Locus 2287

Sequence ID 2R_DroMel_CAF1
Location 8,411,736 – 8,411,849
Length 113
Max. P 0.980330
window3758 window3759

overview

Window 8

Location 8,411,736 – 8,411,830
Length 94
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 88.95
Mean single sequence MFE -25.45
Consensus MFE -21.92
Energy contribution -22.28
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -2.78
Structure conservation index 0.86
SVM decision value 1.86
SVM RNA-class probability 0.980330
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8411736 94 - 20766785
GCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUGGGCAUCUAAUUAAAUGCUCCUCGCGGCAG---AAAAACAAAAUGAAAAUAAU-ACGAAAGG
((.(((((..(((((((((((......)))))))))))((((........))))..))))).))..---....................-.(....). ( -26.00)
>DroSec_CAF1 23246 94 - 1
GCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUGGGCAUCUAAUUAAAUGCUCCUCGCGGCAG---AGAAACAAAAUGAAAAUAAU-ACGAAUGA
((.(((((..(((((((((((......)))))))))))((((........))))..))))).))..---....................-........ ( -24.60)
>DroSim_CAF1 22882 94 - 1
GCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUGGGCAUCUAAUUAAAUGCUCCUCGCGGCAG---AGAAACAAAAUGAAAAUAAU-ACGAAAGA
((.(((((..(((((((((((......)))))))))))((((........))))..))))).))..---....................-.(....). ( -25.80)
>DroEre_CAF1 25129 93 - 1
GCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUGGGCAUCUAAUUAAAUGCUCCUCGCGGCAG---AAACA-GAAAUGAAAAUAAU-ACGAAAGG
((.(((((..(((((((((((......)))))))))))((((........))))..))))).))..---...((-....))........-.(....). ( -27.20)
>DroYak_CAF1 23186 94 - 1
GCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUGGGCAUCUAAUUAAAUGCUCCUCGCGGCUG---AAGAACGAAAUGAAAAUAAU-ACGAAACU
.((((((((((((((((((((......))))))))).))))))).......(((.....)))))))---....................-........ ( -24.70)
>DroPer_CAF1 22573 92 - 1
GCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUGAGGCAUCUAAUUAAAUACUCCUCGUAGCAGCCCAAGCACA------AAACAGCCCCGAAAGG
((.(((((((((.((((((((......))))))))..))))))).......(((.....))))).((....))...------.....)).((....)) ( -24.40)
>consensus
GCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUGGGCAUCUAAUUAAAUGCUCCUCGCGGCAG___AAAAACAAAAUGAAAAUAAU_ACGAAAGG
((.(((((..(((((((((((......)))))))))))((((........))))..))))).)).................................. (-21.92 = -22.28 +   0.36)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,411,757 – 8,411,849
Length 92
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 79.21
Mean single sequence MFE -27.07
Consensus MFE -14.51
Energy contribution -15.03
Covariance contribution 0.53
Combinations/Pair 1.06
Mean z-score -1.97
Structure conservation index 0.54
SVM decision value 0.25
SVM RNA-class probability 0.652606
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8411757 92 - 20766785
A---AAGACGGUUCUCCUGCCUGCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUG-GGCAUCUAAUUAAAUGCUCCU-CGCGGCAGAAAAACA
.---......(((...(((((....(((((..(((((((((((......))))))))))-)((((........))))..))-))))))))...))). ( -29.30)
>DroVir_CAF1 29362 89 - 1
----GUCUUGCAUCUGC-GCCAGCGGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUCG-AGCAUCUAAUUAAAUACUCGU-AGCAUUCGAAUAUC-
----.((((((((((((-.......))))))).))))).........((((((.((.((-((.((........)).)))).-)).)))))).....- ( -25.50)
>DroGri_CAF1 31607 92 - 1
--UGCUGUUGCAUCUGC-GCCAGCGGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUCGGGGCAUCUAAUUAAAUACGCGU-AGCAUUCGAAUAUC-
--...((((((..((((-....)))).(((((((.((((((((......))))))))...)))))))............))-))))..........- ( -26.30)
>DroEre_CAF1 25150 92 - 1
AA--AAGACGGUUCUCCUGCCUGCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUG-GGCAUCUAAUUAAAUGCUCCU-CGCGGCAGAAACA-G
..--.....((....))...((((.(((((..(((((((((((......))))))))))-)((((........))))..))-))).)))).....-. ( -29.20)
>DroYak_CAF1 23207 92 - 1
A---AAGACGGUUCUCCUGCCUGCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUG-GGCAUCUAAUUAAAUGCUCCU-CGCGGCUGAAGAACG
.---......(((((.(.(((....(((((..(((((((((((......))))))))))-)((((........))))..))-)))))).).))))). ( -30.80)
>DroAna_CAF1 22842 87 - 1
---------GUUUCUCCUGACUGCCGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUG-GGUAUCUAAUUAAAUGUUCCUUCGCAGCCAAAAGGUG
---------......(((....((.((((((((((((((((((......))))))))).-)))))))........(......))).))....))).. ( -21.30)
>consensus
____AAGACGGUUCUCCUGCCUGCAGCGGGUGCCAAGGAAUUUUAAAUCGAAUUCUUUG_GGCAUCUAAUUAAAUGCUCCU_CGCAGCCGAAAAACG
..................((.....))((((((((((((((((......)))))))))..))))))).............................. (-14.51 = -15.03 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:46 2006