Locus 6054

Sequence ID	3R_DroMel_CAF1
Location	15,922,375 – 15,922,489
Length	114
Max. P	0.938166

overview

Window 6

Location	15,922,375 – 15,922,489
Length	114
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	84.53
Mean single sequence MFE	-27.01
Consensus MFE	-18.34
Energy contribution	-18.78
Covariance contribution	0.44
Combinations/Pair	1.13
Mean z-score	-1.75
Structure conservation index	0.68
SVM decision value	0.09
SVM RNA-class probability	0.580818
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15922375 114 + 27905053
ACCAUAUAUCUCUUGUUUUCAGCUUGAGCACGGCAUAUUUUGGUUAAAAUAUCAAGGGAUUCCCGUGGGGAACCCCUUUAA-AACGCAUUCAAGUUAUUCCAAGUGCCUGGGCAA
.....................((((..((((((.(((.(((((..........(((((.(((((...))))).)))))...-.......))))).))).))..))))..)))).. ( -29.15)
>DroSec_CAF1 39945 112 + 1
ACCAUAUAUCUCUUGUUUUCAGCUU--ACACGGCAUAUUUUGGUUAAAAUAUCAAGGGAUUCCCGUGGGGAAACCCUUUAA-AACGCAUUGAAGUUAUUCCAAAUGCCUGGCCAA
.....................(((.--....))).....(((((((.......(((((.(((((...))))).)))))...-...((((((((....)))..))))).))))))) ( -24.40)
>DroSim_CAF1 29833 113 + 1
ACCAUAUAUCUCUUGUUUUCAGCUUGAACACGGCAUAUUUUGGUUAAAAUAUCAAGGGAUUCCCGUGG-GAACCCCUUUAA-AACGCAUUCAAGUUAUUCCAAAUGCCUGGCCAA
.(((..........((.(((.....))).))(((((...((((..........(((((.((((....)-))).)))))...-(((........)))...)))))))))))).... ( -25.70)
>DroEre_CAF1 29135 114 + 1
CCGAUGUAUCUUUUGGUUUUAGCUUGAACACGGCAUAUUUUGGGUAAAUUACCAAGGGAUUUCCCUAGGGAACCCCUUUAA-AACGCAUUCAAGUUAUUCCAAAUGCCUGGCCAA
(((..((((...((((...(((((((((..((..........((((...))))(((((..((((....)))).)))))...-..))..)))))))))..)))))))).))).... ( -30.70)
>DroYak_CAF1 39458 101 + 1
CUGAUAUAUCAUUUGUUUUUAGCUUGAACACGGCAUAUUUUGGUUCAAAUAUCAAGGGAUUUCCAUAGGGAAGCCCUUUAAAAACGCGUUCAAGU--------------GACCAA
.....................((((((((.(((.((((((......)))))))(((((.(((((....))))))))))......)).))))))))--------------...... ( -25.10)
>consensus
ACCAUAUAUCUCUUGUUUUCAGCUUGAACACGGCAUAUUUUGGUUAAAAUAUCAAGGGAUUCCCGUGGGGAACCCCUUUAA_AACGCAUUCAAGUUAUUCCAAAUGCCUGGCCAA
....................((((((((..((.......(((((......)))))(((.(((((...))))).)))........))..))))))))................... (-18.34 = -18.78 +   0.44)

alignment

secondary structure

dotplot

Window 7

Location	15,922,375 – 15,922,489
Length	114
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	84.53
Mean single sequence MFE	-30.89
Consensus MFE	-22.40
Energy contribution	-24.58
Covariance contribution	2.18
Combinations/Pair	1.06
Mean z-score	-2.41
Structure conservation index	0.73
SVM decision value	1.29
SVM RNA-class probability	0.938166
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15922375 114 - 27905053
UUGCCCAGGCACUUGGAAUAACUUGAAUGCGUU-UUAAAGGGGUUCCCCACGGGAAUCCCUUGAUAUUUUAACCAAAAUAUGCCGUGCUCAAGCUGAAAACAAGAGAUAUAUGGU
.(((....)))((((......(((((..(((..-...(((((((((((...))))))))))).(((((((....)))))))..)))..))))).......))))........... ( -33.82)
>DroSec_CAF1 39945 112 - 1
UUGGCCAGGCAUUUGGAAUAACUUCAAUGCGUU-UUAAAGGGUUUCCCCACGGGAAUCCCUUGAUAUUUUAACCAAAAUAUGCCGUGU--AAGCUGAAAACAAGAGAUAUAUGGU
((((....(((((.(((.....))))))))...-...(((((.(((((...))))).)))))..........)))).....(((((((--(..((.......))...)))))))) ( -29.10)
>DroSim_CAF1 29833 113 - 1
UUGGCCAGGCAUUUGGAAUAACUUGAAUGCGUU-UUAAAGGGGUUC-CCACGGGAAUCCCUUGAUAUUUUAACCAAAAUAUGCCGUGUUCAAGCUGAAAACAAGAGAUAUAUGGU
...((((..(.((((......((((((((((..-...(((((((((-(....)))))))))).(((((((....)))))))..)))))))))).......)))).).....)))) ( -35.02)
>DroEre_CAF1 29135 114 - 1
UUGGCCAGGCAUUUGGAAUAACUUGAAUGCGUU-UUAAAGGGGUUCCCUAGGGAAAUCCCUUGGUAAUUUACCCAAAAUAUGCCGUGUUCAAGCUAAAACCAAAAGAUACAUCGG
((((((((....)))).....(((((((((...-...((((((((((....)).))))))))((((((((.....)))).)))))))))))))......))))............ ( -31.40)
>DroYak_CAF1 39458 101 - 1
UUGGUC--------------ACUUGAACGCGUUUUUAAAGGGCUUCCCUAUGGAAAUCCCUUGAUAUUUGAACCAAAAUAUGCCGUGUUCAAGCUAAAAACAAAUGAUAUAUCAG
((((..--------------.((((((((((......(((((.((((....))))..))))).((((((......))))))..)))))))))))))).................. ( -25.10)
>consensus
UUGGCCAGGCAUUUGGAAUAACUUGAAUGCGUU_UUAAAGGGGUUCCCCACGGGAAUCCCUUGAUAUUUUAACCAAAAUAUGCCGUGUUCAAGCUGAAAACAAGAGAUAUAUGGU
(((.((((....)))).....((((((((((......(((((((((((...))))))))))).(((((((....)))))))..)))))))))).......)))............ (-22.40 = -24.58 +   2.18)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:30 2006