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 |
|
A14 F1 I2 R1
|
774 |
49.2 |
2112398 |
96.9% |
2046913 |
118.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,432,994 |
(C)6→7 |
coding (567/1125 nt) |
smf ← |
DNA recombination‑mediator A family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,432,988 | 1 | . | C | 95.7%
| 148.4
/ ‑0.2
| 46 | coding (573/1125 nt) | smf | DNA recombination‑mediator A family protein |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (23/21); total (24/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.52e-01 |
GCTGTCACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCTTT > NC_000913/3432851‑3433101
|
gCTGTCACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg‑c < 2:428362/139‑1 (MQ=255)
cACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGGTTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑cccccc < 2:675268/139‑1 (MQ=255)
aaaGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCa > 1:878955/1‑139 (MQ=255)
cGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAg > 1:335799/1‑139 (MQ=255)
cTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTc > 2:286463/1‑139 (MQ=255)
cTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTc > 2:106219/1‑139 (MQ=255)
aGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCg > 1:176018/1‑129 (MQ=255)
aGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCg < 2:176018/129‑1 (MQ=255)
cacCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg < 2:574791/92‑1 (MQ=255)
cacCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg > 1:574791/1‑92 (MQ=255)
cacCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCggg > 1:926500/1‑139 (MQ=255)
acCTTTACTTAGACCACTGAGAATGCGATTTCTTCGTGGGAAATAGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCgggg < 2:1004499/139‑1 (MQ=255)
ccTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg > 2:815841/1‑135 (MQ=255)
ccTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg < 1:815841/135‑1 (MQ=255)
cTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGAt < 2:878955/139‑1 (MQ=255)
tACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGaa > 1:7773/1‑139 (MQ=255)
tACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGaa < 2:87593/139‑1 (MQ=255)
aCTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt < 2:335799/139‑1 (MQ=255)
aCTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt < 2:926500/139‑1 (MQ=255)
aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGa > 1:1050509/1‑131 (MQ=255)
aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGa < 2:1050509/131‑1 (MQ=255)
aCTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAg > 1:450237/1‑139 (MQ=255)
cTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcgg < 2:295804/118‑1 (MQ=255)
cTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcgg > 1:295804/1‑118 (MQ=255)
tGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTc > 1:483375/1‑139 (MQ=255)
tGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTc > 2:652555/1‑139 (MQ=255)
aTAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCa < 2:450237/139‑1 (MQ=255)
gCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTGTTAAGTCCATTccc < 2:7773/139‑1 (MQ=255)
gCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCa < 1:499683/134‑1 (MQ=255)
gCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCa > 2:499683/1‑134 (MQ=255)
gCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTccc > 1:333673/1‑139 (MQ=255)
aTTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CCCCACTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg < 2:316897/108‑1 (MQ=255)
aTTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CCCCACTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg > 1:316897/1‑108 (MQ=255)
ttcttcGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTc > 1:35437/1‑132 (MQ=255)
ttcttcGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTc < 2:35437/132‑1 (MQ=255)
tcGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTccc > 2:526267/1‑130 (MQ=255)
tcGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTccc < 1:526267/130‑1 (MQ=255)
atGTAAACAAGAGGTGTAACATCGAGGGGAAATACCGCGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACg < 2:312077/138‑1 (MQ=255)
gCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCAttt < 2:483375/139‑1 (MQ=255)
ggggTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGAt < 2:984261/88‑1 (MQ=255)
ggggTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGAt > 1:984261/1‑88 (MQ=255)
ggggTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCt > 2:78964/1‑139 (MQ=255)
aaCATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg > 2:319319/1‑76 (MQ=255)
aaCATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg < 1:319319/76‑1 (MQ=255)
aTCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGgctgc > 1:707559/1‑139 (MQ=255)
cGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCtt > 2:62407/1‑139 (MQ=255)
gAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCttt < 2:707559/139‑1 (MQ=255)
gAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCttt < 1:78964/139‑1 (MQ=255)
ggAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCa < 2:187435/88‑1 (MQ=255)
ggAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCa > 1:187435/1‑88 (MQ=255)
|
GCTGTCACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCTTT > NC_000913/3432851‑3433101
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
