Locus 902

Sequence ID 2R_DroMel_CAF1
Location 4,047,800 – 4,048,178
Length 378
Max. P 0.911833
window1581 window1582 window1583 window1584

overview

Window 1

Location 4,047,800 – 4,047,920
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.17
Mean single sequence MFE -36.77
Consensus MFE -26.22
Energy contribution -28.62
Covariance contribution 2.40
Combinations/Pair 1.18
Mean z-score -2.75
Structure conservation index 0.71
SVM decision value 1.08
SVM RNA-class probability 0.911833
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4047800 120 - 20766785
GGAAUUGCAUAUUUAGCAGAACAUUGAAAAUCAGGAACCGGCAAGUGCGGAAACCUGCGCUGUUGGUCUUCAUUUGCAUAUUGCUGAUUGAGUAUGAAUUUUGGCCAGCAGUUGCAUAGA
((((((.((((((((((((.....((.((((.((((.((((((.((((((....)))))))))))))))).)))).)).....))).))))))))))))))).....((....))..... ( -36.40)
>DroSec_CAF1 30544 120 - 1
GGAAUUGCAUAUUUAGCAGAACAUUGAAAAUCAGGGACCGGCAAGUGCGGAAACCUGCGCUGUUGGUCUUCAUUUGCAUAUUGCUGAUUGAGUAUGAAUUUUGGCAAGCAGUUGCAUAGA
(.((((((.......(((((...(((.....)))(((((((((.((((((....)))))))))))))))...)))))...((((..(.............)..)))))))))).)..... ( -39.82)
>DroSim_CAF1 35213 120 - 1
GCAAUUGCAUAUUUAGCAGAACAUUGAAAAUCAGGGACCGGCAAGUGCGGAAACCUGCGCUGUUGGUCUUCAUUUGCAUAUUGCUGAUUGAGUAUGAAUUUUGGCAAGCAGUUGCAUAGA
((((((((.......(((((...(((.....)))(((((((((.((((((....)))))))))))))))...)))))...((((..(.............)..))))))))))))..... ( -44.32)
>DroEre_CAF1 29729 106 - 1
GGAAUUGCAUAUUUAGCAGAACACUGAAAAUCAGU--------------GAAACCUGCGCUGUUGGUCUUCAUUUGAAUAUUGCUGAUUGAGUAUGAAUUUUGGCAAGCAGUUGCUUGUA
((((((.((((((((((((..(((((.....))))--------------)....))))...((..((.(((....)))....))..)))))))))))))))).((((((....)))))). ( -29.50)
>DroYak_CAF1 33526 120 - 1
GGAAUUGCAUAUUUAGCAGAACAUUGAAAAUCAGUGGGCGGUUGGUGGAGAAACCUGCGCUAUUGCUCCUCAUUUGCAUAUUGCUGAUUGAGUAUGAAUUUUGGCAAGCAGUUGCUUAUA
((((((.((((((((((((.....((.((((.((.(((((((.((((.((....)).))))))))))))).)))).)).....))).)))))))))))))))...((((....))))... ( -33.80)
>consensus
GGAAUUGCAUAUUUAGCAGAACAUUGAAAAUCAGGGACCGGCAAGUGCGGAAACCUGCGCUGUUGGUCUUCAUUUGCAUAUUGCUGAUUGAGUAUGAAUUUUGGCAAGCAGUUGCAUAGA
(.((((((.......(((((...(((.....))).(((((((.(((((((....))))))))))))))....)))))...((((..(.............)..)))))))))).)..... (-26.22 = -28.62 +   2.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,047,920 – 4,048,040
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -35.88
Consensus MFE -31.18
Energy contribution -31.34
Covariance contribution 0.16
Combinations/Pair 1.13
Mean z-score -1.32
Structure conservation index 0.87
SVM decision value 0.43
SVM RNA-class probability 0.731470
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4047920 120 + 20766785
UUCAAAUGAAAUAAAACAGUACGACAGCGAGUUAAGUUGCUCUAUCCGUUGUUUUGCGCGGAUUUGGCGUGCUUCCUGCUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCGCAAAACGU
