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 I1 R1
|
759 |
71.0 |
3673240 |
91.5% |
3361014 |
104.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,606,215 |
(G)8→9 |
noncoding (72/87 nt) |
leuP ← |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,606,207 | 1 | . | G | 98.3%
| 201.6
/ ‑3.5
| 60 | noncoding (80/87 nt) | leuP | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (33/26); total (34/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.65e-01 |
TAAAGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGA‑‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGACTTGAA > NC_000913/4606069‑4606337
|
tAAAGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGa < 2:1456955/139‑1 (MQ=255)
aaTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGA‑‑ggggggg > 2:1448527/1‑139 (MQ=255)
aTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGA‑‑gggggggg < 2:37029/139‑1 (MQ=255)
gCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTg > 1:1392988/1‑139 (MQ=255)
cGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGAAATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGa < 1:1448527/139‑1 (MQ=255)
ggggggACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAAcccc < 2:1392988/139‑1 (MQ=255)
ttGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTc < 2:1767304/137‑1 (MQ=255)
ttGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTc > 1:1767304/1‑137 (MQ=255)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTa > 2:876829/1‑139 (MQ=255)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGA‑‑gggggggggactt > 2:1241826/1‑117 (MQ=255)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTAGTTTGGTGCGA‑‑gggggggggactt < 1:1241826/122‑6 (MQ=255)
cGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAAccccc < 2:1010386/117‑1 (MQ=255)
cGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAAccccc > 1:1010386/1‑117 (MQ=255)
cTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACt > 2:1076545/1‑111 (MQ=255)
cTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACt < 1:1076545/111‑1 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCAc < 1:1593661/94‑1 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCAc > 2:1593661/1‑94 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGACGCTAGCGCCTCTAACAATTc > 1:1764510/1‑139 (MQ=25)
aGCGCGTCTACCAATTCCGCCACCTTCGCACACTCTTATTACTTTTTTTGATATCGCCGCGCTTGGTGGGAT‑GGGGGGGGTCTTCAGCCTCCACGCCCGAATGAACACTCAACCCAGAACCTAGTCCGGCAACCAATTc > 1:1358669/1‑139 (MQ=255)
cgcgTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTaa < 1:592639/109‑1 (MQ=255)
cgcgTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTaa > 2:592639/1‑109 (MQ=255)
cgcgTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg > 1:1747450/1‑122 (MQ=255)
cgcgTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg < 2:1747450/122‑1 (MQ=255)
gcgTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCAAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGc < 1:876829/139‑1 (MQ=255)
cTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCAcc > 2:191541/1‑139 (MQ=255)
aTTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGcc < 2:1682778/139‑1 (MQ=255)
gCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGTGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTg > 2:1411646/1‑139 (MQ=255)
gCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTg > 1:307471/1‑139 (MQ=255)
ccACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCa < 1:1536604/74‑1 (MQ=255)
ccACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCa > 2:1536604/1‑74 (MQ=255)
ccACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTcc < 1:647872/79‑1 (MQ=255)
ccACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTcc > 2:647872/1‑79 (MQ=255)
cTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGc > 2:390823/1‑139 (MQ=255)
tCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCaa > 1:555417/1‑139 (MQ=255)
tCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCaa > 1:135447/1‑139 (MQ=255)
tCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCCCCACCTTCCCCCAGTGGGAGCaa > 1:566217/1‑139 (MQ=18)
gTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGTGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAAc < 1:1411646/139‑1 (MQ=255)
gTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAAc < 2:135447/139‑1 (MQ=255)
tCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGcc > 2:601730/1‑119 (MQ=255)
tCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGcc < 1:601730/119‑1 (MQ=255)
tCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACg > 2:834416/1‑139 (MQ=255)
cATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAg > 1:1811731/1‑127 (MQ=255)
cATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAg < 2:1811731/127‑1 (MQ=255)
aTCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCa < 1:695422/58‑1 (MQ=37)
aTCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCa > 2:695422/1‑58 (MQ=37)
tCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGGGACTTGAACCCCCACg > 2:714077/1‑60 (MQ=25)
tCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGGGACTTGAACCCCCACg < 1:714077/60‑1 (MQ=25)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCt > 1:1668171/1‑88 (MQ=17)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCt < 2:1668171/88‑1 (MQ=17)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTAcc > 2:464654/1‑91 (MQ=255)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTAcc < 1:464654/91‑1 (MQ=17)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGt < 2:1327656/113‑1 (MQ=255)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGt > 1:1327656/1‑113 (MQ=255)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCg < 1:700491/116‑1 (MQ=255)
ttttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCg > 2:700491/1‑116 (MQ=255)
ttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGcc < 1:1302845/107‑1 (MQ=255)
ttttGATATCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGcc > 2:1302845/1‑107 (MQ=255)
ttGATATCGCCTCGTTTGGTGCGA‑‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTACGAGCAATAAAAACGTGGTTTTTGGtccca > 1:1320142/1‑135 (MQ=18)
atCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAgggg > 1:1747094/1‑139 (MQ=255)
tCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCa < 1:1048230/40‑1 (MQ=18)
tCGCCTCGTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCa > 2:1048230/1‑40 (MQ=18)
gTTTGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGACtt < 1:390823/139‑1 (MQ=255)
tttGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGCCTTg > 2:593010/1‑139 (MQ=255)
tGGTGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGACTTGaa > 2:1313263/1‑139 (MQ=255)
tGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAAc < 1:123421/105‑1 (MQ=255)
tGCGAG‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAAc > 2:123421/1‑105 (MQ=255)
|
TAAAGATAATTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGA‑‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGACTTGAA > NC_000913/4606069‑4606337
|
| 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
