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 F142 I0 R1
|
175 |
91.2 |
4812830 |
94.5% |
4548124 |
99.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
2,291,084 |
A→C |
51.4% |
K195N (AAA→AAC) |
narP → |
response regulator in two‑component regulatory system with NarQ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,291,084 | 0 | A | C | 51.4%
| 12.2
/ 98.1
| 73 | K195N (AAA→AAC) | narP | response regulator in two‑component regulatory system with NarQ |
| Reads supporting (aligned to +/- strand): ref base A (20/15); new base C (23/14); total (44/29) |
| Fisher's exact test for biased strand distribution p-value = 8.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.11e-01 |
ACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATT > NC_000913/2290987‑2291182
|
aCGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACt < 2:101742/100‑1 (MQ=255)
gAGGTGGCGGAGGGGGTGTCAAATAAACAGAGTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCt < 2:2146694/98‑1 (MQ=255)
gCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAAt < 1:578891/100‑1 (MQ=255)
cTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATg < 2:2317731/100‑1 (MQ=255)
cTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATg < 2:368879/100‑1 (MQ=255)
cacaGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCg > 2:318950/1‑100 (MQ=255)
tgggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCa > 2:273287/2‑100 (MQ=255)
ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCa > 1:302372/1‑100 (MQ=255)
ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCa < 2:947050/100‑1 (MQ=255)
ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCa > 2:1977532/1‑100 (MQ=255)
gCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCAcgc > 2:1723293/1‑100 (MQ=255)
gCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCAcgc > 2:1635645/1‑100 (MQ=255)
gCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCAcgc > 1:452288/1‑100 (MQ=255)
cTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCAcgcg < 2:2327587/100‑1 (MQ=255)
tGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGt > 2:529159/1‑100 (MQ=255)
gTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCAcgc > 2:1551388/1‑97 (MQ=255)
gTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTg < 1:2239172/100‑1 (MQ=255)
tCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGGCCGCTCACGCGTg < 2:2160291/99‑1 (MQ=255)
cAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTggc > 2:2254922/1‑100 (MQ=255)
cAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACACGTagc > 1:33556/1‑100 (MQ=255)
cAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCATggc > 1:1311731/1‑100 (MQ=255)
aaaTAAACAGATTGCCTCAGAGTTGAATATTACCGAGAAGACAGTAAAAGTACATATTAGCAATCTGATGCGTAATCTCAATGTCCGCTCACGCGTggcg > 2:2059391/1‑100 (MQ=255)
aaTAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAATTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTggcgg < 1:577571/100‑1 (MQ=255)
aTAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTggcggc > 1:1853203/1‑100 (MQ=255)
tAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGcc > 1:1700685/1‑100 (MQ=255)
tAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGcc < 2:194922/100‑1 (MQ=255)
tAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGcc > 2:1587863/1‑100 (MQ=255)
aaaCAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGcca < 1:1695992/100‑1 (MQ=255)
aaCAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGccac < 2:1551204/100‑1 (MQ=255)
aaCAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGccac > 2:1506674/1‑100 (MQ=255)
aaCAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGccac > 1:2347081/1‑100 (MQ=255)
aaCAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGccac < 2:1051339/100‑1 (MQ=255)
aGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCAt > 2:286629/1‑100 (MQ=255)
gATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCAtt > 2:1963346/1‑100 (MQ=255)
aTTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTc < 2:1087707/100‑1 (MQ=255)
cTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTc > 1:831547/1‑100 (MQ=255)
cTCGGTGTTGAATATTTCCAAGCAGACAGTAAAAGTACATATTCGCAATCTGCTCCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTc < 2:2263259/100‑1 (MQ=255)
tctgtgtTGAATATTTCCGAGCAGACATTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTcc < 2:2134262/97‑1 (MQ=255)
tgtTGAATATTTCCGAGCAGACAGTAAAAGTATATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGca < 2:2240115/100‑1 (MQ=255)
tgtTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTg < 2:2100244/98‑1 (MQ=255)
ttGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGcaac > 1:2156330/1‑100 (MQ=255)
tGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGcaaca > 1:2248310/1‑100 (MQ=255)
tGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGcaaca > 1:274991/1‑100 (MQ=255)
gAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGcaacaa > 1:19859/1‑100 (MQ=255)
aaTATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTCGCGGCCACCATTCTGTTCCTGCaacaac > 1:823294/1‑100 (MQ=255)
aaTATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCaacaac > 2:985253/1‑100 (MQ=255)
tttCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCgg > 1:1872554/1‑100 (MQ=255)
gAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGcac > 2:66944/1‑100 (MQ=255)
gACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATaa > 2:1417349/1‑100 (MQ=255)
gACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATaa > 1:1366621/1‑100 (MQ=255)
gACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATaa > 1:172448/1‑100 (MQ=255)
gACAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATaa < 2:1585196/100‑1 (MQ=255)
cAGTAAAAGTACCTATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATaaa < 2:2405784/99‑1 (MQ=255)
cAGTAAAAGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATaaaa > 2:1269241/1‑100 (MQ=255)
gTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGACCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAAt > 2:2168011/1‑100 (MQ=255)
tAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATa < 2:1637489/100‑1 (MQ=255)
aaaaGTACATATTCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAg > 2:743586/1‑100 (MQ=255)
aaaaGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAg < 1:252564/100‑1 (MQ=255)
aaGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGcc < 1:1351468/100‑1 (MQ=255)
aGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGccc > 2:540598/1‑100 (MQ=255)
aCATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGAt > 1:679016/1‑100 (MQ=255)
tatTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGa > 1:1585174/1‑100 (MQ=255)
tatTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGa > 2:1609904/1‑100 (MQ=255)
ttCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGAtt < 2:1136977/100‑1 (MQ=255)
ttCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGa > 2:448909/1‑98 (MQ=255)
ttCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGAtt > 1:1530762/1‑100 (MQ=255)
tCGCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGAttt < 2:1872532/100‑1 (MQ=255)
cGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTa > 2:1998392/1‑100 (MQ=255)
gCAATCTGCTGCGTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTat > 1:1354549/1‑100 (MQ=255)
aTCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTACTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTatc < 1:946675/98‑1 (MQ=255)
ctgcggCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTACCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCg < 2:1181864/100‑1 (MQ=255)
ctgcGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGc < 2:1867451/100‑1 (MQ=255)
gTAACCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTgag > 2:929606/1‑100 (MQ=255)
aaaCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGAt > 2:1644749/1‑100 (MQ=255)
aaCTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGAtt > 1:1192937/1‑100 (MQ=255)
|
ACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATT > NC_000913/2290987‑2291182
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
