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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,533,542 |
G→A |
35.4% |
P51S (CCT→TCT) |
prmB ← |
N5‑glutamine methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,533,542 | 0 | G | A | 35.4%
| 50.8
/ 43.3
| 48 | P51S (CCT→TCT) | prmB | N5‑glutamine methyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (21/10); new base A (11/6); total (32/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTTTCGCTGGAGGTCAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATATTTGCCG > minE/1533474‑1533607
|
tttttCGCTGGAGGTCAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGc < 1:1144480/70‑1 (MQ=255)
tttttCGCTGGAGGTCAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGc < 1:4103914/70‑1 (MQ=255)
tttttCGCTGGAGGTCAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGc > 1:3302717/1‑70 (MQ=255)
tttCGCTGGAGGTCAGACGCGCGGTGCGCATTTCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGACaa < 1:713360/70‑1 (MQ=255)
tttCGCTGGAGGTCAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGACaa < 1:3491441/70‑1 (MQ=255)
cAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACgg > 1:1716070/1‑71 (MQ=255)
cAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACgg > 1:625869/1‑71 (MQ=255)
cAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTg > 1:146520/1‑66 (MQ=255)
cAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTg > 1:3136695/1‑66 (MQ=255)
cAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTGTACgg > 1:406251/1‑71 (MQ=255)
cAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTGTACg > 1:2391633/1‑70 (MQ=255)
cAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTGTACg > 1:2515951/1‑70 (MQ=255)
cgcgGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCAt < 1:1589016/71‑1 (MQ=255)
cATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAaca > 1:1730242/1‑44 (MQ=255)
cATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGt > 1:2374656/1‑71 (MQ=255)
cATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGt > 1:1511101/1‑71 (MQ=255)
cATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGt > 1:618988/1‑71 (MQ=255)
atCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAaca > 1:1291472/1‑41 (MQ=255)
atCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAaca > 1:2059314/1‑41 (MQ=255)
atCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAaca > 1:347182/1‑41 (MQ=255)
atCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAaca > 1:741374/1‑41 (MQ=255)
ttCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCgg > 1:526607/1‑71 (MQ=255)
ttCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCgg > 1:1957459/1‑71 (MQ=255)
tCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGtt < 1:3405011/65‑1 (MQ=255)
ccGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATc < 1:2120385/67‑1 (MQ=255)
ccGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATc < 1:2584765/67‑1 (MQ=255)
ccGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATc < 1:2738131/67‑1 (MQ=255)
ccGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATc < 1:1837882/67‑1 (MQ=255)
ccGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCgg < 1:737961/69‑1 (MQ=255)
ccGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCgg < 1:1245170/69‑1 (MQ=255)
ccGGAATATCCAGCGGCAGGTAGAGCGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCgg < 1:749709/69‑1 (MQ=255)
tCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGAcc > 1:71184/1‑71 (MQ=255)
tCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGAcc > 1:1619163/1‑71 (MQ=255)
tCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGAcc > 1:1592452/1‑71 (MQ=255)
cAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCAt > 1:2291991/1‑44 (MQ=255)
cAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCg > 1:221454/1‑70 (MQ=255)
cAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCg < 1:1192604/70‑1 (MQ=255)
ggCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTAc > 1:1962272/1‑69 (MQ=255)
gaagagCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTAc < 1:780222/62‑1 (MQ=255)
tAGAGCGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATAtt < 1:2655619/71‑1 (MQ=255)
agagCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATAttt > 1:51418/1‑71 (MQ=255)
agagCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATAttt > 1:1147796/1‑71 (MQ=255)
agagCGAAGACAACACCAGCTGTACGGCTTCATcc > 1:2571183/1‑35 (MQ=255)
agagCGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTa > 1:1476817/1‑50 (MQ=255)
agagCGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATAttt > 1:1371595/1‑71 (MQ=255)
agagCGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATAtt > 1:2246957/1‑70 (MQ=255)
cGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATATTTGCcg > 1:337362/1‑71 (MQ=255)
cGAAGACAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATATTTGCcg > 1:1220147/1‑71 (MQ=255)
|
TTTTTCGCTGGAGGTCAGACGCGCGGTGCGCATATCTTCCGGAATATCCAGCGGCAGGTAGAGCGAAGGCAACACCAGCTGTACGGCTTCATCCCACGGGTTATCGGTACCGTGACCGTACCAGATATTTGCCG > minE/1533474‑1533607
|
| 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
