Locus 627

Sequence ID X_DroMel_CAF1
Location 1,733,093 – 1,733,249
Length 156
Max. P 0.999935
window1012 window1013 window1014

overview

Window 2

Location 1,733,093 – 1,733,209
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.86
Mean single sequence MFE -57.72
Consensus MFE -52.58
Energy contribution -52.26
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -3.56
Structure conservation index 0.91
SVM decision value 4.66
SVM RNA-class probability 0.999935
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1733093 116 + 22224390
UGAGGCAAUCC----GUACAGAGAGCAGGACUUACCAUGGUGAGAUACGGGUGUCGGAGGAGUAACAUUACCUGCUCCUGGCGCUCGUACUCGUGGGUCAGGGUGUCCAUUGCUCGCUGA
...((....))----...(((.(((((((((..(((.(((((((.((((((((((..(((((((........)))))))))))))))))))))....))).)))))))..))))).))). ( -47.40)
>DroSec_CAF1 4312 118 + 1
UGGGGCAAUCC--GCGUACAGCGAGCAGGACUUACCAGGGUGAGAUACGGGUGUCGAAGGAGUAGCAUUACCUGCUCCUGGCGCUCGUACUCGCGGGUGAGGGUGUCCAUUGCUCGCUGG
.(((....)))--.....((((((((((((((((((...(((((.((((((((((..((((((((......))))))))))))))))))))))).)))))....))))..))))))))). ( -62.00)
>DroSim_CAF1 4866 118 + 1
UGGGGCAAUCC--GCGUACAGCGAGCAGGACUUACCAGGGUGAGAUACGGGUGUCGAAGGAGUAGCAUUACCUGCUCCUGGCGCUCGUACUCGCGGGUGAGGGUGUCCAUUGCUCGCUGG
.(((....)))--.....((((((((((((((((((...(((((.((((((((((..((((((((......))))))))))))))))))))))).)))))....))))..))))))))). ( -62.00)
>DroEre_CAF1 4407 120 + 1
UCGGACAAUCCGCGGGUAUAGCGAGCAAGACUUACCAGGGUGAUAUACGGGUGCCGGAGGAGCAGCAUCACCUGCUCCUGGCGCUCGUACUCGCGGGUCAGGGUGUCCAUUGCUCGCUGG
.(((.....)))......((((((((((....((((..(((((..((((((((((..((((((((......)))))))))))))))))).))))....)..))))....)))))))))). ( -56.70)
>DroYak_CAF1 4495 119 + 1
CCGUGUGGUU-ACGCGUAUAGCGAGCAAGACUUACCAGGGUAAGGUACGGGUGCCGAAGGAGCAGCAUGAUCUGCUCCUGGCGCUCGUACUCGCGGGUCAGGGUGUCCAUUGCUCGCUGG
.(((((....-)))))..(((((((((((((((((....)))))(((((((((((..((((((((......)))))))))))))))))))))...((.(.....).)).)))))))))). ( -60.50)
>consensus
UGGGGCAAUCC__GCGUACAGCGAGCAGGACUUACCAGGGUGAGAUACGGGUGUCGAAGGAGUAGCAUUACCUGCUCCUGGCGCUCGUACUCGCGGGUCAGGGUGUCCAUUGCUCGCUGG
..................((((((((((..((.(((...(((((.((((((((((..((((((((......))))))))))))))))))))))).))).))((...)).)))))))))). (-52.58 = -52.26 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,733,093 – 1,733,209
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.86
Mean single sequence MFE -41.50
Consensus MFE -32.12
Energy contribution -32.72
Covariance contribution 0.60
Combinations/Pair 1.07
Mean z-score -1.58
Structure conservation index 0.77
SVM decision value 0.19
SVM RNA-class probability 0.625546
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1733093 116 - 22224390
UCAGCGAGCAAUGGACACCCUGACCCACGAGUACGAGCGCCAGGAGCAGGUAAUGUUACUCCUCCGACACCCGUAUCUCACCAUGGUAAGUCCUGCUCUCUGUAC----GGAUUGCCUCA
.(((.(((((..((((............(((((((.(.(...((((..((((....)))).))))..).).)))).)))((....))..))))))))).)))...----((....))... ( -32.10)
>DroSec_CAF1 4312 118 - 1
CCAGCGAGCAAUGGACACCCUCACCCGCGAGUACGAGCGCCAGGAGCAGGUAAUGCUACUCCUUCGACACCCGUAUCUCACCCUGGUAAGUCCUGCUCGCUGUACGC--GGAUUGCCCCA
.(((((((((..((((...(((...(....)...))).((((((((((.....)))).......((.....))........))))))..))))))))))))).....--((......)). ( -39.80)
>DroSim_CAF1 4866 118 - 1
