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 |
|
A54 F1 I1 R1
|
16 |
53.7 |
3449390 |
96.4% |
3325211 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,928,259 |
A→T |
I15F (ATC→TTC) |
rho → |
transcription termination factor Rho |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,928,259 | 0 | A | T | 95.1%
| 231.5
/ 3.2
| 61 | I15F (ATC→TTC) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base A (1/2); new base T (23/35); total (24/37) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.05e-01 |
TTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCC > REL606/3928188‑3928327
|
ttACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCAc > 1:1054711/1‑76 (MQ=255)
tACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCAct > 2:308390/1‑76 (MQ=255)
tACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCAct < 1:512815/76‑1 (MQ=255)
cccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACtctc < 2:1330166/76‑1 (MQ=255)
cccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACtctc < 2:1615375/76‑1 (MQ=255)
cAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCgg > 1:804928/1‑76 (MQ=255)
aaGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGc < 2:493606/76‑1 (MQ=255)
aGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCg < 2:1239620/76‑1 (MQ=255)
tttAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGaa < 1:354244/76‑1 (MQ=255)
tAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGaaaa > 1:803855/1‑76 (MQ=255)
aaGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAat < 1:227678/76‑1 (MQ=255)
aGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAata > 2:1365004/1‑76 (MQ=255)
aGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAata < 1:974870/76‑1 (MQ=255)
taaCTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAatat > 2:190630/2‑76 (MQ=255)
aaCTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATg > 1:386779/1‑76 (MQ=255)
aaCTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATg > 1:386798/1‑76 (MQ=255)
tCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATgggg < 1:950473/76‑1 (MQ=255)
cacaCCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGc > 2:876990/1‑76 (MQ=255)
cacaCCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGc > 2:200546/1‑76 (MQ=255)
cacaCCACTATGAATCTTACCGAATTAAAGAATACGCCGATTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGc > 2:527725/1‑76 (MQ=255)
acacCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCt < 1:668242/76‑1 (MQ=255)
caccacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTg < 1:1239038/76‑1 (MQ=255)
ccacTATGAATCTTACCAAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGa < 1:360440/76‑1 (MQ=255)
cTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGaaaa < 1:97172/76‑1 (MQ=255)
tCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCt < 2:1647518/76‑1 (MQ=255)
tACCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGt < 1:1008864/76‑1 (MQ=255)
aCCGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTa < 2:139196/76‑1 (MQ=255)
ccGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTAt < 2:1100724/76‑1 (MQ=255)
cGAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATg < 2:804927/76‑1 (MQ=255)
gAATTAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGc < 1:1705251/76‑1 (MQ=255)
aaTTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCg < 1:785439/76‑1 (MQ=255)
ttAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTa < 2:758289/76‑1 (MQ=255)
ttAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTa < 1:18902/76‑1 (MQ=255)
ttAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTa < 1:308391/76‑1 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGtga < 2:1575077/76‑3 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa < 1:785653/76‑1 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa < 2:1614569/76‑1 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa > 1:807673/1‑76 (MQ=255)
aaaGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg > 1:1263558/1‑76 (MQ=255)
aaGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGc < 1:335157/76‑1 (MQ=255)
aaGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGc < 2:511921/76‑1 (MQ=255)
aGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCa < 2:368875/76‑1 (MQ=255)
aGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCa > 2:1271410/1‑76 (MQ=255)
aGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCa < 2:368861/76‑1 (MQ=255)
aGAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCa > 1:1032411/1‑76 (MQ=255)
gAATACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAg > 1:475415/1‑76 (MQ=255)
aaTACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGt < 1:319212/63‑1 (MQ=255)
aaTACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGt > 2:319211/1‑63 (MQ=255)
aaTACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAgg < 2:930296/76‑1 (MQ=255)
tACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGAc < 1:567306/76‑1 (MQ=255)
tACGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGAc > 2:681456/1‑76 (MQ=255)
cGCCGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACat < 1:1374018/76‑1 (MQ=255)
cGGTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACattat < 1:1088032/76‑1 (MQ=255)
ggTTTCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACattatt > 1:1012908/1‑76 (MQ=255)
tttCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAtttt < 2:1576687/76‑1 (MQ=255)
tttCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAtttt < 2:1576682/76‑1 (MQ=255)
tttCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAtttt < 2:1038447/76‑1 (MQ=255)
tttCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAtttt > 1:329900/1‑76 (MQ=255)
nttCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAtttt > 1:173989/2‑76 (MQ=255)
ttCTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttttt > 1:66523/1‑76 (MQ=255)
cTGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGc > 2:957769/1‑76 (MQ=255)
tGAGCTGTTCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGcc > 1:266267/1‑76 (MQ=255)
|
TTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCC > REL606/3928188‑3928327
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
