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 F212 I1 R1
|
174 |
80.0 |
3892211 |
96.7% |
3763768 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,681,932 |
T→C |
P33P (CCA→CCG) |
ydgC ← |
GlpM family inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,681,932 | 0 | T | C | 92.8%
| 213.5
/ 5.5
| 70 | P33P (CCA→CCG) | ydgC | GlpM family inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (1/4); new base C (36/28); total (38/32) |
| Fisher's exact test for biased strand distribution p-value = 1.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01 |
ACCACATACTAAAAATGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGTGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGATTACCAGCCC > NC_000913/1681838‑1682027
|
aCCACATACTAAAAATGGTGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGAGATAAGCGCAAAGGTCGGGAAAAGCGGAAt > 1:1819982/1‑100 (MQ=255)
ccACATACTAAAAATGATGGTTGCGCATAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATc > 2:1189172/1‑100 (MQ=255)
cacaTACTAAAAATGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGGAAAGCGGAATCa > 1:173452/1‑100 (MQ=255)
cTAAAAATGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCgg > 1:305864/1‑100 (MQ=255)
tAAAAATGATGGTTGCGCGTAAGGCTTCAAGGCAGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAGTCAGCCCGGc > 1:1276429/1‑100 (MQ=255)
tAAAAATGATGGTTGCGCGTAAGGCTTAAATGCCGCGTTCGGTGGCAACAATATAATGCGCGATAAGCGCAAAACTCGAGAAAAGAGAAATCAGcc > 1:5110/1‑96 (MQ=255)
aaaaaTGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCg > 1:958323/1‑100 (MQ=255)
aaaTGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGat > 1:391999/1‑100 (MQ=255)
aaTGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGata < 1:752263/100‑1 (MQ=255)
aaTGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGata > 2:755263/1‑100 (MQ=255)
aaTGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGata > 1:420293/1‑100 (MQ=255)
tgatgGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGAtata > 2:759568/1‑100 (MQ=255)
gatgGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATataa > 1:1531527/1‑100 (MQ=255)
ggTTGCGCGTAAGGCTTCAGTGCCGCGTTCGGTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGatat < 1:1183232/95‑1 (MQ=255)
gTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATaataat < 2:613639/100‑1 (MQ=255)
gcgcGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAAtttt > 2:1286094/1‑100 (MQ=255)
cgcgTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAAttttt < 2:1666298/100‑1 (MQ=255)
gcgTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTc < 1:2030/100‑1 (MQ=255)
cgTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCg < 1:1113063/100‑1 (MQ=255)
tAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGtt > 1:33539/1‑100 (MQ=255)
aGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGtttt < 1:1509481/100‑1 (MQ=255)
aGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGtttt < 1:327372/100‑1 (MQ=255)
aGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGtttt > 1:713008/1‑100 (MQ=255)
ggCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCCCCGTCCGGGAAAAGCGGAATCAGCCCGCCGAAATAATAATTTTTCGttttt > 1:1731978/1‑100 (MQ=255)
ggCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGttttt < 2:1121496/100‑1 (MQ=255)
ggCTTCAATGCCGCGTTCGCTGGAAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGTGGAATCAGCCCGGCGATATAATAATTTTTCGttttt < 1:576256/100‑1 (MQ=255)
gCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTg < 1:253947/100‑1 (MQ=255)
cTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGc < 1:771548/100‑1 (MQ=255)
cTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGc > 2:1201917/1‑100 (MQ=255)
cTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGc > 1:591958/1‑100 (MQ=255)
cTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGc > 1:1806051/1‑100 (MQ=255)
tCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGTGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTa < 1:593404/100‑1 (MQ=255)
tCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTa < 2:788435/100‑1 (MQ=255)
tCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTa > 2:1630440/1‑100 (MQ=255)
aaTGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTaaa > 1:1564947/1‑100 (MQ=255)
aaTGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTaaa > 2:1285870/1‑100 (MQ=255)
aaTGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTaaa < 1:234086/100‑1 (MQ=255)
nccGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAaca > 2:194184/2‑100 (MQ=255)
ccGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAacac < 2:1094096/100‑1 (MQ=255)
ttCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATc > 2:916070/1‑100 (MQ=255)
tCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGTGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCa < 2:1643862/100‑1 (MQ=255)
tCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCa > 2:1260683/1‑100 (MQ=255)
cGCTGGCAACAATATAATGCGCGATAAGCGAAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATGTAATAATTTTTCGTTTTTGCTAAAACACCAATCaa < 1:388551/100‑1 (MQ=255)
gCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAAc < 2:1709147/100‑1 (MQ=255)
gCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAAc > 2:688880/1‑100 (MQ=255)
tGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAg > 1:1146097/1‑100 (MQ=255)
ggCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGc < 2:938759/100‑1 (MQ=255)
acaaTATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTa > 1:1295703/1‑100 (MQ=255)
acaaTATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTa < 2:844938/100‑1 (MQ=255)
atatAATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTCATAAAACACCAATCAACAGCACTACCa > 1:717970/1‑100 (MQ=255)
taATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAgcg > 1:1298/1‑100 (MQ=255)
taATGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAgcg < 2:1564958/100‑1 (MQ=255)
tGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCAc < 1:758328/100‑1 (MQ=255)
tGCGCGATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCAc < 1:1015699/100‑1 (MQ=255)
cgATAAGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAg > 1:416611/1‑100 (MQ=255)
aGCGCAAAGGTCGGGAAAAGTGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCgg > 2:1364642/1‑100 (MQ=255)
aGCGCAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCgg > 1:1838013/1‑100 (MQ=255)
ncgcAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTTCTTTATTTTCAATCAACAGAACTACCACGGCAGTGAGCGCgg > 1:1622153/2‑99 (MQ=255)
gcgcAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGc < 1:955573/100‑1 (MQ=255)
gcAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCtt < 2:1518656/100‑1 (MQ=255)
gcAAAGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCtt < 1:30214/100‑1 (MQ=255)
aGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGAt > 2:108510/1‑100 (MQ=255)
aGGTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGAt < 2:420295/100‑1 (MQ=255)
ggTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGAtt < 2:72776/100‑1 (MQ=255)
ggTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGAtt < 1:417148/100‑1 (MQ=255)
gTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGAtt > 2:1942457/1‑99 (MQ=255)
gTCGGGAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGATTa > 1:931922/1‑100 (MQ=255)
gAAAAGTGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGATTACCAGc < 1:1910447/100‑1 (MQ=255)
gAAAAGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGATTACCAGc > 2:1073692/1‑100 (MQ=255)
aaaGCGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGATTACCAGccc < 2:392001/100‑1 (MQ=255)
|
ACCACATACTAAAAATGATGGTTGCGCGTAAGGCTTCAATGCCGCGTTCGCTGGCAACAATATAATGCGCGATAAGCGCAAAGGTCGGGAAAAGTGGAATCAGCCCGGCGATATAATAATTTTTCGTTTTTGCTAAAACACCAATCAACAGCACTACCAGCGCACCGAGCGCGGCTTTGATTACCAGCCC > NC_000913/1681838‑1682027
|
| 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