..................(((.((((((((((......)))).....)))))).)))((((((((.(((..(....((((((.......))))))...)..))).))))))))....... ( -37.20)
>DroSec_CAF1 30664 120 + 1
UUCAAAUGAAAUAAAACAGUACGACAGCGAGUUAAGUUGCUCUAUCCGUUGUUUUGUGCGGAUUUGGCGUGCUUUCUGCUAUUUUCCCCGUGGCAAACGUGCGCGAAAUUCGCAAACCGU
..........((((((((..(((.....((((......))))....)))))))))))((((((((.(((..(.((.((((((.......)))))))).)..))).))))))))....... ( -36.20)
>DroSim_CAF1 35333 120 + 1
UUCAAAUGAAAUAAAACAGUACGACAGCGAGUUAAGUUGCUCUAUCCGUUGUUUUGCGCGGAUUUGGCGUGCUUCCUGCUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCGCAAACCGU
..................(((.((((((((((......)))).....)))))).)))((((((((.(((..(....((((((.......))))))...)..))).))))))))....... ( -37.20)
>DroEre_CAF1 29835 120 + 1
UCCAAAUGAAAUAAAACAGCGCGACAGCGAGUUAAGUUCCUCUAUCCGUUGUUUUGCGCGGAUCUCGCGUGCGUCCUGCUAUUUUGCCCGUGGCAAACGUGCGCGGAAUUCGCAAACCGU
...........(((((((((((....))(((........))).....))))))))).((((((..((((..(((..((((((.......)))))).)))..))))..))))))....... ( -43.70)
>DroYak_CAF1 33646 120 + 1
UUCAAAUGAAAUAAAAGAGUACGACAGCGAGUUAAGUUUCCCUAUCCGUUGUUUUGCGCGGAUUUAGCGUGCUUUCUGAUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCAAAAACGGU
......((((.....((((((((.(((.(((......))).))((((((........))))))...)))))))))............(((((.((....)))))))..))))........ ( -25.10)
>consensus
UUCAAAUGAAAUAAAACAGUACGACAGCGAGUUAAGUUGCUCUAUCCGUUGUUUUGCGCGGAUUUGGCGUGCUUCCUGCUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCGCAAACCGU
..................(((.(((((((.(...((.....))..)))))))).)))((((((((.(((..(....((((((.......))))))...)..))).))))))))....... (-31.18 = -31.34 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,047,960 – 4,048,080
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.75
Mean single sequence MFE -34.42
Consensus MFE -28.54
Energy contribution -29.46
Covariance contribution 0.92
Combinations/Pair 1.10
Mean z-score -1.44
Structure conservation index 0.83
SVM decision value 0.39
SVM RNA-class probability 0.716993
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4047960 120 + 20766785
UCUAUCCGUUGUUUUGCGCGGAUUUGGCGUGCUUCCUGCUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCGCAAAACGUAAAAAAUUCAUUUCAUCCAUUUCGAAAUAGUAGGAAGCGA
...((((((........))))))......((((((((((((((((....((((...((((..(((.....)))...))))................))))...)))))))))))))))). ( -35.31)
>DroSec_CAF1 30704 120 + 1
UCUAUCCGUUGUUUUGUGCGGAUUUGGCGUGCUUUCUGCUAUUUUCCCCGUGGCAAACGUGCGCGAAAUUCGCAAACCGUAAAAAAUUGAUUUCAUCCAUUUCGUAAUAGCAGGAAGCGA
...((((((........))))))......((((((((((((((......((((((....)))(((.....)))........................))).....)))))))))))))). ( -33.70)
>DroSim_CAF1 35373 120 + 1
UCUAUCCGUUGUUUUGCGCGGAUUUGGCGUGCUUCCUGCUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCGCAAACCGUAAAAAAUUCAUUUCAUCCAUUUCGUAAUAGCAGGAAGCGA
