Locus 6580

Sequence ID 2R_DroMel_CAF1
Location 20,583,512 – 20,583,604
Length 92
Max. P 0.999720
window10474 window10475

overview

Window 4

Location 20,583,512 – 20,583,604
Length 92
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 74.06
Mean single sequence MFE -27.40
Consensus MFE -16.18
Energy contribution -15.82
Covariance contribution -0.36
Combinations/Pair 1.25
Mean z-score -2.67
Structure conservation index 0.59
SVM decision value 3.16
SVM RNA-class probability 0.998618
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20583512 92 + 20766785
AUAGAAAAAAUACCUGCCUUACCGACG-UAUUGCGGUAAAGCAGUUU-UUCUUGGCCUGCCUGUAGUAAUGGUUUAGGCAGCACUCAUGACCAA
..(((((((....((((.((((((...-.....)))))).)))))))-))))..((.((((((...........))))))))............ ( -25.90)
>DroSec_CAF1 35193 93 + 1
AUAGGUAAAAUACCUGCCUUACCGACG-UAUUGCGGUAAAGCAGUUUUUUCUUGGCCUGCCUCUACUAAUGAGUUAGGCAGAAUAUCAGACAAA
...((((......((((.((((((...-.....)))))).))))....((((..(((((.(((.......))).)))))))))))))....... ( -27.00)
>DroSim_CAF1 35262 93 + 1
AUAGGUAAAAUACCUGCCUUACCGACG-AAUUGCGGUUAAGCAGUUUUUUCUUGUCCUGCCUCUAGUAAUGUGUUAGGCAGGGUAACAGACAAA
.((((((...))))))..(((((((((-((((((......)))))......)))))((((((.((....))....)))))))))))........ ( -24.10)
>DroEre_CAF1 62722 89 + 1
-----AAAAGGAUCUGCUUUACCGACGCAAGUGUGGUAAAGCAGUUUUUCCUUGGCCAGUCACUAGUGCUGCAUUCGGCUCUAAUGUUGACCAA
-----..(((((.(((((((((((((....)).)))))))))))....)))))((.(((.((.(((.((((....)))).))).))))).)).. ( -37.50)
>DroYak_CAF1 37078 90 + 1
A----UAAAACCCCUGCUUUACCGACCUUAUUGUGGUAAAGCAGUUUUUUCUUGGACUGUCACUAGUGGUGCAUUAGACAAAAGUGAUGAACAA
.----........((((((((((.((......))))))))))))........((..(.((((((..((..........))..)))))))..)). ( -22.50)
>consensus
AUAG_UAAAAUACCUGCCUUACCGACG_UAUUGCGGUAAAGCAGUUUUUUCUUGGCCUGCCUCUAGUAAUGCAUUAGGCAGAAUUGAUGACCAA
.............((((.((((((.(......))))))).))))............(((((...............)))))............. (-16.18 = -15.82 +  -0.36)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 20,583,512 – 20,583,604
Length 92
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 74.06
Mean single sequence MFE -28.53
Consensus MFE -20.78
Energy contribution -20.18
Covariance contribution -0.60
Combinations/Pair 1.33
Mean z-score -3.32
Structure conservation index 0.73
SVM decision value 3.94
SVM RNA-class probability 0.999720
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20583512 92 - 20766785
UUGGUCAUGAGUGCUGCCUAAACCAUUACUACAGGCAGGCCAAGAA-AAACUGCUUUACCGCAAUA-CGUCGGUAAGGCAGGUAUUUUUUCUAU
.((((........((((((.............))))))))))((((-(((((((((((((((....-.).)))))))))))....))))))).. ( -30.12)
>DroSec_CAF1 35193 93 - 1
UUUGUCUGAUAUUCUGCCUAACUCAUUAGUAGAGGCAGGCCAAGAAAAAACUGCUUUACCGCAAUA-CGUCGGUAAGGCAGGUAUUUUACCUAU
...((..((((((((((((..(((.......)))..))))..))).....((((((((((((....-.).))))))))))))))))..)).... ( -30.10)
>DroSim_CAF1 35262 93 - 1
UUUGUCUGUUACCCUGCCUAACACAUUACUAGAGGCAGGACAAGAAAAAACUGCUUAACCGCAAUU-CGUCGGUAAGGCAGGUAUUUUACCUAU
....(((.....(((((((.............)))))))...))).....((((((.(((((....-.).)))).))))))............. ( -26.02)
>DroEre_CAF1 62722 89 - 1
UUGGUCAACAUUAGAGCCGAAUGCAGCACUAGUGACUGGCCAAGGAAAAACUGCUUUACCACACUUGCGUCGGUAAAGCAGAUCCUUUU-----
(((((((.((((((.((........)).))))))..)))))))(((....((((((((((((......)).)))))))))).)))....----- ( -33.60)
>DroYak_CAF1 37078 90 - 1
UUGUUCAUCACUUUUGUCUAAUGCACCACUAGUGACAGUCCAAGAAAAAACUGCUUUACCACAAUAAGGUCGGUAAAGCAGGGGUUUUA----U
(((..(.(((((..((..........))..)))))..)..)))((((...((((((((((((......)).))))))))))...)))).----. ( -22.80)
>consensus
UUGGUCAGCAAUUCUGCCUAACGCAUUACUAGAGGCAGGCCAAGAAAAAACUGCUUUACCGCAAUA_CGUCGGUAAGGCAGGUAUUUUA_CUAU
.............((((((.............))))))............((((((((((((......)).))))))))))............. (-20.78 = -20.18 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:19 2006