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 |
2,892,609 |
T→C |
26.8% |
T56T (ACT→ACC) |
ytfR → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,892,609 | 0 | T | C | 26.8%
| 84.5
/ 30.2
| 78 | T56T (ACT→ACC) | ytfR | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (27/30); new base C (2/19); total (29/49) |
| Fisher's exact test for biased strand distribution p-value = 3.00e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01 |
ATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATA > minE/2892550‑2892673
|
aTCATGGCGCTGCTCTGTGAAAACGGGGCCGGAAAATCAACGCTAATCAAATCATTAACTGGTGTATAc > 1:303588/1‑69 (MQ=255)
aTCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATAc > 1:804841/1‑69 (MQ=255)
aTCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATAc > 1:2622813/1‑69 (MQ=255)
aTCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATAc > 1:1283565/1‑69 (MQ=255)
aTCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATAc > 1:3385243/1‑69 (MQ=255)
aTCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATAc > 1:2969504/1‑69 (MQ=255)
aTGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCAc > 1:2602345/1‑69 (MQ=255)
aTGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCAc > 1:794531/1‑69 (MQ=255)
aTGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCAc > 1:2848721/1‑69 (MQ=255)
gcgcTGCTCGTTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:1698115/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCTACGCTAATCAAAGCATTAACTGgtg < 1:950701/58‑1 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCTACGCTAATCAAAGCATTAACTGgtg < 1:3110262/58‑1 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCTACGCTAATCAAAGCATTAACTGgtg < 1:1612110/58‑1 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCTACGCTAATCAAAGCATTAACTGgtg < 1:3014734/58‑1 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCTACG‑‑AATCAAAGCATTAACTGgtg < 1:951892/56‑1 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAATTGgtg > 1:1767644/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:3048732/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:61244/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:2627318/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:249092/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:2316154/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:2195490/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:1097222/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:1234005/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:1667360/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGgtg > 1:2106672/1‑58 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGtat < 1:2204265/61‑1 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGtat < 1:1362094/61‑1 (MQ=255)
gcgcTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGtat < 1:2774289/61‑1 (MQ=255)
tGAAAACTGGGCGGGAAAATCGACGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGc < 1:2774195/67‑1 (MQ=255)
tGAAAACGGGGCGGGAAAATCGACGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGc < 1:154746/67‑1 (MQ=255)
tGAAAACGGGGCGGGAAAATCGACGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGc < 1:2853885/67‑1 (MQ=255)
tGAAAACGGGGCGGGAAAATCGACGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGc < 1:2042091/67‑1 (MQ=255)
tGAAAACGGGGCGGGAAAATCGACGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGc < 1:2041222/67‑1 (MQ=255)
tGAAAACGGGGCGGGAAAATCGACGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGc < 1:2625347/67‑1 (MQ=255)
aaCGGGGCGGGAAAATCTACGCTAATCAAAGCATTAACTGgtg < 1:1114237/43‑1 (MQ=255)
aaCGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGtat < 1:1237641/46‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:750744/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:3229143/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2882901/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:1777958/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2316333/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:3346206/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2707341/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2284274/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2569614/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:1130078/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2341649/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2434576/65‑1 (MQ=255)
cgaCGCTCATCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCa < 1:2208602/65‑1 (MQ=255)
caTCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGaa > 1:2366358/2‑55 (MQ=255)
caTCAAAGCATTAACCGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGaa > 1:1092672/2‑55 (MQ=255)
aaaGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCAcc > 1:2152489/1‑68 (MQ=255)
aaaGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCAcc > 1:342719/1‑68 (MQ=255)
aaaGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCAcc > 1:3027626/1‑68 (MQ=255)
aaaGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCAcc > 1:2921450/1‑68 (MQ=255)
aaaGCATTAACTGGTGTATACCACGCCGATCGAGGCACCATCTGGCTGGAAGGCCAGGCTATCTCAcc > 1:1362015/1‑68 (MQ=255)
aTTAACTGGTGTATACCACGCCGATCGCGGCACCA‑‑TGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:2721880/69‑1 (MQ=255)
ttAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAAt > 1:2361620/1‑69 (MQ=255)
ttAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAAt < 1:644896/69‑1 (MQ=255)
ttAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAAt < 1:690216/69‑1 (MQ=255)
ttAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAAt < 1:3239012/69‑1 (MQ=255)
ttAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAAt < 1:717064/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:2651857/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:2558809/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:864258/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:2368074/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:3380775/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:266690/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:3431898/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:1733765/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:2297534/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:3096954/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:307829/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:2957324/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:1578487/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:3020809/69‑1 (MQ=255)
tAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATa < 1:3011796/69‑1 (MQ=255)
|
ATCATGGCGCTGCTCGGTGAAAACGGGGCGGGAAAATCAACGCTAATCAAAGCATTAACTGGTGTATACCACGCCGATCGCGGCACCATCTGGCTGGAAGGCCAGGCTATCTCACCGAAAAATA > minE/2892550‑2892673
|
| 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
