Locus 5349

Sequence ID 3R_DroMel_CAF1
Location 14,025,755 – 14,025,849
Length 94
Max. P 0.642934
window8720 window8721

overview

Window 0

Location 14,025,755 – 14,025,849
Length 94
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 90.76
Mean single sequence MFE -28.14
Consensus MFE -20.20
Energy contribution -20.80
Covariance contribution 0.60
Combinations/Pair 1.14
Mean z-score -2.05
Structure conservation index 0.72
SVM decision value 0.23
SVM RNA-class probability 0.642934
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14025755 94 + 27905053
CUUACAAAAGCCGGCG-AAUUUCCAUGUAUAUGCA--UUUACAUUGUUGUUGGCCCGCAACUGCAGUGCUGUUAGGUUAACAGCGGCAGUGUGACCA
.((((....((.(((.-(((..(.(((((......--..))))).)..))).))).)).(((((...(((((((...))))))).)))))))))... ( -31.90)
>DroSec_CAF1 10865 94 + 1
CUUACAAAAGCCGGCG-AAUUUCCAUGUAUAUGCA--UUUACAUUGUUGUUGGUCCGCAACUGCAGUGCUGUUAGGUUAACAGCGGCAGUGUGACCA
.((((....((.(((.-(((..(.(((((......--..))))).)..))).))).)).(((((...(((((((...))))))).)))))))))... ( -29.20)
>DroSim_CAF1 10774 96 + 1
CUUACAAAAGCCGGCG-AAUUUCCAUGUAUAUGCAUAUUUACAUUGUUGUUGGCCCGCAACUGCAGUGCUGUUAGGUUAACAGCGGCAGUGUGACCA
.((((....((.(((.-(((..(.(((((..........))))).)..))).))).)).(((((...(((((((...))))))).)))))))))... ( -31.00)
>DroEre_CAF1 10828 84 + 1
CUUACAAAAGCCGG-----------UGUAUAUGCA--UUUACGUUGUUGUUGGUCCGCAACUGCAGUGCUGUUAAGUUAACACUGGCAGUGUGACCA
.(((((...(((((-----------((((((.(((--((...((.(((((......))))).)))))))))).......))))))))..)))))... ( -24.21)
>DroYak_CAF1 10760 95 + 1
CUUACAAAAGCCGGCGUAAUUUCCAUGUAUAUGCA--UUUAUAUUGUUGUUGGCCCGCAACUGCAGUGCUGUUAAGUUAACACUGACAGUGUGACCA
.((((....((.(((.((((..(.(((((......--..))))).)..))))))).)).(((((((((.((......)).))))).))))))))... ( -24.40)
>consensus
CUUACAAAAGCCGGCG_AAUUUCCAUGUAUAUGCA__UUUACAUUGUUGUUGGCCCGCAACUGCAGUGCUGUUAGGUUAACAGCGGCAGUGUGACCA
.........(((((((......(.(((((..........))))).).))))))).((((.((((...(((((((...))))))).)))))))).... (-20.20 = -20.80 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,025,755 – 14,025,849
Length 94
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 90.76
Mean single sequence MFE -24.22
Consensus MFE -18.78
Energy contribution -19.78
Covariance contribution 1.00
Combinations/Pair 1.08
Mean z-score -1.54
Structure conservation index 0.78
SVM decision value 0.15
SVM RNA-class probability 0.606506
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14025755 94 - 27905053
UGGUCACACUGCCGCUGUUAACCUAACAGCACUGCAGUUGCGGGCCAACAACAAUGUAAA--UGCAUAUACAUGGAAAUU-CGCCGGCUUUUGUAAG
.(((......)))(((((((...)))))))..(((((..((.(((........(((((..--......))))).......-.))).))..))))).. ( -26.69)
>DroSec_CAF1 10865 94 - 1
UGGUCACACUGCCGCUGUUAACCUAACAGCACUGCAGUUGCGGACCAACAACAAUGUAAA--UGCAUAUACAUGGAAAUU-CGCCGGCUUUUGUAAG
(((((..(((((.(((((((...)))))))...)))))....)))))((((..(((((..--......)))))((.....-..)).....))))... ( -24.20)
>DroSim_CAF1 10774 96 - 1
UGGUCACACUGCCGCUGUUAACCUAACAGCACUGCAGUUGCGGGCCAACAACAAUGUAAAUAUGCAUAUACAUGGAAAUU-CGCCGGCUUUUGUAAG
.(((......)))(((((((...)))))))..(((((..((.(((........(((((.((....)).))))).......-.))).))..))))).. ( -26.09)
>DroEre_CAF1 10828 84 - 1
UGGUCACACUGCCAGUGUUAACUUAACAGCACUGCAGUUGCGGACCAACAACAACGUAAA--UGCAUAUACA-----------CCGGCUUUUGUAAG
(((((..(((((.((((((........)))))))))))....))))).............--......((((-----------........)))).. ( -20.80)
>DroYak_CAF1 10760 95 - 1
UGGUCACACUGUCAGUGUUAACUUAACAGCACUGCAGUUGCGGGCCAACAACAAUAUAAA--UGCAUAUACAUGGAAAUUACGCCGGCUUUUGUAAG
(((((..((((.(((((((........)))))))))))....))))).......((((((--.((......((....)).......)).)))))).. ( -23.32)
>consensus
UGGUCACACUGCCGCUGUUAACCUAACAGCACUGCAGUUGCGGGCCAACAACAAUGUAAA__UGCAUAUACAUGGAAAUU_CGCCGGCUUUUGUAAG
(((((..(((((.(((((((...)))))))...)))))....)))))...............((((......(((........))).....)))).. (-18.78 = -19.78 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:37 2006