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 |
2,449,137 |
T→C |
54.4% |
C174C (TGT→TGC) |
yifB → |
predicted bifunctional protein, enzyme and transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,449,137 | 0 | T | C | 54.4%
| 7.9
/ 44.6
| 57 | C174C (TGT→TGC) | yifB | predicted bifunctional protein, enzyme and transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base T (17/9); new base C (14/17); total (31/26) |
| Fisher's exact test for biased strand distribution p-value = 1.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGGGCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGATGCAGTATCCCGGGCGC > minE/2449083‑2449201
|
tgggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:1041759/68‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:2372088/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:551541/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:3306960/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:2725655/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:2585365/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:2097779/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:1856632/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:1665840/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:1296537/69‑1 (MQ=255)
ggggCTAATTAACGGTGAAGAATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:1599631/69‑1 (MQ=255)
ggggCTAATAAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAgg < 1:761008/69‑1 (MQ=255)
aTTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCAc > 1:1356680/1‑69 (MQ=255)
aTTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCAc > 1:134519/1‑69 (MQ=255)
aTTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCAc > 1:533688/1‑69 (MQ=255)
aTTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCAc > 1:282037/1‑69 (MQ=255)
aTTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCAc > 1:185002/1‑69 (MQ=255)
aTTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCAc > 1:1887038/1‑69 (MQ=255)
tAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACg < 1:935896/68‑1 (MQ=255)
gTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCg < 1:1389444/69‑1 (MQ=255)
tGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGccc > 1:2997321/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACAccc > 1:1152753/1‑65 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:914199/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:201694/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:2035343/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:1337024/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:1231485/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:2187993/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:3219560/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:3096494/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:3027641/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:2908961/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:1279500/1‑68 (MQ=255)
cTGATAGCCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:2698910/1‑68 (MQ=255)
cTGATAACCGATCATCTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGaa > 1:1991/1‑68 (MQ=255)
gATAGCCGATCATCTGCATGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAAcc < 1:2002059/69‑1 (MQ=255)
gATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAAcc < 1:263278/69‑1 (MQ=255)
gATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAAcc < 1:2816202/69‑1 (MQ=255)
gATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAAcc < 1:481784/69‑1 (MQ=255)
gATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAAcc < 1:3292829/69‑1 (MQ=255)
gATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAAcc < 1:3062869/69‑1 (MQ=255)
gCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACt > 1:2115206/1‑69 (MQ=255)
gCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACt > 1:3370659/1‑69 (MQ=255)
cGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGctct > 1:1021962/1‑48 (MQ=255)
cGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTg > 1:17899/1‑68 (MQ=255)
cGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGa > 1:1980186/1‑69 (MQ=255)
cGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGa > 1:674143/1‑69 (MQ=255)
cGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGa > 1:2251165/1‑69 (MQ=255)
cGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGa > 1:2918755/1‑69 (MQ=255)
cGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGa > 1:2586502/1‑69 (MQ=255)
atcTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGAAACCAACTAATGCAg < 1:3057307/69‑1 (MQ=255)
atcTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGAAACCAACTAATGCAg < 1:2537010/69‑1 (MQ=255)
atcTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGAAACCAACTAATGCAg < 1:2928382/69‑1 (MQ=255)
atcTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGAAACCAACTAATGCAg < 1:1299031/69‑1 (MQ=255)
atcTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTATCGAACGCCCGAAACCAACTGATGCAg < 1:3109224/69‑1 (MQ=255)
tcTGCAGGCTGTCTGCGCGTTTCTGGAAGGTAAGCACGCTCTCGAACACCCGAAACCAACTAATGCAg < 1:1299442/68‑1 (MQ=255)
cAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGATGCAGTATcc > 1:2246788/1‑69 (MQ=255)
tgtgCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAAcc < 1:2669019/44‑1 (MQ=255)
tgtgCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGATGCAGTATCCCGGgcgc < 1:2165061/67‑1 (MQ=255)
tgtgCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGATGCAGTATCCCGGgcgc < 1:1473579/67‑1 (MQ=255)
|
GGGGCTAATTAACGGTGAAGGATGCCTGATAGCCGATCATCTGCAAGCTGTCTGTGCGTTTCTGGAAGGTAAGCACGCTCTCGAACGCCCGAAACCAACTGATGCAGTATCCCGGGCGC > minE/2449083‑2449201
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
