Locus 2652

Sequence ID X_DroMel_CAF1
Location 7,103,067 – 7,103,201
Length 134
Max. P 0.827447
window4342 window4343

overview

Window 2

Location 7,103,067 – 7,103,162
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 78.45
Mean single sequence MFE -9.66
Consensus MFE -8.82
Energy contribution -8.58
Covariance contribution -0.24
Combinations/Pair 1.09
Mean z-score -1.27
Structure conservation index 0.91
SVM decision value 0.70
SVM RNA-class probability 0.827447
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7103067 95 - 22224390
AGAUGCUACGUGCUGCACACGGUCCACAUGACAUCUGCAUACAUCUCCCUCAUAUCCUCUUUCAUUUCUCCUAUUCGUUUUUUUUUUUUUUUUCA
..((((..((((.....))))(((.....)))....))))....................................................... (  -9.30)
>DroPse_CAF1 49440 86 - 1
CGAUGCUACGUGAUGCACAUGGUCCACAUGACAUCUGCAUA--UUUCUCUUAUAUCUUCC----UCUCUUCUGUCU---UUUUUUUCGCUUUCUA
..((((.....((((..((((.....)))).)))).)))).--.................----............---................ ( -10.20)
>DroSec_CAF1 93977 85 - 1
AGAUGCUACGUGCUGCACACGGUCCACAUGACAUCUGCAUACAUCUCCCUCAUAUCCUCUUUCAUUUCUCCUAUUC----------UUUUUUUCA
..((((..((((.....))))(((.....)))....))))....................................----------......... (  -9.30)
>DroSim_CAF1 94029 85 - 1
AGAUGCUACGUGCUGCACACGGUCCACAUGACAUCUGCAUACAUCUCCCUCAUAUCCUCUUUCAUUUCUCCUAUUC----------UUUUUUUCA
..((((..((((.....))))(((.....)))....))))....................................----------......... (  -9.30)
>DroPer_CAF1 49419 86 - 1
CGAUGCUACGUGAUGCACAUGGUCCACAUGACAUCUGCAUA--UUUCUCUUAUAUCUUCC----UCUCUUCUGUCU---UUUUUUUCGCUUUCUA
..((((.....((((..((((.....)))).)))).)))).--.................----............---................ ( -10.20)
>consensus
AGAUGCUACGUGCUGCACACGGUCCACAUGACAUCUGCAUACAUCUCCCUCAUAUCCUCUUUCAUUUCUCCUAUUC___UUUUUUUUUUUUUUCA
..((((..((((.....))))(((.....)))....))))....................................................... ( -8.82 =  -8.58 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 7,103,099 – 7,103,201
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.99
Mean single sequence MFE -31.20
Consensus MFE -23.89
Energy contribution -24.08
Covariance contribution 0.19
Combinations/Pair 1.04
Mean z-score -2.36
Structure conservation index 0.77
SVM decision value 0.23
SVM RNA-class probability 0.642125
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7103099 102 - 22224390
CAGGACUCGCAGGACUCGCCAAGGUGG-UCCACGGUCCACAGAUGCUACGUGCUGCACACGGUCCACAUGACAUC------UGCAUACAUCUCCCUCAUAUCCUCUUUC-----------
..((((.((..((((.(((....))))-))).)))))).((((((.((.((((((....)))..))).)).))))------))..........................----------- ( -28.20)
>DroSec_CAF1 93999 102 - 1
CAGGACUCGCAGGACUCGCCAAGGUGG-UCCACGGUCCACAGAUGCUACGUGCUGCACACGGUCCACAUGACAUC------UGCAUACAUCUCCCUCAUAUCCUCUUUC-----------
..((((.((..((((.(((....))))-))).)))))).((((((.((.((((((....)))..))).)).))))------))..........................----------- ( -28.20)
>DroSim_CAF1 94051 102 - 1
CAGGACUCGCAGGACUCGCCAAGGUGG-UCCACGGUCCACAGAUGCUACGUGCUGCACACGGUCCACAUGACAUC------UGCAUACAUCUCCCUCAUAUCCUCUUUC-----------
..((((.((..((((.(((....))))-))).)))))).((((((.((.((((((....)))..))).)).))))------))..........................----------- ( -28.20)
>DroEre_CAF1 96133 113 - 1
CAGGACUCGCAGGACUCGCCAAGGUGG-UCCACGGUCCACAGAUGCUACGUGCUGCACACGGUCCACAUGACAUC------UGCAUACAUCUUCCUCACAUCCUCCUCCAUUUCUCCACA
..((((.((..((((.(((....))))-))).)))))).((((((.((.((((((....)))..))).)).))))------))..................................... ( -28.20)
>DroYak_CAF1 96659 115 - 1
CAGGACUCGCAGGACUCGCCAAGGUGG-UCCACGGUCCACAGAUGCUACGUGCUGCACACGGUCCACAUGACAUCUGCAUCUGCAUACAUCUUCCUCAUAUCCU--UACAU-UCUCUAC-
..((((.((..((((.(((....))))-))).)))))).(((((((..((((.....))))(((.....)))....))))))).....................--.....-.......- ( -34.40)
>DroAna_CAF1 143370 107 - 1
AAGGAUACGAAGGACUCGCCAAGGUGGGCCCACCGUCCACAGAUGCUACGUGAUGCACACGGUCCACAUGACAUC------UGCAUA--UUUCCCUCAUAUCCUUCG-UAU-CCUUU---
((((((((((((((.........((((((.....))))))..((((..((((.....))))(((.....)))...------.)))).--...........)))))))-)))-)))).--- ( -40.00)
>consensus
CAGGACUCGCAGGACUCGCCAAGGUGG_UCCACGGUCCACAGAUGCUACGUGCUGCACACGGUCCACAUGACAUC______UGCAUACAUCUCCCUCAUAUCCUCUUUC___________
..((((.((..(((.((((....)))).))).))))))....((((..((((.....))))(((.....)))..........)))).................................. (-23.89 = -24.08 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:07 2006