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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
821,535 |
G→T |
29.7% |
intergenic (‑72/+382) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,535 | 0 | G | T | 29.7%
| 71.8
/ 19.6
| 37 | intergenic (‑72/+382) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base G (13/13); new base T (5/6); total (18/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
GCCGCCTTGTTGTAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTC > minE/821493‑821603
|
gccgccTTGTTGTAATGACAACATTTTGCGGCTATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTc < 1:3827101/71‑1 (MQ=11)
cgccTTGTTGTAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCtg < 1:1149623/71‑1 (MQ=34)
gccTTGTTGTAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCtgt < 1:1230947/71‑1 (MQ=34)
gccTTGTTGTAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCtgt > 1:1341759/1‑71 (MQ=34)
gttgtAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTc < 1:766228/70‑1 (MQ=35)
gttgtAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCACCGTTCtgttg > 1:1255598/1‑68 (MQ=25)
tAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGtt > 1:3045701/1‑71 (MQ=34)
tAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGtt > 1:3050300/1‑71 (MQ=34)
tAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGt < 1:371555/70‑1 (MQ=35)
tGACAACATTTTGCGGCTATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTa > 1:1253158/1‑71 (MQ=11)
tGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa < 1:196800/71‑1 (MQ=34)
tGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa > 1:2540806/1‑71 (MQ=34)
ttttGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCaa > 1:2809023/1‑71 (MQ=34)
tttGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAAc > 1:2311261/1‑71 (MQ=34)
gCGGCTATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGt < 1:869883/70‑1 (MQ=11)
gCTATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCgg < 1:2183978/71‑1 (MQ=11)
gCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCgg < 1:770188/71‑1 (MQ=34)
gCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCgg < 1:3169187/71‑1 (MQ=34)
cTATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCggg > 1:3039768/1‑71 (MQ=11)
cTATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCggg > 1:3641791/1‑71 (MQ=11)
cTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTAc > 1:626545/1‑56 (MQ=35)
tATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCa < 1:3120075/47‑1 (MQ=11)
tATTCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACctct > 1:135042/1‑59 (MQ=11)
tATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTAc > 1:3402600/1‑55 (MQ=35)
aTTCTTGTAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTc < 1:2972425/45‑1 (MQ=255)
ttCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGc < 1:318933/65‑1 (MQ=11)
ttCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGAGGGt > 1:3699716/1‑71 (MQ=21)
tCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCtgttgt < 1:3756497/42‑1 (MQ=38)
cTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGttt > 1:808936/1‑71 (MQ=34)
ttGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAAc < 1:506088/58‑1 (MQ=11)
ttGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGttt > 1:110065/1‑70 (MQ=11)
ttGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGtttt < 1:3690061/48‑1 (MQ=38)
tGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTtc > 1:209765/1‑71 (MQ=34)
aaGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGtt < 1:546272/43‑1 (MQ=38)
aaGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTtctc < 1:2216441/71‑1 (MQ=34)
aGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCtgttg < 1:298772/35‑1 (MQ=40)
aGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGttt > 1:1725563/1‑43 (MQ=38)
|
GCCGCCTTGTTGTAATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTC > minE/821493‑821603
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
