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 |
|
A11 F58 I0 R3
|
223 |
82.2 |
2922920 |
95.2% |
2782619 |
126.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
2,871,022 |
C→A |
22.4% |
E61* (GAA→TAA) |
U712_14805 ← |
Putative tRNA‑binding protein ytpR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 2,871,022 | 0 | C | A | 22.4%
| 48.1
/ 2.5
| 33 | E61* (GAA→TAA) | U712_14805 | Putative tRNA‑binding protein ytpR |
| Reads supporting (aligned to +/- strand): ref base C (4/18); new base A (6/2); total (13/20) |
| Fisher's exact test for biased strand distribution p-value = 7.23e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTTCTTTTGATTCTACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTCACATCTTGAAGA > CP006881/2870886‑2871152
|
ttttCTTTTGATTCTACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAAACTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTtca > 5:85590/1‑138 (MQ=255)
tttGATTCTACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCCTGAATgg > 6:262990/1‑139 (MQ=255)
tGATTATACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCAAGAATGTTTCTTAGAGCGCAACAGGGCCGTTTTCATCAATGGt < 4:110005/138‑1 (MQ=255)
gATTCTACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTc < 8:210469/138‑1 (MQ=255)
gATTCTACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTACTCAATTGtg > 7:135410/1‑137 (MQ=255)
tACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCaatgaa > 8:307820/1‑135 (MQ=255)
aCATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTaag < 5:170594/139‑1 (MQ=255)
tAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTaagaag < 7:101427/139‑1 (MQ=255)
aCCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTAATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAagaag‑a < 5:291591/138‑1 (MQ=255)
cccACCACAAACTTCGGAGAGAAATCAACGACTTCAGTTTCTTCAACGCCGTTTCTGGTTAAAATCTCATTCACATCTTGCACGAATGTTGCTGAGAGCGCAACAGGGCCGTTTACATCAATGGGCAAGTAAGAAG‑ACg < 4:125181/139‑1 (MQ=255)
aacaaACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTAATAAATGGTGAAGTAAAAAG‑ACGCAtt > 6:291591/1‑138 (MQ=255)
cGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTGTTGATCAATTGTCAAGTAACAAT‑CCGCAATTAAAAAGTTg > 3:310011/1‑139 (MQ=255)
aaTCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTGTTAATAAAAGTGCAAGTAAAAAA‑ACGCCTTTAAAAATTTGAATccccg > 6:116161/1‑137 (MQ=255)
acagcGACTTATGTTTCTTCATCGCAGTTTCTGTTTAAAATCTCATTCACTTCTTGCACTAATGTTTCTGAGAGCGCAACAGGTCCTTTTTAATCAATTGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCgtt < 5:95052/134‑1 (MQ=255)
aaCGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCgttgt < 6:348878/138‑1 (MQ=255)
aCGCCTTTTCTCTTTAAAAACTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTAAAAAAATGGGAATTAATAAC‑ACGCAATGAAAAACTTGAACCCCGTTGTTTTTTTTTTTTTATTATTg > 2:272145/1‑138 (MQ=255)
cGCCGTTTCTGTTTAAAATCTCATTCACATCTTGAACGAATGTTTCTGAGAGCGCAAAAGGGCCGTTTTAAAAAATTGTAAATAAAGAAC‑ACCCATTGAAAAATTATAAGCCCGGTGTTTATTTTTTTtatttattta > 2:128306/1‑136 (MQ=255)
tttCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTGTTGATCAAATTGGAAGTAATAAGAACCCATTAAAAATTTTAACGCCC‑TTGTTTTGTTTGTTTTGGTTTTTTAAAttt > 1:70840/1‑139 (MQ=255)
tttAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTAATCAATTGTCAAGTAAGAAG‑AAGCATTGAAAATTTTGAAGCCCGGTGTTTGTTTTTTTTCGTTATTTAAAAATTTtacga > 5:145583/1‑139 (MQ=255)
aTCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTTAAAATTTTGACGACGTCGCCGTGTTTTTCa < 5:116161/139‑1 (MQ=255)
aTCTTGCACCAATGGTTCGTCGCCCGCACCAGGGCCGTTTTCATCATTGGTCAAGTATGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTTAAAATTTTGACGACGTCGCCGTGTTTTTCa < 2:197825/139‑1 (MQ=255)
cACGAATGTTTCTGAGAGCGCAACCGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCt < 7:307820/139‑1 (MQ=255)
aCGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTT‑AAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTaa < 1:6810/139‑1 (MQ=255)
aaTGTTTCTGAGAGCGCAACAGGGCCGTTTTCATAAATGGGCAAGTAAGAAG‑TAGCCTTTAAAATTTTGAAGCCCGTTGTTTGTTTTGTTTCGGTTTTGAATATTTTGACGACGTCGCCGTGTTGTTCTGAGCGTAAtt > 6:353422/1‑139 (MQ=255)
aaTGTTTCTGAGAGCGCAACAGGGCCGTGTTGATCAATGGTCAAGTTAGAAG‑ACGCCTTGAAAATTTTGAAGCCCGGTGGTGGTTTTGTTTGGTTTTTGAAAATTTTTTCGCCGTCGGCGGGGTTTTTATAGACGAAtt > 2:214044/1‑139 (MQ=255)
tCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTTTTGAAAATTTTGACGACGTCGCCGTGGTTTTGTTAGGCGAATTTTTggc > 3:257773/1‑139 (MQ=255)
cTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTcgc < 6:145583/138‑1 (MQ=255)
gcgcgcAACAGGGCCGTTTTCATCAATGGTCAAGAAAGAAG‑ACGCATTGAAACTGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTc < 8:135410/137‑1 (MQ=255)
gcgcAACATGGCATTTTTCATCATTGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCTTTTTTTAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTcac < 1:128306/139‑1 (MQ=255)
gcgcAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTcac < 6:246493/139‑1 (MQ=255)
gCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTCACATCTTGAaga < 5:70276/139‑1 (MQ=255)
gCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTCACATCTTGAaga < 2:129423/139‑1 (MQ=255)
gCCGTTTTCATCAATGGTCAAGTAAGAAC‑ACGCATTGAAAATGTGGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTCACATCTTGAaga < 1:93043/139‑1 (MQ=255)
gCCGTTTTAATCAATGGTAAAGTAAGAAC‑ACGCATTTAAAATTTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTCACATCTTGAaga < 6:85590/139‑1 (MQ=255)
|
TTTTCTTTTGATTCTACATAACCCACAACAAACTTCGGAGATAAATCAACGACTAATGTTTCTTCAACGCCGTTTCTGTTTAAAATCTCATTCACATCTTGCACGAATGTTTCTGAGAGCGCAACAGGGCCGTTTTCATCAATGGTCAAGTAAGAAG‑ACGCATTGAAAATGTTGAAGCCCGTTGTTTCTTTTGTTTCGTTATTGAAAATTTTGACGACGTCGCCGTGTTTTTCATAGCCTAATTGTTCGCGTGTCACATCTTGAAGA > CP006881/2870886‑2871152
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