CCAGCGAGCAAUGGACACCCUCACCCGCGAGUACGAGCGCCAGGAGCAGGUAAUGCUACUCCUUCGACACCCGUAUCUCACCCUGGUAAGUCCUGCUCGCUGUACGC--GGAUUGCCCCA
.(((((((((..((((...(((...(....)...))).((((((((((.....)))).......((.....))........))))))..))))))))))))).....--((......)). ( -39.80)
>DroEre_CAF1 4407 120 - 1
CCAGCGAGCAAUGGACACCCUGACCCGCGAGUACGAGCGCCAGGAGCAGGUGAUGCUGCUCCUCCGGCACCCGUAUAUCACCCUGGUAAGUCUUGCUCGCUAUACCCGCGGAUUGUCCGA
..((((((((..((((......(((.(.(((((((.(.(((((((((((......))))))))..))).).))))).)).)...)))..)))))))))))).......(((.....))). ( -47.60)
>DroYak_CAF1 4495 119 - 1
CCAGCGAGCAAUGGACACCCUGACCCGCGAGUACGAGCGCCAGGAGCAGAUCAUGCUGCUCCUUCGGCACCCGUACCUUACCCUGGUAAGUCUUGCUCGCUAUACGCGU-AACCACACGG
..((((((((..((((..............(((((.(.(((((((((((......))))))))..))).).))))).((((....))))))))))))))))...((.((-....)).)). ( -48.20)
>consensus
CCAGCGAGCAAUGGACACCCUGACCCGCGAGUACGAGCGCCAGGAGCAGGUAAUGCUACUCCUUCGACACCCGUAUCUCACCCUGGUAAGUCCUGCUCGCUGUACGC__GGAUUGCCCCA
.(((((((((..((((..........((........))((((((((((.....)))).......((.....))........))))))..))))))))))))).................. (-32.12 = -32.72 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,733,129 – 1,733,249
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.58
Mean single sequence MFE -54.59
Consensus MFE -52.18
Energy contribution -51.54
Covariance contribution -0.64
Combinations/Pair 1.13
Mean z-score -2.16
Structure conservation index 0.96
SVM decision value 3.93
SVM RNA-class probability 0.999709
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1733129 120 + 22224390
UGAGAUACGGGUGUCGGAGGAGUAACAUUACCUGCUCCUGGCGCUCGUACUCGUGGGUCAGGGUGUCCAUUGCUCGCUGACUGACCGGUUUCACCAGGCGCCGCUUGCCCCGGAAUAUGU
.(((.((((((((((..(((((((........))))))))))))))))))))(.((((.((((((((...((...((((......))))..))...)))))).)).)))))......... ( -47.20)
>DroSec_CAF1 4350 120 + 1
UGAGAUACGGGUGUCGAAGGAGUAGCAUUACCUGCUCCUGGCGCUCGUACUCGCGGGUGAGGGUGUCCAUUGCUCGCUGGCUGACCGGCUUCACCAGGCGCCGCUUGCCCCGGAAUAUGU
.(((.((((((((((..((((((((......)))))))))))))))))))))(.(((..((((((((...((...(((((....)))))..))...)))))).))..))))......... ( -57.10)
>DroSim_CAF1 4904 120 + 1
UGAGAUACGGGUGUCGAAGGAGUAGCAUUACCUGCUCCUGGCGCUCGUACUCGCGGGUGAGGGUGUCCAUUGCUCGCUGGCUGACCGGUUUCACCAGGCGCCGCUUGCCCCGGAAUAUGU
.(((.((((((((((..((((((((......)))))))))))))))))))))(.(((..((((((((...((...(((((....)))))..))...)))))).))..))))......... ( -55.50)
>DroEre_CAF1 4447 120 + 1
UGAUAUACGGGUGCCGGAGGAGCAGCAUCACCUGCUCCUGGCGCUCGUACUCGCGGGUCAGGGUGUCCAUUGCUCGCUGGCUCACCGGCUUUACCAGGCGCCGCUUGCCUCGGAAUAUGU
.....((((((((((..((((((((......)))))))))))))))))).((.(((((.((((((((........(((((....))))).......)))))).)).))).))))...... ( -53.26)
>DroYak_CAF1 4534 120 + 1
UAAGGUACGGGUGCCGAAGGAGCAGCAUGAUCUGCUCCUGGCGCUCGUACUCGCGGGUCAGGGUGUCCAUUGCUCGCUGGCUGACCGGCUUCACCAGGCGCCGCUUGCCCCGGAAUAUGU
...((((((((((((..((((((((......))))))))))))))))))))((.((((.((((((((...((...(((((....)))))..))...)))))).)).))))))........ ( -59.90)
>consensus
UGAGAUACGGGUGUCGAAGGAGUAGCAUUACCUGCUCCUGGCGCUCGUACUCGCGGGUCAGGGUGUCCAUUGCUCGCUGGCUGACCGGCUUCACCAGGCGCCGCUUGCCCCGGAAUAUGU
.....((((((((((..((((((((......)))))))))))))))))).(((.(((..((((((((...((...(((((....)))))..))...)))))).))..))))))....... (-52.18 = -51.54 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:46 2006