...((((((........))))))......((((((((((((((......((((((....)))(((.....)))........................))).....)))))))))))))). ( -35.00)
>DroEre_CAF1 29875 119 + 1
UCUAUCCGUUGUUUUGCGCGGAUCUCGCGUGCGUCCUGCUAUUUUGCCCGUGGCAAACGUGCGCGGAAUUCGCAAACCGUAAAAAAUUCAU-UCAUCCAUUUCGGAAUAGUAGAAAGCGA
......((((.((((((((((((..((((..(((..((((((.......)))))).)))..))))..))))))..................-...(((.....)))...)))))))))). ( -41.30)
>DroYak_CAF1 33686 120 + 1
CCUAUCCGUUGUUUUGCGCGGAUUUAGCGUGCUUUCUGAUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCAAAAACGGUAAAAAAUUCAUUUCAUUCAUUUCGGAAUAGUAGGAAGCGA
...((((((........))))))......(((((((((.....(((((((((.((....)))))))...........((........))..............))))...))))))))). ( -26.80)
>consensus
UCUAUCCGUUGUUUUGCGCGGAUUUGGCGUGCUUCCUGCUAUUUUCCCCGUGGCAAACGUGCGCGGAAUUCGCAAACCGUAAAAAAUUCAUUUCAUCCAUUUCGGAAUAGUAGGAAGCGA
...((((((........))))))......((((((((((((((((....((((((....)))(((.....)))........................)))...)))))))))))))))). (-28.54 = -29.46 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 4,048,080 – 4,048,178
Length 98
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 86.04
Mean single sequence MFE -34.10
Consensus MFE -26.89
Energy contribution -27.45
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.57
Structure conservation index 0.79
SVM decision value 0.24
SVM RNA-class probability 0.649928
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4048080 98 - 20766785
-------------------UUGGUCAGCGGCGCUUUUUAUGCAAAUAACAAGCUGCCAGACAAUCGGGCUUGACGUGAGGACUUUAAGCCGCAUACCGCCGCGAUUUGCCGUUUAAA
-------------------..(((..(((((((((.((((....)))).))))(((..(.....).(((((((.((....)).))))))))))....))))).....)))....... ( -29.90)
>DroSec_CAF1 30824 117 - 1
UAAGCCCAACAUGCUCCAGUUGGUCAGCGGCGCUUUUUAUGCAAAUAACAAGCUGCCAGACAAUCGGGCUUGAAGUGAGGACUUUAAGCCGCAUACCGCCGCACUUUGCCGUUUAAA
((((((((((........)))))...(((((((((.((((....)))).))))(((..(.....).((((((((((....)))))))))))))....)))))........))))).. ( -39.10)
>DroSim_CAF1 35493 117 - 1
UAAGCCCAACAUGCUCCAGUUGGUCAGCGGCGCUUUUUAUGCAAAUAACAAACUGCCAGACAAUCGGGCUUGAAGUGAGGACUUUAAGCCGCAUACCGCCGCACUUUGCCGUUUAAA
((((((((((........)))))...((((((.....(((((................(.....).((((((((((....))))))))))))))).))))))........))))).. ( -37.20)
>DroYak_CAF1 33806 115 - 1
UAAGCCCAAUGUGCUACAGUUGGUCAGCGGCGCU--UUAUGCAAAUAACAAGCUGCCAGACAAUCAAGCUUGAAGUGAGGACUUUAAGCCGCAUACCGCCGGAGUUUGCUGUUUAAG
(((((((..(((((........(((.(((((...--((((....))))...)))))..)))......(((((((((....))))))))).))))).....)).)))))......... ( -30.20)
>consensus
UAAGCCCAACAUGCUCCAGUUGGUCAGCGGCGCUUUUUAUGCAAAUAACAAGCUGCCAGACAAUCGGGCUUGAAGUGAGGACUUUAAGCCGCAUACCGCCGCACUUUGCCGUUUAAA
.....................(((..((((((.....(((((................(.....).((((((((((....))))))))))))))).)))))).....)))....... (-26.89 = -27.45 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:43 2006