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 |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,421,418 |
C→T |
R12Q (CGG→CAG) |
yjfO ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,421,418 | 0 | C | T | 75.8%
| 233.9
/ 81.5
| 124 | R12Q (CGG→CAG) | yjfO | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (15/15); new base T (57/37); total (72/52) |
| Fisher's exact test for biased strand distribution p-value = 3.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
Only 100 of 124 total aligned reads displayed.
GCTGTGGCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCTTA > W3110S.gb/4421353‑4421466
|
gctgTGGCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACCGGt > 1:600870/1‑69 (MQ=255)
gctgTGGCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACCGGTa > 1:1768417/1‑70 (MQ=255)
gctgTGGCGTACCTTGCAGTGCGCTACAGGCAATTAACATCAACACCAATAATAAACTGGCAAACCGGTa > 1:2838372/1‑70 (MQ=255)
tgGCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAAt < 1:4107466/69‑1 (MQ=255)
gCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAAc > 1:2408376/1‑70 (MQ=255)
gCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACg > 1:3163305/1‑71 (MQ=255)
gCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACg > 1:2663826/1‑71 (MQ=255)
aGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:3499162/64‑1 (MQ=255)
aGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:3950957/64‑1 (MQ=255)
aGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:1898894/64‑1 (MQ=255)
aGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:1229226/64‑1 (MQ=255)
aGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:2763931/64‑1 (MQ=255)
aGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:3574999/64‑1 (MQ=255)
aGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:1000537/64‑1 (MQ=255)
tGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTa > 1:2229599/1‑64 (MQ=255)
tGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTa > 1:3891598/1‑64 (MQ=255)
tGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTa > 1:83289/1‑64 (MQ=255)
ggcTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTg > 1:1624113/2‑71 (MQ=255)
cgcTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCt > 1:3824555/1‑70 (MQ=255)
cgcTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTg > 1:3504233/1‑71 (MQ=255)
cgcTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTg > 1:3672001/1‑71 (MQ=255)
cgcTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTg > 1:556676/1‑71 (MQ=255)
cgcTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTg > 1:3376388/1‑71 (MQ=255)
cgcTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTg > 1:12992/1‑71 (MQ=255)
tACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGttt < 1:1635595/64‑1 (MQ=255)
tACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGttt < 1:1647211/64‑1 (MQ=255)
tACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGttt < 1:1385545/64‑1 (MQ=255)
tACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGttt < 1:2258200/64‑1 (MQ=255)
tACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGttt < 1:63352/64‑1 (MQ=255)
tACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGttt < 1:1446549/64‑1 (MQ=255)
tACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGttt < 1:2096956/64‑1 (MQ=255)
aCTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt < 1:3985197/50‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCt < 1:3846070/47‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCt < 1:454199/47‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCt < 1:1338751/47‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCt < 1:1361014/47‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:3464706/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:3042185/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:2310645/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:1842646/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:133733/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:1276284/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:60034/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:1000790/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCT‑ACCAtagtg > 1:2762842/1‑71 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGc < 1:3644007/46‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGc < 1:2617361/46‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGc < 1:466959/46‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGc < 1:3293693/46‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGc < 1:1112184/46‑1 (MQ=255)
cTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGc < 1:286965/46‑1 (MQ=255)
cTTAACATCAACACAAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:976836/1‑71 (MQ=255)
cTTAACAACAACACCAATAATAAACTGGCAAACTGCTAAATAACGCTATTACGTTTCCTGCTAACCAtagt > 1:2417281/1‑71 (MQ=255)
tAACATCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTAt > 1:1161044/1‑47 (MQ=255)
cATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGt < 1:3119142/49‑1 (MQ=255)
cATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGt < 1:3766693/49‑1 (MQ=255)
cATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGt < 1:3221478/49‑1 (MQ=255)
cATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGt < 1:1226486/49‑1 (MQ=255)
cATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGt < 1:357758/49‑1 (MQ=255)
tCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCa < 1:2949667/60‑1 (MQ=255)
tCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCa < 1:299547/60‑1 (MQ=255)
tCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCa < 1:1760065/60‑1 (MQ=255)
tCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCa < 1:1213459/60‑1 (MQ=255)
tCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCa < 1:1397065/60‑1 (MQ=255)
tCAACACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCa < 1:1267986/60‑1 (MQ=255)
tCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGttt > 1:1924853/1‑49 (MQ=255)
tCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGttt > 1:356613/1‑49 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:133682/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:543794/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:2362042/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:2112767/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:1632822/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:1162680/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:3681240/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:868384/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:3160178/1‑60 (MQ=255)
aaCACCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:3851941/1‑60 (MQ=255)
cacCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCtta > 1:1284904/1‑71 (MQ=255)
cacCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCtta > 1:3771018/1‑71 (MQ=255)
cacCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCtta > 1:3811611/1‑71 (MQ=255)
cacCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCtta > 1:2998958/1‑71 (MQ=255)
cacCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCtta > 1:3650070/1‑71 (MQ=255)
acCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTc > 1:353110/1‑45 (MQ=255)
acCAATAATAAACTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCa < 1:2898391/55‑1 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:3857994/1‑51 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:2047461/1‑51 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:775609/1‑51 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:2697767/1‑51 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:2686810/1‑51 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:3577742/1‑51 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:1410119/1‑51 (MQ=255)
aataaACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCAta > 1:2079503/1‑51 (MQ=255)
aaCTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGc < 1:501577/56‑1 (MQ=255)
aaCTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGc < 1:1225255/56‑1 (MQ=255)
aaCTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGc < 1:4083199/56‑1 (MQ=255)
aaCTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGc < 1:4015970/56‑1 (MQ=255)
aCTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGc < 1:351471/55‑1 (MQ=255)
cTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTaa > 1:229230/1‑40 (MQ=255)
cTGGCAAACTGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCt > 1:2234299/1‑56 (MQ=255)
cTGCCAAACTGGTAAATAACGCTATTACGTTTcctcct > 1:3270132/1‑38 (MQ=37)
|
GCTGTGGCGTACCTTGCAGTGCGCTACAGGCACTTAACATCAACACCAATAATAAACTGGCAAACCGGTAAATAACGCTATTACGTTTCCTGCTAACCATAGTGTAGTGCCTTA > W3110S.gb/4421353‑4421466
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
