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 |
|
A9 F1 I2 R1
|
760 |
52.7 |
2744488 |
90.2% |
2475528 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,769,648 |
(C)6→5 |
intergenic (+162/‑55) |
yfjQ → / → yfjR |
CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, putative DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,769,643 | 0 | C | . | 98.2%
| 215.5
/ ‑3.0
| 54 | intergenic (+157/‑60) | yfjQ/yfjR | CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base . (29/24); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 4.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGCCCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGT > NC_000913/2769515‑2769777
|
cGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATG‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTa > 1:981322/1‑139 (MQ=255)
cGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTa > 1:1045869/1‑139 (MQ=255)
cGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTa > 1:17796/1‑139 (MQ=255)
cGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTa > 2:494985/1‑139 (MQ=255)
acacCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGccc > 1:775428/1‑128 (MQ=255)
acacCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGccc < 2:775428/128‑1 (MQ=255)
acacCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTa > 1:558621/1‑136 (MQ=255)
acacCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTa < 2:558621/136‑1 (MQ=255)
acacCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAg > 2:435444/1‑139 (MQ=255)
caccTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc < 2:119758/125‑1 (MQ=255)
caccTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc > 1:119758/1‑125 (MQ=255)
ccTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATca > 1:1033733/1‑139 (MQ=255)
cATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCTCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCAttt > 1:417848/1‑139 (MQ=255)
cGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTtca < 2:1033733/139‑1 (MQ=255)
cGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTtca < 1:115872/139‑1 (MQ=255)
cGCTATGTGCTCGTGTGACTGAATCCCCCGGTTATAGCTTTTAACCCCCGGTACAGC‑TGGCTTTTGCAGAAATAAGAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTtca < 1:558505/139‑1 (MQ=21)
tATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCAcat < 2:827270/128‑1 (MQ=255)
tATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCAcat > 1:827270/1‑128 (MQ=255)
tgCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAg > 1:330084/1‑115 (MQ=255)
tgCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAg < 2:330084/115‑1 (MQ=255)
tCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATcac < 1:352644/119‑1 (MQ=255)
tCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATcac > 2:352644/1‑119 (MQ=255)
tCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATc < 1:484817/117‑1 (MQ=255)
tCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATc > 2:484817/1‑117 (MQ=255)
tgtgCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTATTCACATCATTTTCAGTCAGTTAACttt > 1:567091/1‑139 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTaa > 1:291993/1‑103 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTaa < 2:291993/103‑1 (MQ=255)
ccTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTg > 2:33/1‑139 (MQ=255)
cTCAATTCCCCGGTTATAGGTTTTAACCCCCGGTAACTCTTGGCTTTTG‑AGAAATAAAAAATAAGTTCTGCCTTGTTCCTAACCTGGCC‑CGCCCCCCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTgg < 2:567091/139‑1 (MQ=12)
cccccGGTTATAGCTTTTAACCTCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAAtc < 2:417848/139‑1 (MQ=255)
cGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAAtctctc < 2:17796/139‑1 (MQ=255)
gTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCAt < 1:184531/139‑1 (MQ=255)
ttATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATg < 2:946757/139‑1 (MQ=255)
taGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGaca < 1:435444/139‑1 (MQ=255)
ttAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCTTCTTTAAAGTAATc < 2:830006/87‑1 (MQ=255)
ttAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTATAGTAATc > 1:830006/1‑87 (MQ=255)
ccGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc < 2:1165139/65‑1 (MQ=255)
ccGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGcccc > 1:1165139/1‑65 (MQ=255)
ccGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAAcgcc > 1:837247/1‑139 (MQ=255)
aTC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAAtctc > 2:609745/1‑111 (MQ=255)
aTC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAAtctc < 1:609745/111‑1 (MQ=255)
tC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAAtc < 2:268978/108‑1 (MQ=255)
tC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAAtc > 1:268978/1‑108 (MQ=255)
aaaaaTAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTggctgtcaggctgt < 2:981322/139‑1 (MQ=255)
aaaaaTAGTTTCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTggctgtcaggctgt < 2:837247/139‑1 (MQ=255)
tttCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGgag > 2:1326820/1‑77 (MQ=255)
tttCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGgag < 1:1326820/77‑1 (MQ=255)
tCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTtcagt < 1:390521/57‑1 (MQ=255)
tCTGCGTTGTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTtcagt > 2:390521/1‑57 (MQ=255)
gTCCATACCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTc > 1:121586/1‑139 (MQ=255)
aCCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGt > 1:1144588/1‑132 (MQ=255)
aCCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGt < 2:1144588/132‑1 (MQ=255)
aCCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTg > 2:756339/1‑139 (MQ=255)
aCCCTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTg > 1:1009368/1‑139 (MQ=255)
cccTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGac < 2:845592/73‑1 (MQ=255)
cccTGTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGac > 1:845592/1‑73 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCggct > 2:109317/1‑96 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCggct < 1:109317/96‑1 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt > 1:1022709/1‑139 (MQ=255)
gTCCG‑CCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCACTCATGCCACAGGCAAAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGt > 1:1227481/1‑139 (MQ=14)
|
CGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACCCCCGTTACATC‑TGGCTTTTGCAGAAATAAAAAATAGTTTCTGCGTTGTCCATACCCTGTCCGCCCCCCTCTTTAAAGTAATCACATCATTTTCAGTCAGTTAACTTTCCTGGAGAATCTCTCATGACACAGGCAGAACGCCGCCATGACCGGCTGGCTGTCAGGCTGTCACTGATAATCAGCCGTCTGGTTGCGGGT > NC_000913/2769515‑2769777
|
| 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
