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 |
2,183,528 |
T→C |
63.2% |
I1268I (ATT→ATC) |
gltB → |
glutamate synthase, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,183,528 | 0 | T | C | 63.2%
| 59.8
/ 58.6
| 95 | I1268I (ATT→ATC) | gltB | glutamate synthase, large subunit |
| Reads supporting (aligned to +/- strand): ref base T (17/18); new base C (40/20); total (57/38) |
| Fisher's exact test for biased strand distribution p-value = 8.89e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTGCAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAG > minE/2183468‑2183594
|
gctgcAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAaca > 1:1101597/1‑68 (MQ=255)
gctgcAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAaca > 1:2179983/1‑68 (MQ=255)
gctgcAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAaca > 1:2808931/1‑68 (MQ=255)
gctgcAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAaca > 1:771666/1‑68 (MQ=255)
gctgcAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAaca > 1:1710762/1‑68 (MQ=255)
gctgcAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAaca > 1:1629799/1‑68 (MQ=255)
gctgcAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAaca > 1:1560236/1‑68 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:1994589/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:690007/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:515613/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:1738047/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:2333221/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:821000/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:2475793/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:2502637/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:1389341/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:258565/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:2739469/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:310708/1‑69 (MQ=255)
ggCAAAACCGTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:1043581/1‑69 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:447689/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:2397393/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:238836/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:366361/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:2314436/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:2765490/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:2044083/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:645456/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:201201/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:1279765/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:1345990/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:851787/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:837925/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:1667188/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:1690055/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:1763985/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:1951187/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGgcgc < 1:702329/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCAgcgc < 1:2834355/69‑1 (MQ=255)
gTTTGTTGATGAACGCCAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTGCTGTCGgcgc < 1:2860443/69‑1 (MQ=255)
tGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTc > 1:151450/1‑69 (MQ=255)
cgcCAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGc < 1:730917/69‑1 (MQ=255)
cgcCAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGc < 1:1176166/69‑1 (MQ=255)
cgcCAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGc < 1:634860/69‑1 (MQ=255)
gcCAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGc < 1:1702150/68‑1 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCta < 1:622565/69‑1 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCta < 1:2371600/69‑1 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCta < 1:1423496/69‑1 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAGCACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:259662/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACaccgaccg > 1:597538/1‑42 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTc > 1:621684/1‑45 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:950600/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:940860/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2940476/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:327640/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:37830/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:41735/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:50535/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:1064285/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:697776/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:1392702/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:1801390/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2848583/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:188607/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:19262/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:1955423/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2455231/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:203672/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2440422/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2132183/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:216776/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2190485/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2262842/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCta > 1:2230304/1‑69 (MQ=255)
ccAGAGCAAAACCTTCTGGTTCGATATCCGCAACACCGACCGTTCTGTCGGCGCATCGCTTTCAGGCt > 1:3002817/1‑68 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:242774/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:966108/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:1636312/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:2550691/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:203281/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:642209/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:636597/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:417645/69‑1 (MQ=255)
tCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCg < 1:457091/69‑1 (MQ=255)
atatTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGAt < 1:2891261/68‑1 (MQ=255)
tatTCGCAACACCGACCGTTCTGTCGGCGCGTCGATTTCAGGCta < 1:736027/45‑1 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCa > 1:398204/1‑68 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCa > 1:1132858/1‑68 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAg > 1:653084/1‑69 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAg > 1:2125214/1‑69 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAg > 1:2736022/1‑69 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAg > 1:3273105/1‑69 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAg > 1:3102949/1‑69 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAg > 1:1537126/1‑69 (MQ=255)
atTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAg > 1:1218235/1‑69 (MQ=255)
|
GCTGCAACAGGCGAAACCGTTTGTCGATGAGCGCCAGAGCAAAACCTTCTGGTTCGATATTCGCAACACCGACCGTTCTGTCGGCGCGTCGCTTTCAGGCTATATCGCCCAGACGCACGGCGATCAG > minE/2183468‑2183594
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
