Locus 5856

Sequence ID X_DroMel_CAF1
Location 15,118,277 – 15,118,367
Length 90
Max. P 0.942991
window9504 window9505

overview

Window 4

Location 15,118,277 – 15,118,367
Length 90
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 86.79
Mean single sequence MFE -18.14
Consensus MFE -14.43
Energy contribution -14.77
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.80
SVM decision value 0.23
SVM RNA-class probability 0.646370
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15118277 90 + 22224390
UAUGCCACGAAAAGUAUGCACAAGUUUGUGCCAAUCCUUCCUAAA----AAAAUCCCAGCCAAACUGGGUGGUAUGGGCAAAA-AAUAGAAAAAA
(((((((((((......(((((....)))))......))).....----......((((.....)))))))))))).......-........... ( -20.70)
>DroSec_CAF1 29990 95 + 1
UAUGCCACGAAAAGUAUGCACAAGUUUGUGCCAAUCCUCCCUAAAAAAAAAAAUCCCAGCCAAGCUUGGUGGUAUAGGCAAAGAAAGAAAAAUAA
((((((((.....(....).((((((((.((...........................))))))))))))))))))................... ( -18.73)
>DroEre_CAF1 37152 87 + 1
UAUGCCACGAGAAGUAUGCACAAGUUUUUGCCAAUCCUCCCUAAA----AAAAUCCCAGCCAAGCCUGGUGGUAUAGGCAAAA-AAUAAAAA---
..((((..(((......(((........))).....)))......----...(((((((......)))).)))...))))...-........--- ( -15.00)
>consensus
UAUGCCACGAAAAGUAUGCACAAGUUUGUGCCAAUCCUCCCUAAA____AAAAUCCCAGCCAAGCUUGGUGGUAUAGGCAAAA_AAUAAAAA_AA
..((((...........(((((....)))))........................(((.((......)))))....))))............... (-14.43 = -14.77 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,118,277 – 15,118,367
Length 90
Sequences 3
Columns 95
Reading direction reverse
Mean pairwise identity 86.79
Mean single sequence MFE -23.23
Consensus MFE -21.04
Energy contribution -20.93
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -2.23
Structure conservation index 0.91
SVM decision value 1.33
SVM RNA-class probability 0.942991
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15118277 90 - 22224390
UUUUUUCUAUU-UUUUGCCCAUACCACCCAGUUUGGCUGGGAUUUU----UUUAGGAAGGAUUGGCACAAACUUGUGCAUACUUUUCGUGGCAUA
...........-...(((((......(((((.....))))).....----....((((((....(((((....)))))...))))))).)))).. ( -26.20)
>DroSec_CAF1 29990 95 - 1
UUAUUUUUCUUUCUUUGCCUAUACCACCAAGCUUGGCUGGGAUUUUUUUUUUUAGGGAGGAUUGGCACAAACUUGUGCAUACUUUUCGUGGCAUA
...............((((....((((((....))).)))..............(..(((....(((((....)))))...)))..)..)))).. ( -22.40)
>DroEre_CAF1 37152 87 - 1
---UUUUUAUU-UUUUGCCUAUACCACCAGGCUUGGCUGGGAUUUU----UUUAGGGAGGAUUGGCAAAAACUUGUGCAUACUUCUCGUGGCAUA
---.......(-(((((((.......((((......))))((((((----(.....)))))))))))))))..(((((.(((.....)))))))) ( -21.10)
>consensus
UU_UUUUUAUU_UUUUGCCUAUACCACCAAGCUUGGCUGGGAUUUU____UUUAGGGAGGAUUGGCACAAACUUGUGCAUACUUUUCGUGGCAUA
...............((((....(((((......)).)))..............((((((....(((((....)))))...))))))..)))).. (-21.04 = -20.93 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:03 2006