Locus 1733

Sequence ID	3R_DroMel_CAF1
Location	4,981,897 – 4,981,988
Length	91
Max. P	0.941130

overview

Window 9

Location	4,981,897 – 4,981,988
Length	91
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	81.82
Mean single sequence MFE	-20.80
Consensus MFE	-16.92
Energy contribution	-16.87
Covariance contribution	-0.06
Combinations/Pair	1.07
Mean z-score	-2.70
Structure conservation index	0.81
SVM decision value	1.31
SVM RNA-class probability	0.941130
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4981897 91 + 27905053
--CACUCUAUUUCUC--UGCUCCUUCCAC--AUUCGGUUCUGGCCCACAGCAUAAUUCAUAUGCUAUUUAAGCCCGGGCCAUAAAUUUACCGACCAA
--.............--............--..(((((..((((((..((((((.....))))))..........)))))).......))))).... ( -18.60)
>DroPse_CAF1 127707 97 + 1
AUCGCUCUCACCCAGACCGCCGCAUCCACUCGCUCGGCUCUGGCCCAAAGCAUAAUUCAUAUGCUGCUUAAGCCUGGGCCAUAAAUUUACCGACCAA
.(((.........((((((..((........)).))).)))((((((.((((((.....))))))((....)).))))))..........))).... ( -25.80)
>DroEre_CAF1 89432 91 + 1
--CACUCUAUUCUUG--CACUUCUUCCAC--AUUCGGUUCUGGCCCAAAGCAUAAUUCAUAUGCUAUUUAAGCCCGGGCCAUAAAUUUACCGACUAA
--.............--............--..(((((..((((((..((((((.....))))))..........)))))).......))))).... ( -18.60)
>DroYak_CAF1 90603 91 + 1
--CACUCUAUUCCCG--CUCGCCUUCCAC--UUUCGGUUCUGGCCCAAAGCAUAAUUCAUAUGCUAUUUAAGCCCGGGCCAUAAAUUUACCGACCAA
--.............--............--..(((((..((((((..((((((.....))))))..........)))))).......))))).... ( -18.60)
>DroAna_CAF1 84068 93 + 1
CUCGCUCUAAUUCGG--UUUUCCUCCCAC--UCUCGGUUCUGCCCCAGAGCAUAAUUCAUAUGCUAUUUAAGCCUGGGCCAUAAAUUCACCGGCCAA
...........((((--(.......((..--....))...((.(((((((((((.....))))))........))))).)).......))))).... ( -17.40)
>DroPer_CAF1 134207 97 + 1
AUCGCUCUCACCCAGACCGCCGCAUCCACUCGCUCGGCUCUGGCCCAAAGCAUAAUUCAUAUGCUGCUUAAGCCUGGGCCAUAAAUUUACCGACCAA
.(((.........((((((..((........)).))).)))((((((.((((((.....))))))((....)).))))))..........))).... ( -25.80)
>consensus
__CACUCUAAUCCAG__CGCUCCUUCCAC__ACUCGGUUCUGGCCCAAAGCAUAAUUCAUAUGCUAUUUAAGCCCGGGCCAUAAAUUUACCGACCAA
...................................(((((.(((....((((((.....))))))......))).)))))................. (-16.92 = -16.87 +  -0.06)

alignment

secondary structure

dotplot

Window 0

Location	4,981,897 – 4,981,988
Length	91
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	81.82
Mean single sequence MFE	-27.38
Consensus MFE	-22.03
Energy contribution	-21.95
Covariance contribution	-0.08
Combinations/Pair	1.16
Mean z-score	-1.71
Structure conservation index	0.80
SVM decision value	0.56
SVM RNA-class probability	0.781412
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4981897 91 - 27905053
UUGGUCGGUAAAUUUAUGGCCCGGGCUUAAAUAGCAUAUGAAUUAUGCUGUGGGCCAGAACCGAAU--GUGGAAGGAGCA--GAGAAAUAGAGUG--
....(((((.......((((((........((((((((.....))))))))))))))..))))).(--((.......)))--.............-- ( -23.80)
>DroPse_CAF1 127707 97 - 1
UUGGUCGGUAAAUUUAUGGCCCAGGCUUAAGCAGCAUAUGAAUUAUGCUUUGGGCCAGAGCCGAGCGAGUGGAUGCGGCGGUCUGGGUGAGAGCGAU
(((.(((((.......((((((((((....))((((((.....))))))))))))))..))))).)))..........((.(((.....))).)).. ( -34.30)
>DroEre_CAF1 89432 91 - 1
UUAGUCGGUAAAUUUAUGGCCCGGGCUUAAAUAGCAUAUGAAUUAUGCUUUGGGCCAGAACCGAAU--GUGGAAGAAGUG--CAAGAAUAGAGUG--
....(((((.......((((((((........((((((.....))))))))))))))..)))))..--............--.............-- ( -22.70)
>DroYak_CAF1 90603 91 - 1
UUGGUCGGUAAAUUUAUGGCCCGGGCUUAAAUAGCAUAUGAAUUAUGCUUUGGGCCAGAACCGAAA--GUGGAAGGCGAG--CGGGAAUAGAGUG--
............(((((..(((((((((((..((((((.....)))))))))))))....(((...--.)))........--)))).)))))...-- ( -25.20)
>DroAna_CAF1 84068 93 - 1
UUGGCCGGUGAAUUUAUGGCCCAGGCUUAAAUAGCAUAUGAAUUAUGCUCUGGGGCAGAACCGAGA--GUGGGAGGAAAA--CCGAAUUAGAGCGAG
..(((((.........)))))...((((.(((.(((((.....)))))(((.((......)).)))--.(((........--))).))).))))... ( -24.00)
>DroPer_CAF1 134207 97 - 1
UUGGUCGGUAAAUUUAUGGCCCAGGCUUAAGCAGCAUAUGAAUUAUGCUUUGGGCCAGAGCCGAGCGAGUGGAUGCGGCGGUCUGGGUGAGAGCGAU
(((.(((((.......((((((((((....))((((((.....))))))))))))))..))))).)))..........((.(((.....))).)).. ( -34.30)
>consensus
UUGGUCGGUAAAUUUAUGGCCCAGGCUUAAAUAGCAUAUGAAUUAUGCUUUGGGCCAGAACCGAAA__GUGGAAGGAGCG__CAGGAAUAGAGCG__
....(((((.......((((((((........((((((.....))))))))))))))..)))))................................. (-22.03 = -21.95 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:58 2006