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 |
|
A11 F56 I1 R1
|
155 |
65.2 |
3164312 |
95.9% |
3034575 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,821,182 |
T→A |
V11V (GTA→GTT) |
chbC ← |
N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,821,182 | 0 | T | A | 92.3%
| 162.7
/ 2.4
| 52 | V11V (GTA→GTT) | chbC | N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS |
| Reads supporting (aligned to +/- strand): ref base T (3/1); new base A (23/25); total (26/26) |
| Fisher's exact test for biased strand distribution p-value = 6.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
GGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGTACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATAACTCTTTGACG > NC_000913/1821086‑1821281
|
ggCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAAcc > 2:873930/1‑100 (MQ=255)
ggCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAAcc > 1:3597/1‑100 (MQ=255)
cccGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCtttt < 1:1359947/100‑1 (MQ=255)
cGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCa > 2:5785/1‑100 (MQ=255)
ggTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGAt < 1:379528/100‑1 (MQ=255)
ggTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGAt < 2:1313926/100‑1 (MQ=255)
gTTAACGGCATTAAGCGAATAAAGCCATTTTTTTTTTTTTTTACGTGTGGCTGCTTTCCTATTTTAACTGCTTAAGGGAGGAGAACCTTTTCAAGc > 2:202468/1‑96 (MQ=255)
gTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATg < 1:1266091/100‑1 (MQ=255)
gTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAAGAGAACCTTTTCAAGCGATg < 2:966015/100‑1 (MQ=255)
ttAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGc < 2:1173344/100‑1 (MQ=255)
aCGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAAt > 2:209754/1‑100 (MQ=255)
gCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAAc < 2:1488422/100‑1 (MQ=255)
aGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACt > 1:837444/1‑100 (MQ=255)
aGCGAATAAAGCCATTTTTGATTGCACTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACt > 1:960848/1‑100 (MQ=255)
cGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCa < 2:1401805/100‑1 (MQ=255)
cGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCa < 2:1400564/100‑1 (MQ=255)
aaGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGaaa > 2:568292/1‑100 (MQ=255)
cATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATa > 1:1024866/1‑100 (MQ=255)
cATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATa > 2:1098403/1‑100 (MQ=255)
aTTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATAc < 1:608544/100‑1 (MQ=255)
ttttGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATAccc > 1:9391/1‑100 (MQ=255)
tttGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCt < 1:920069/100‑1 (MQ=255)
tctttAATGTGTGGCGGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAAc > 2:314386/4‑100 (MQ=255)
aTTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCg > 2:672445/1‑100 (MQ=255)
ttAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGc > 1:674829/1‑100 (MQ=255)
tAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGTACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACACTTAAAAACCGCa > 2:570600/1‑100 (MQ=255)
tAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCa > 2:41065/1‑100 (MQ=255)
aaCGTGTGGCTGCTTTCCTATTTTAACTTCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCa < 2:393339/99‑1 (MQ=255)
cGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAAtt < 1:587043/100‑1 (MQ=255)
gtgtGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAAttt > 1:35263/1‑100 (MQ=255)
gctgctTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAat < 2:1290202/99‑1 (MQ=255)
ctgctTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAatat > 1:820383/1‑100 (MQ=255)
gctTTCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTg < 1:914614/100‑1 (MQ=255)
ctTTCATATTTTAACTGCAAAAGGCAGGAGTAACTTTTCAAGCGATGCAATAACATTACACATAGAAAAATACCCTTAAAAACCGCAATTTAAATAGTGc < 2:234055/100‑1 (MQ=255)
ttCCTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCgg < 2:455258/100‑1 (MQ=255)
ccTATTTTAACTGCAAAAGGGAGGAGTACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTa > 2:1456115/1‑100 (MQ=255)
ccTATTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTa > 2:120961/1‑100 (MQ=255)
aTTTTAACTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTg < 1:209754/100‑1 (MQ=255)
aCTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTAt < 1:744373/100‑1 (MQ=255)
aCTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTAt > 1:742262/1‑100 (MQ=255)
cTGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATg < 1:1337310/100‑1 (MQ=255)
tGCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGa < 1:1167371/100‑1 (MQ=255)
gCAAGAGGGAGGAGAACCTGTTCAAGCGATGCAATAGCATTACGCATAGAGAAATACCCTTAAAAACCGCAATTTAAAGATTGCGGTATTGAttt < 2:63364/95‑1 (MQ=255)
gCAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGaa > 2:696286/1‑100 (MQ=255)
cAAAAGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGaaa < 1:630403/100‑1 (MQ=255)
agaaGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAAt < 2:960843/98‑1 (MQ=255)
aaaGGGAGGAGTACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATa > 2:463658/1‑100 (MQ=255)
aaaGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATa > 2:1303138/1‑100 (MQ=255)
aaaGGGAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATa > 2:893738/1‑100 (MQ=255)
gggAGGAGAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATAAct < 1:364260/100‑1 (MQ=255)
ggagAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATAACTCttt < 2:35263/100‑1 (MQ=255)
ggagAACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATAACTCttt > 2:1130097/1‑100 (MQ=255)
tACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATAACTCTTTGACg < 1:280108/100‑1 (MQ=255)
|
GGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTGCTTTCCTATTTTAACTGCAAAAGGGAGGAGTACCTTTTCAAGCGATGCAATAACATTACTCATAGAAAAATACCCTTAAAAACCGCAATTTAAATATTGCGGTATTGATTTATGAAATAACTCTTTGACG > NC_000913/1821086‑1821281
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
