQ=255)
cacTTTACTTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGAct < 1:1160722/76‑1 (MQ=255)
cTGTCCCTGGTCGATCATATTCGCTTCGTGATCGTTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGActct < 1:1700267/76‑1 (MQ=255)
gTACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTc > 1:589403/1‑76 (MQ=255)
tACCTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTcc > 2:1229478/1‑76 (MQ=255)
cccTGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCCCCAGACTCTTCCa < 1:1606553/75‑1 (MQ=255)
ccTGGTCGATTATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCAt < 2:510029/76‑1 (MQ=255)
tGGTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTa < 2:432548/76‑1 (MQ=255)
tGGTCGATCATAACCGCTTCGTAATCGCTTTGATAAAGCCCCGCCATATTGACCGTTTCGCCAGACTCTTCCATTa < 1:416933/76‑1 (MQ=255)
ggTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTaa > 2:1123314/1‑76 (MQ=255)
ggTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTaa < 2:1273582/76‑1 (MQ=255)
gTCGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTaaa > 1:925537/1‑76 (MQ=255)
cGATCATAATCGCTTCGTTATCCCTTTGAACAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTAAAtt < 2:1765064/76‑1 (MQ=255)
cGATCATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTAAAtt > 2:1410642/1‑76 (MQ=255)
|
AAGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAATAATCGCTTCGTGATCGCTTTGATCAAGCACCGCCATATTGACCGTTTCGCCAGACTCTTCCATTAAATT > REL606/4202085‑4202229
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
