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 |
|
A4 F50 I2 R1
|
104 |
44.1 |
1376607 |
98.9% |
1361464 |
150.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,913,196 |
T→C |
K152K (AAA→AAG) |
relA ← |
(p)ppGpp synthetase I/GTP pyrophosphokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,913,196 | 0 | T | C | 95.1%
| 137.6
/ ‑0.8
| 42 | K152K (AAA→AAG) | relA | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (20/19); total (21/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.59e-01 |
AGTAATCTTCCAGTTCCCATTTCAGTTGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGTTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATCACGCACGCCGTGAATAAGGTTAAC > NC_000913/2913048‑2913342
|
aGTAATCTTCCAGTTCCCATTTCAGTTGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGctt > 2:552667/1‑151 (MQ=255)
ttCCAGTTCCCATTTCAGTTGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACt > 1:261130/1‑151 (MQ=255)
cATTTCAGTTGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGaa < 1:228733/151‑1 (MQ=255)
ttCAGTTGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGaaaa < 1:218519/150‑1 (MQ=255)
cAGTTGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAatca < 2:70336/151‑1 (MQ=255)
tGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCg > 2:670516/1‑150 (MQ=255)
aTTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCg > 2:573908/1‑151 (MQ=255)
aTTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCg < 2:277843/151‑1 (MQ=255)
ccGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCa < 1:191579/151‑1 (MQ=255)
ggTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACAt > 1:501762/1‑151 (MQ=255)
gtAGCCGTCGGTGCGTAGGTGTTGGTACTCTCTTTGGCCTCCAGTACACGTTCATCTTCCGGCTCATCTTGTCTGTCGCGCAGATGAGCAATACTCTCCGCCAGGTTCATGACTACGCAGCGAAAATCAGCGACCATCGCCAATAACATc < 1:671659/149‑1 (MQ=255)
caccagTGCGTAAATGTTGGTACGCTCTTTTGCCGCCAGTACACGTTCATCCTCCGGCGCACCTTCTCCTTCGCCCAGATTCGCAACGCGCCCCACAAGCTTGATGCCTACGCAGCGAAAATCGTCGCCCATCGCCAATAACATCCGGCg < 1:395864/145‑1 (MQ=255)
gCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGTTTGATGAc > 2:608393/1‑106 (MQ=255)
gCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGTTTGATGAc < 1:608364/106‑1 (MQ=255)
gCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTAt < 1:413674/151‑1 (MQ=255)
aGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGAc > 2:453520/1‑151 (MQ=255)
tGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTg > 2:502307/1‑151 (MQ=255)
ttGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTg > 2:176111/1‑149 (MQ=255)
ggTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTc < 2:71031/150‑1 (MQ=255)
acacTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCAGCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCggag < 1:212853/151‑1 (MQ=255)
tttGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGaaa < 2:163927/148‑1 (MQ=255)
ttGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGaaa < 1:190052/147‑1 (MQ=255)
gccgccAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAAt < 2:238296/151‑1 (MQ=255)
cacGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGt > 2:179370/1‑151 (MQ=255)
cGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCg > 2:368452/1‑151 (MQ=255)
cGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCg > 1:356458/1‑151 (MQ=255)
ttCCGGCGCACCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGAACTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGc > 1:215759/1‑151 (MQ=255)
tCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCa < 1:670481/148‑1 (MQ=255)
ggCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGc > 2:658848/1‑151 (MQ=255)
cATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGAt < 2:319610/151‑1 (MQ=255)
aTCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGAt < 2:112451/150‑1 (MQ=255)
cTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATcgc > 2:469418/1‑151 (MQ=255)
cTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATcgc > 2:50132/1‑151 (MQ=255)
ttttACTTCGCGCAGACGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATcgcc > 2:456915/1‑151 (MQ=255)
tttACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATcgcc < 1:170601/150‑1 (MQ=255)
tttACTTCGCGCAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATc < 1:362714/147‑1 (MQ=255)
cgcAGATGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATcac > 2:14744/1‑151 (MQ=255)
tGAGCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATCacgcacgc > 2:387308/1‑151 (MQ=255)
gCAATACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATCACGCACGCCg < 2:332296/150‑1 (MQ=255)
tACGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATCACGCACGCCGTGAAt > 2:431687/1‑151 (MQ=255)
cGCTCCGCCAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGCCTTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATCACGCACGCCGTGAATa < 1:544020/150‑1 (MQ=255)
gCCAGCTTGATGACTACGCAGCGACAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGGGTGCGTCGCTTTCAGCTGGCGGATCGGCGCCATAGCACGCAGGCCGTGAATAAGGtt > 1:176677/1‑149 (MQ=255)
ccAGCTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATCACGCACGCCGTGAATAAGGTTAAc > 2:433957/1‑151 (MQ=255)
|
AGTAATCTTCCAGTTCCCATTTCAGTTGTCCGATTCCGAGACGGTTAGCCAGCGGTGCGTAGATGTTGGTACACTCTTTTGCCGCCAGTACACGTTCATCTTCCGGCGCATCTTTTACTTCGCGCAGATGAGCAATACGCTCCGCCAGTTTGATGACTACGCAGCGAAAATCATCGACCATCGCCAATAACATCCGGCGAACGTTATCGACCTGTTCGGAGGAAACAGAATCAGTGTGCGTCGCTTTCAGCTGGCGGATCGCCGCCATATCACGCACGCCGTGAATAAGGTTAAC > NC_000913/2913048‑2913342
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
