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 F69 I0 R1
|
1426 |
148.0 |
5875178 |
97.4% |
5722423 |
123.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,100,791 |
G→C |
15.4% |
intergenic (+4/+60) |
ycdZ → / ← csgG |
DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,100,791 | 0 | G | C | 15.4%
| 125.8
/ 12.7
| 45 | intergenic (+4/+60) | ycdZ/csgG | DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein |
| Reads supporting (aligned to +/- strand): ref base G (20/18); new base C (4/3); total (24/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.60e-01 |
CTGGAAACTGGTGTTACCTTCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCAAATCCCACAGACC > NC_000913/1100655‑1100937
|
cTGGAAACTGGTGTTACCTTCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCttt < 3:369417/149‑1 (MQ=255)
tGGAAACTGGTGTTACCTTCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGTGCCCCTCACGCt < 4:1059507/146‑1 (MQ=255)
tGGAAACTGGTGTTACCTTCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTc > 3:68453/1‑149 (MQ=255)
tGGAAACTGGTGTTACCTTCGCTGGAGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGTGCCCCTCACGCt > 3:1059507/1‑146 (MQ=255)
aCCTTCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACa > 1:1144356/1‑144 (MQ=255)
aCCTTCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACa < 2:1144356/144‑1 (MQ=255)
ttCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAGTg > 3:1393531/1‑149 (MQ=255)
ttGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATaa > 2:883020/1‑149 (MQ=255)
ggCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAGTGCCGGATGATAATTc < 4:1393531/149‑1 (MQ=255)
ttACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGgat > 3:543715/1‑128 (MQ=255)
ttACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGgat < 4:543715/128‑1 (MQ=255)
aCGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGga < 3:771856/125‑1 (MQ=255)
aCGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGga > 4:771856/1‑125 (MQ=255)
gCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCttt > 4:35296/1‑139 (MQ=255)
gCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCttt < 3:35296/139‑1 (MQ=255)
aCAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGcc > 2:331073/1‑110 (MQ=255)
aCAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGcc < 1:331073/110‑1 (MQ=255)
tgtgGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGa < 1:883020/149‑1 (MQ=255)
gTAGTGCAAAGACGGCGCACCTTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATc < 3:1356710/111‑1 (MQ=255)
gTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATc > 4:1356710/1‑111 (MQ=255)
tGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCttt < 3:1266169/62‑1 (MQ=255)
tGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCttt > 4:1266169/1‑62 (MQ=255)
gAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCttt < 1:647189/82‑1 (MQ=255)
gAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCttt > 2:647189/1‑82 (MQ=255)
cAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTaaaa < 4:530265/56‑1 (MQ=255)
cAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTaaaa > 3:530265/1‑56 (MQ=255)
aGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGc > 4:581184/1‑149 (MQ=255)
aaTCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCtttt > 3:331054/1‑75 (MQ=255)
aaTCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCtttt < 4:331054/75‑1 (MQ=255)
aaaaaTAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGaa < 1:109565/122‑1 (MQ=255)
aaaaaTAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGaa > 2:109565/1‑122 (MQ=255)
aaaaaTAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTg < 3:1051806/132‑1 (MQ=255)
aaaaaTAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTg > 4:1051806/1‑132 (MQ=255)
aaaaTAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCg > 4:561466/1‑88 (MQ=255)
aaaaTAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCg < 3:561466/88‑1 (MQ=255)
tAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCaaa > 3:466822/1‑149 (MQ=255)
gaaaGCGTGAGTGCCCCTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTc < 4:1228510/81‑1 (MQ=38)
gaaaGCGTGAGTGCCCCTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTc > 3:1228510/2‑82 (MQ=38)
aaaGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCa < 3:420854/110‑1 (MQ=255)
aaaGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCa > 4:420854/1‑110 (MQ=255)
aGCGTGAGTGCCCCTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCt < 1:525144/134‑1 (MQ=255)
aGCGTGAGTGCCCCTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCAGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCt > 2:525144/1‑134 (MQ=255)
gCGTGAGTGCCCCTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCAAATccc > 2:561331/1‑149 (MQ=255)
aGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTc > 3:872875/1‑101 (MQ=255)
aGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTc < 4:872875/101‑1 (MQ=255)
gggCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCAAATCCCACAGAcc > 4:487748/1‑149 (MQ=255)
gCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCa > 4:2917/1‑109 (MQ=255)
gCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCa < 3:2917/109‑1 (MQ=255)
|
CTGGAAACTGGTGTTACCTTCGCTGGCGCTTGGGCTGATATTTGGTTACGCAATGAAAAACAGTGGCCTGTGGCTGGCGGCGCGTAGTGCAAAGACGGCGCACCGTGAGCAGGAAATCAAAAATAAAGCGTGAGGGGCACTCACGCTTTCGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCAAATCCCACAGACC > NC_000913/1100655‑1100937
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
