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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,277,612 |
A→G |
46.7% |
S379S (AGT→AGC) |
btuB ← |
vitamin B12/cobalamin outer membrane transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,277,612 | 0 | A | G | 46.7%
| 3.9
/ 64.4
| 75 | S379S (AGT→AGC) | btuB | vitamin B12/cobalamin outer membrane transporter |
| Reads supporting (aligned to +/- strand): ref base A (29/11); new base G (7/28); total (36/39) |
| Fisher's exact test for biased strand distribution p-value = 7.34e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01 |
GTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGCCGGT > minE/2277571‑2277677
|
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:994301/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:3189382/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:315295/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:407345/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:2830014/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:2805733/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:2677232/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:2675729/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:2464005/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:220802/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:2136951/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:621038/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:1899679/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:835301/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:1518640/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:1471330/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:1224927/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:1234133/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:1302995/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:142466/47‑1 (MQ=255)
gTTTGCCAGGTACCATGACGACCAAACTGAGAATTATCGTCGCTGCg < 1:1394548/47‑1 (MQ=255)
ttCCATGACGACCAAACTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACtt < 1:835398/69‑1 (MQ=255)
tCCATGACGACCAAACTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACttg > 1:1716949/1‑69 (MQ=255)
tCCATGACGACCAAACTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACtt < 1:361020/68‑1 (MQ=255)
ccATGACGACCAAACTGAGAATTATCTTCGCTGCg < 1:510142/35‑1 (MQ=19)
acgacCAAACTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAg > 1:2220327/1‑69 (MQ=255)
cgacCAAACTGAGAATTATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAg > 1:1898742/1‑68 (MQ=255)
cgacCAAACTGAGAATTATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAg > 1:358266/1‑68 (MQ=255)
cgacCAAACTGAGAATTATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAg > 1:1140641/1‑68 (MQ=255)
cgacCAAACTGAGAATTATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAg > 1:442789/1‑68 (MQ=255)
cgacCAAACTGAGAATTATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAg > 1:2652026/1‑68 (MQ=255)
cgacCAAACTGAGAATTATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTCGCTGCAg > 1:387305/1‑68 (MQ=255)
cgacCAAACTGAGAATTATCGTCGCAGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAg > 1:861381/1‑68 (MQ=255)
aCTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa < 1:1543739/69‑1 (MQ=255)
aCTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa < 1:323795/69‑1 (MQ=255)
aCTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa < 1:416026/69‑1 (MQ=255)
tgtgAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCaga < 1:3300946/69‑1 (MQ=255)
tgtgAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCaga < 1:1669890/69‑1 (MQ=255)
tgtgAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCaga < 1:1835946/69‑1 (MQ=255)
aGTTATCGTCACTGCTTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCagata < 1:2651043/67‑1 (MQ=255)
aGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCagataga > 1:2376560/1‑69 (MQ=255)
aGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCagataga > 1:1108553/1‑69 (MQ=255)
aGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCagata < 1:2777580/67‑1 (MQ=255)
attATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAGCCCAGTCagatagat < 1:1990297/68‑1 (MQ=255)
attATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAGCCCAGTCagatagat < 1:1994254/68‑1 (MQ=255)
attATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAGCCCAGTCagatagat < 1:1826605/68‑1 (MQ=255)
attATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAGCCCAGTCagatagat < 1:1743977/68‑1 (MQ=255)
attATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAGCCCAGTCagatagat < 1:2314032/68‑1 (MQ=255)
attATCGTCGCTGCGTCCTGCGCCTTCAAAAGTAAAATCGCCGACTTGCTGCAGCCCAGTCagatagat < 1:448117/68‑1 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTTAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:1224645/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa > 1:3329377/1‑59 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa > 1:331614/1‑59 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa > 1:1497401/1‑59 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa > 1:2971345/1‑59 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa > 1:2820658/1‑59 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCa > 1:1307019/1‑59 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATGGATGcc > 1:1805626/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:2566580/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:963159/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:447381/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:385943/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:2783055/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:2764923/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:2651802/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:2409963/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:1765728/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:1364270/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:1287081/1‑69 (MQ=255)
aTCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:1087534/1‑69 (MQ=255)
aTCGTCACTGCGTACTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGcc > 1:28792/1‑69 (MQ=255)
gTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGCCgg < 1:1088309/68‑1 (MQ=255)
gTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGCCGGt > 1:2892193/1‑69 (MQ=255)
gTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGCCGGt > 1:1008764/1‑69 (MQ=255)
gTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGCCGGt > 1:59919/1‑69 (MQ=255)
gTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGCCGGt > 1:2039455/1‑69 (MQ=255)
|
GTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGTCACTGCGTGCTGCGCCTTCAAAGGTAAAATCGCCGACTTGTTGCAGCCCGGTCAGATAGATGCCGGT > minE/2277571‑2277677
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
