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 |
|
A17 F107 I0 R1
|
1271 |
54.2 |
2599312 |
94.9% |
2466747 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947 |
5,986,861 |
C→T |
100% |
intergenic (+141/‑58) |
PP_5245 → / → kefB‑III |
AraC family transcriptional regulator/glutathione‑regulated potassium/H+ antiporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947 | 5,986,861 | 0 | C | T | 94.3%
| 153.8
/ ‑0.2
| 54 | intergenic (+141/‑58) | PP_5245/kefB‑III | AraC family transcriptional regulator/glutathione‑regulated potassium/H+ antiporter |
| Reads supporting (aligned to +/- strand): ref base C (2/1); new base T (23/27); total (26/28) |
| Fisher's exact test for biased strand distribution p-value = 5.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTAGCGCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAGCGCCTGCAAC > NC_002947/5986717‑5987006
|
ttAGCGCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGaa < 4:288724/149‑1 (MQ=255)
gcTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTc < 2:102098/149‑1 (MQ=255)
cTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTcc < 6:159783/149‑1 (MQ=255)
ccTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGt > 3:218414/1‑148 (MQ=255)
ccTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTCAGAATTGTCCGt > 4:122941/1‑148 (MQ=255)
gagcgGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTg > 1:221965/3‑149 (MQ=255)
gcCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCt > 1:241906/1‑149 (MQ=255)
ccGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCt > 8:123858/1‑147 (MQ=255)
ccGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCt < 7:123858/147‑1 (MQ=255)
cGCTCCAACATATATAGCAAAGGCCTTTCGCCCAGGTATGGGCCGGAACGGATTGTCACTCTGTAAAGTACAATTTTTCTTCCCGTAATATTATTGTCTTACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGcc < 2:241906/149‑1 (MQ=255)
tCCCACAGAGATAGCACTGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTAAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCg > 3:30891/1‑149 (MQ=255)
agagATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCt > 6:22156/1‑149 (MQ=255)
aTAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATg < 2:221965/149‑1 (MQ=255)
tAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATgg < 3:156382/149‑1 (MQ=255)
gCACTGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTGTTGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGa < 6:14934/148‑1 (MQ=255)
cacaGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGaa > 7:85373/1‑104 (MQ=255)
cacaGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGaa < 8:85373/104‑1 (MQ=255)
aGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTAc > 6:156991/1‑148 (MQ=255)
gAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCaa < 3:318351/148‑1 (MQ=255)
cAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCcac < 7:259570/149‑1 (MQ=255)
ggTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCGCATGGAGTACGAGCCAATGCCacac < 4:218414/149‑1 (MQ=255)
aGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAg > 7:31587/1‑149 (MQ=255)
gcgcCGGCACCGATTGTAACTCTGTACAGGACAATTTTTCTTCCCTTGAGATGATTGTCTGACGCCACACTACACCTTAGAATTGTCCGTCATACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCTATGCCACACG‑TAg < 2:297820/148‑1 (MQ=255)
cgcCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACg > 7:56832/1‑104 (MQ=255)
cgcCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACg < 8:56832/104‑1 (MQ=255)
cgcCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGc < 8:31587/149‑1 (MQ=255)
cGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGc < 5:22156/149‑1 (MQ=255)
aCCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTc > 7:191556/1‑149 (MQ=255)
tCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTg < 1:94444/143‑1 (MQ=255)
tCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTg > 1:320877/1‑143 (MQ=255)
tCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTg < 2:320877/143‑1 (MQ=255)
tCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTg > 2:94444/1‑143 (MQ=255)
tCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAAcc > 1:117015/1‑149 (MQ=255)
tCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCAACACG‑AAGGCAGCCTTCTGCAAAcc > 2:64789/1‑149 (MQ=255)
acaATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCt < 8:13928/149‑1 (MQ=255)
tttttCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCtt > 3:152820/1‑149 (MQ=255)
tcttcCCGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTgcc < 5:156991/148‑1 (MQ=255)
cccGTCAGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTgccgcc < 1:64789/148‑1 (MQ=255)
aGATGATTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGc > 2:265188/1‑149 (MQ=255)
atTGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTcc > 5:131243/1‑149 (MQ=255)
ttGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGcc > 6:122527/1‑100 (MQ=255)
ttGTCTGACGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGcc < 5:122527/100‑1 (MQ=255)
tGACGCCACACTACCCCTTTGAATTGTCGTGCAAACTGTTCGAACGCTGCCCCGTCAGCTCATGGAGTACGAGCCAATGCGACACG‑AAGGGAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCGTgg < 4:30891/149‑1 (MQ=255)
cGCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCa < 1:265188/149‑1 (MQ=255)
gCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTgcc < 4:251361/123‑1 (MQ=255)
gCCACACTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTgcc > 3:251361/1‑123 (MQ=255)
cacaCTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTTCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAgc < 7:127664/149‑1 (MQ=255)
cacaCTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAgc > 5:211665/1‑149 (MQ=255)
acTACCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAGCGcc < 6:131243/149‑1 (MQ=255)
tACCCCTCAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAGCGCCt > 7:243159/1‑148 (MQ=255)
aCCCCTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAGCGCCTg > 1:181818/1‑148 (MQ=255)
ccccTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGACGTCCTCGCCGTCCCCCTGGCCAAGCGCCTGc > 5:30708/1‑148 (MQ=255)
ccccTCAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAGCGCCt < 8:243159/146‑1 (MQ=255)
ccTTAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAGCGCCTGCAAc > 4:44519/1‑149 (MQ=255)
|
TTAGCGCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCAGATGATTGTCTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTGTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACG‑AAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGTCCTCGCCGTCCCCCTGGCCAAGCGCCTGCAAC > NC_002947/5986717‑5987006
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ 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
