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 |
|
A25 F54 I1 R1
|
119 |
63.3 |
2848040 |
95.5% |
2719878 |
127.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
3,723,933 |
T→C |
Y249Y (TAT→TAC) |
U712_19195 → |
putative transporter ywcJ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 3,723,933 | 0 | T | C | 97.3%
| 122.2
/ NA
| 37 | Y249Y (TAT→TAC) | U712_19195 | putative transporter ywcJ |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (26/10); minor base A (0/1); total (26/11) |
| Fisher's exact test for biased strand distribution p-value = 2.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTGCACATTCGCCATCTCACTTTTGATCGAGCACCCTGATACAGTGACAGTAATGGGAGCAGTCAGAAACTTAATTCCCGTTACACTCGGCAACCTGACCGCGGGAATGGTCATGATGGGCTGGATGTATTACACGCTCAATCCCGATAAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGACTCCGGCAAATGTAA > CP006881/3723803‑3724067
|
tgtgCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACt < 5:104082/139‑1 (MQ=255)
tgtgCACATTCGCCATCTCGCTATTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACt < 8:352440/139‑1 (MQ=255)
cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACCCTGAAt > 2:330610/1‑139 (MQ=255)
cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAAt > 1:295302/1‑139 (MQ=255)
cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAAt > 3:120803/1‑139 (MQ=255)
cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTAACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAAt > 2:63976/1‑139 (MQ=255)
gCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGatc < 2:295302/139‑2 (MQ=255)
ccATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTCCTACACACTGAATCCTGatc > 2:162496/1‑137 (MQ=255)
tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTcc > 8:325434/1‑132 (MQ=255)
tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTcc < 7:325434/132‑1 (MQ=255)
tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAg > 6:245221/1‑139 (MQ=255)
tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCACTGCAAg > 5:217126/1‑139 (MQ=255)
actgttGGGCGCAGTCATAAAGTTAATCCCCGTTACGCTCGGCAATCTCACCGCGGGAATAGTTATCAGGGGCTGGATGTACAACACACTGAATCCTGATAAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCaa < 4:28646/134‑1 (MQ=255)
actgaTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCa > 2:326880/5‑138 (MQ=255)
aTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGATTAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCg > 3:209976/1‑139 (MQ=255)
aGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATACAAACACTTCCAGAGATCACTCCCTGCCAGGCAAAGCGGTTATTCCga > 5:216478/1‑137 (MQ=255)
agacccGTTACGCTCGGAATACTTCCCGCGGTAATATTTAGTATGGGCTTCATTAAATCCACACTGAATCCTCAGCAAAAAAAAAACTTCCACAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGaa < 6:217126/136‑1 (MQ=255)
cGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGa < 6:89882/133‑1 (MQ=255)
cGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGa > 5:89882/1‑133 (MQ=255)
ttACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTg > 1:149901/1‑139 (MQ=255)
ttACGCTCGGCAATCTGACAGAGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCATTATCAATAAAAAAACTTCCAGAGATAACTCCCTGCAAGTCAAAGCGGTTATTCCTACAGATCTTGAAGACGCTg > 5:264352/1‑139 (MQ=255)
gcTCGCCAATCTGACCCGGGGAATCGTTATTATGGGCTGGATGAACTACACACTGAATCCTGATCAAAAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACa < 1:330610/138‑1 (MQ=255)
cTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACAt > 5:296547/1‑139 (MQ=255)
atcTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGt > 1:290338/3‑139 (MQ=255)
atgatgGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAg < 7:103376/116‑1 (MQ=255)
atgatgGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAg > 8:103376/1‑116 (MQ=255)
atgatgGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGatt > 8:239183/1‑137 (MQ=255)
atgGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCt < 5:305640/130‑1 (MQ=255)
atgGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCt > 6:305640/1‑130 (MQ=255)
atgGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGATTCCg > 6:188965/1‑139 (MQ=255)
cTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGCTCACTCCCTGCAAGTCACAGCGGTTATTCAGCGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGATTCCGGCaaa > 8:143016/1‑139 (MQ=255)
cTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGt > 3:96276/1‑73 (MQ=255)
cTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGt < 4:96276/73‑1 (MQ=255)
cTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGATTCCGGCaaa > 5:305339/1‑139 (MQ=255)
cTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGATTCCGGCaaa > 2:86475/1‑139 (MQ=255)
cTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGATTCCGGCaaa > 4:244464/1‑139 (MQ=255)
tGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGATTCCGGCAAATGTaa > 2:134784/1‑139 (MQ=255)
|
TGTGCACATTCGCCATCTCACTTTTGATCGAGCACCCTGATACAGTGACAGTAATGGGAGCAGTCAGAAACTTAATTCCCGTTACACTCGGCAACCTGACCGCGGGAATGGTCATGATGGGCTGGATGTATTACACGCTCAATCCCGATAAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTGGACATGCAGCGTGATATAGCCGGCCTCGGACTCCGGCAAATGTAA > CP006881/3723803‑3724067
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
