Locus 9765

Sequence ID 3R_DroMel_CAF1
Location 25,867,055 – 25,867,197
Length 142
Max. P 0.773076
window15600 window15601

overview

Window 0

Location 25,867,055 – 25,867,157
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 65.37
Mean single sequence MFE -37.43
Consensus MFE -11.52
Energy contribution -11.67
Covariance contribution 0.14
Combinations/Pair 1.56
Mean z-score -1.93
Structure conservation index 0.31
SVM decision value 0.29
SVM RNA-class probability 0.669101
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25867055 102 - 27905053
CACAUCAAGGUUUGCGCCACUG------------------GGCGCCACCUCCGGCAGCCUAGCCUUCAGAUCGCUGGCGAAGUCCAGGAAAGUGGCGCAGAACUCGUUCAGCCAGCCAAU
........((((((((((((((------------------((((((......))).(((.(((.........))))))...)))).....)))))))))(((....)))))))....... ( -38.00)
>DroPse_CAF1 10157 120 - 1
UACUUCUAUGUUGUUGCCGCCUUCGGGCGCCCCCCAUCUGGGGGCUAUUUCCGGCAAGUGUGCUUUGAGUUCACUUGCAAAGUCCAGAAAUGUGGCACAGAACUCAUUUAGCCAGGCAAU
........((((.((((((((....)))((((((.....)))))).......))))).((.(((.(((((((...(((......((....))..)))..)))))))...))))))))).. ( -46.30)
>DroEre_CAF1 19206 102 - 1
CACAUCUAGGUUGGCGCCACUG------------------GGCGCCACCUCCGGCAGUCUGGCUUUCAGAUCGCUGGCAAAGUCCAAGAAAGUGGCGCAGAACUCGUUCAGCCAGCCAAU
........((((((((((((((------------------(((.......(((((.(((((.....))))).)))))....)))).....))))))...(((....))).)))))))... ( -43.10)
>DroWil_CAF1 11653 117 - 1
CACAUGAAGAUCCGUGCUACUUUCCGUAGU---AUAUUUUGGUGCCACUUCUGGUAGAUAGAUUUUAAACUCACUGGCAAAUUUUAGGAAUGUUGCGCAAAAUCUAUUCAACCAUUUAAU
..(((.(((((..(((((((.....)))))---))))))).))).......((((.((((((((((.(((...((((......))))....)))....))))))))))..))))...... ( -24.40)
>DroAna_CAF1 19371 117 - 1
UACUUCGAGACUGUCUCCGCUUUCCAACGG---CCAUCGCGGAGAAAUAUCUGGCAAUUUCCCUUUGAGUUCGCUGGCAAAGUCCAGAAAAGUGGCGCAGAAUUCGUUCAACCAGCCCAU
...(((..((((.(((((((..........---.....))))))).....(..(((((((......))))).))..)...))))..)))..(.(((...(((....))).....)))).. ( -26.46)
>DroPer_CAF1 10571 120 - 1
UACUUCUAUGUUGUUGCCGCCUUCGGGCGCCCCCCAUCUGGGGGCUAUUUCCGGCAAGUGUGCUUUGAGUUCACUUGCAAAGUCCAGAAAUGUGGCACAGAACUCAUUUAGCCAGGCAAU
........((((.((((((((....)))((((((.....)))))).......))))).((.(((.(((((((...(((......((....))..)))..)))))))...))))))))).. ( -46.30)
>consensus
CACAUCUAGGUUGGCGCCACUUUC_G_CG____CCAUCU_GGCGCCACUUCCGGCAAGUUGGCUUUGAGUUCACUGGCAAAGUCCAGAAAAGUGGCGCAGAACUCAUUCAGCCAGCCAAU
..........(((.((((((.......................(((......)))..................((((......))))....))))))))).................... (-11.52 = -11.67 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 25,867,095 – 25,867,197
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 67.74
Mean single sequence MFE -41.64
Consensus MFE -12.62
Energy contribution -11.18
Covariance contribution -1.44
Combinations/Pair 1.62
Mean z-score -2.06
Structure conservation index 0.30
SVM decision value 0.53
SVM RNA-class probability 0.773076
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25867095 102 - 27905053
UGCAGGUUACCACCUGGGUGAGGCACAGGAAGAUGGUCUCCACAUCAAGGUUUGCGCCACUG------------------GGCGCCACCUCCGGCAGCCUAGCCUUCAGAUCGCUGGCGA
..(((((....)))))(((.((((...(((.((((.......))))..(((..(((((....------------------))))).))))))....)))).))).((((....))))... ( -37.50)
>DroPse_CAF1 10197 120 - 1
UGCAAGUAACGACCUGUGUGAGGCACAGGAAGAUCGUCUCUACUUCUAUGUUGUUGCCGCCUUCGGGCGCCCCCCAUCUGGGGGCUAUUUCCGGCAAGUGUGCUUUGAGUUCACUUGCAA
((((((((((........((((((((((((((..........)))))......((((((((....)))((((((.....)))))).......))))).))))))))).))).))))))). ( -50.60)
>DroEre_CAF1 19246 102 - 1
UGCAGGUUACCACCUGGGUGAGGCACAGAAAGAUGGUCUCCACAUCUAGGUUGGCGCCACUG------------------GGCGCCACCUCCGGCAGUCUGGCUUUCAGAUCGCUGGCAA
(((((((....(((((((((((((.((......)))))))...)))))))).((((((....------------------)))))))))).((((.(((((.....))))).))))))). ( -45.60)
>DroWil_CAF1 11693 117 - 1
UGCAGGUCACCACUUGAGUGAGGCAUAGGAAAAUCGUCUCCACAUGAAGAUCCGUGCUACUUUCCGUAGU---AUAUUUUGGUGCCACUUCUGGUAGAUAGAUUUUAAACUCACUGGCAA
..(((((....)))))((((((.......((((((((((((((((.(((((..(((((((.....)))))---))))))).))).......))).)))).))))))...))))))..... ( -30.21)
>DroAna_CAF1 19411 117 - 1
UGCAGGUUACCACUUGGGUAAGGCAUAGGAAAAUAGUCUCUACUUCGAGACUGUCUCCGCUUUCCAACGG---CCAUCGCGGAGAAAUAUCUGGCAAUUUCCCUUUGAGUUCGCUGGCAA
(((.(((.((((...(((....((...(((...(((((((......)))))))(((((((..........---.....)))))))....))).)).....)))..)).))..))).))). ( -35.36)
>DroPer_CAF1 10611 120 - 1
UGCAAGUAACGACCUGUGUGAGGCACAGGAAGAUCGUCUCUACUUCUAUGUUGUUGCCGCCUUCGGGCGCCCCCCAUCUGGGGGCUAUUUCCGGCAAGUGUGCUUUGAGUUCACUUGCAA
((((((((((........((((((((((((((..........)))))......((((((((....)))((((((.....)))))).......))))).))))))))).))).))))))). ( -50.60)
>consensus
UGCAGGUUACCACCUGGGUGAGGCACAGGAAGAUCGUCUCCACAUCUAGGUUGGCGCCACUUUC_G_CG____CCAUCU_GGCGCCACUUCCGGCAAGUUGGCUUUGAGUUCACUGGCAA
(((.(((..........(((((((...........)))).)))..........(((((......................))))).......(((......)))........))).))). (-12.62 = -11.18 +  -1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:41:43 2006