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 |
|
A13 F1 I1 R1
|
778 |
68.7 |
3228504 |
93.4% |
3015422 |
109.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,286,796 |
T→C |
intergenic (+270/+270) |
narI → / ← rttR |
nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,286,796 | 0 | T | C | 91.7%
| 40.7
/ ‑1.8
| 24 | intergenic (+270/+270) | narI/rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (9/13); total (10/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.86e-01 |
AAATTAGCTCGGAGTAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCA > NC_000913/1286667‑1286837
|
taattgcggattcgttgggaagttcagggacttttgaaagtGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACctta < 2:932233‑M1/98‑2 (MQ=255)
gcggattcgttgggaagttcagggacttttgaaagtGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCcgaaccttaatcga > 2:636323‑M1/37‑133 (MQ=255)
gCTCGGAGTAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCttaatcgaa < 1:1030154/139‑8 (MQ=17)
gCTCGGAGTAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGaa < 2:398560/139‑1 (MQ=255)
cggattcgttgggaagttcagggacttttgaaagtGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGaa < 2:18997‑M1/104‑1 (MQ=255)
cggattcgttgggaagttcagggacttttgaaagtGATGGTGGTGGGGG‑‑AAGGATTACTCACCGCTGCGCGCATCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGaa < 2:233116‑M1/104‑1 (MQ=255)
gattcgttgggaagttcagggacttttgaaagtGATGGTGGTGGGGGGGAAGGATTACTCAGCGCTTCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAAc > 2:1287132‑M1/34‑129 (MQ=255)
gattcgttgggaagttcagggacttttgaaagtGATGGTGGTGGGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGTTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAAc < 1:1287132‑M1/96‑1 (MQ=255)
gAGTAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTtc > 1:1337492/1‑139 (MQ=17)
aGTAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTtct > 2:1568969/1‑139 (MQ=14)
tAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCa < 1:288992/139‑1 (MQ=14)
tAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCa < 2:555006/139‑1 (MQ=14)
aCAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATc > 1:1370808/1‑139 (MQ=14)
gTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AGGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTc < 1:1493149/139‑1 (MQ=14)
tttGATTATTTCAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCt < 2:898354/126‑1 (MQ=14)
tttGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCt > 1:898354/1‑126 (MQ=14)
tttGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTccc > 2:166577/1‑139 (MQ=14)
tttGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTccc > 1:1250198/1‑139 (MQ=255)
tttGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTccc > 2:58454/1‑139 (MQ=255)
tttGATTATTTAAGGAAGCGATGGCGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCa > 1:519775/1‑131 (MQ=14)
tttGATTATTTAAGGAAGCGATGGCGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCa < 2:519775/131‑1 (MQ=14)
gATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGc < 2:1337492/139‑1 (MQ=11)
attattTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGca < 2:520204/139‑2 (MQ=11)
tAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCa < 1:58454/139‑1 (MQ=255)
|
AAATTAGCTCGGAGTAACAGGTTTTGATTATTTAAGGAAGCGATGGTGGTGGGGG‑‑AAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCA > NC_000913/1286667‑1286837
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
