Locus 8002

Sequence ID	3L_DroMel_CAF1
Location	21,120,915 – 21,121,028
Length	113
Max. P	0.958171

overview

Window 6

Location	21,120,915 – 21,121,028
Length	113
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.31
Mean single sequence MFE	-34.54
Consensus MFE	-28.22
Energy contribution	-28.26
Covariance contribution	0.04
Combinations/Pair	1.17
Mean z-score	-1.66
Structure conservation index	0.82
SVM decision value	0.77
SVM RNA-class probability	0.845491
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21120915 113 + 23771897
CUUU-UUUCACAUAACGGACAUUGAUUUUCGCCUCCAUAUGGUGGCUAAAAUCGGAGGUUGAGGUUGAAGUCUAAUUUGAACCCUGGCUAUUGCACCAGGGAGCUGUUUCUAUU------
....-.((((.((...((((.(..(((((.((((((....(((.......))))))))).)))))..).)))).)).))))((((((........)))))).............------ ( -31.10)
>DroSec_CAF1 171551 119 + 1
CUUU-UUUCACAUAACGGACAUUGAUUUUCGCCUCCAUAUGGUGGCUAAAAUCGGAGGUUGGGGUUGAAGUCGAAUUUGAACCCUGGCUAUUGCACCAGGGAGCUGUUCCUAUUCCAGUU
....-...........(((....((((((.(((.((....)).))).))))))((((((..(((((.((((...)))).)))))..))).......(((....))).)))...))).... ( -37.50)
>DroSim_CAF1 83259 119 + 1
CUUU-UUUCACAUAACGGACAUUGAUUUUCGCCUCCAUAUGGUGGCUAAAAUCGGAGGUUGGGGUUGAAGUCGAAUUUGAACCCUGGCUAUUGCACCAGGGAGCUGUUCCUAUUCCUGUU
....-........(((((.....((((((.(((.((....)).))).))))))((((((..(((((.((((...)))).)))))..))).......(((....))).))).....))))) ( -37.30)
>DroEre_CAF1 94123 120 + 1
CUUUAUUUCACAUAACCGACAUUGAUUUUUGCCUCCAUAUGGUGGCUGAAAUCGGAGGUUGAGAAUGAAGUCAAAUUUGAACCCUGGCUAUUGCACCAGGGAGCUGUUCCUAUUCCUGUU
((((((((....(((((....((((((((.(((.((....)).))).)))))))).))))).))))))))...........((((((........))))))................... ( -34.10)
>DroYak_CAF1 64939 120 + 1
CUUUUUUUCACAAAACGGACAUUGAUUUUUGCCUCCAUAUGGUGGCUAAAAUCGGACGUUGAGGCUGAAGUCGAAUUUGAACCCUGGCUAUUGCACUAGGGAGCUGUUCCUGUUCCUGUU
.............(((((.....((((((.(((.((....)).))).))))))((((.....(((....)))((((..(..((((((........))))))..).))))..))))))))) ( -32.70)
>consensus
CUUU_UUUCACAUAACGGACAUUGAUUUUCGCCUCCAUAUGGUGGCUAAAAUCGGAGGUUGAGGUUGAAGUCGAAUUUGAACCCUGGCUAUUGCACCAGGGAGCUGUUCCUAUUCCUGUU
................(((((((((((((.(((((.((.((((.......))))...)).))))).)))))))).......((((((........))))))...)))))........... (-28.22 = -28.26 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	21,120,915 – 21,121,028
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.31
Mean single sequence MFE	-30.06
Consensus MFE	-26.26
Energy contribution	-27.06
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.68
Structure conservation index	0.87
SVM decision value	1.49
SVM RNA-class probability	0.958171
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21120915 113 - 23771897
------AAUAGAAACAGCUCCCUGGUGCAAUAGCCAGGGUUCAAAUUAGACUUCAACCUCAACCUCCGAUUUUAGCCACCAUAUGGAGGCGAAAAUCAAUGUCCGUUAUGUGAAA-AAAG
------.((((..((((..(((((((......)))))))..).........................((((((.(((.((....)).))).))))))..)))...))))......-.... ( -27.70)
>DroSec_CAF1 171551 119 - 1
AACUGGAAUAGGAACAGCUCCCUGGUGCAAUAGCCAGGGUUCAAAUUCGACUUCAACCCCAACCUCCGAUUUUAGCCACCAUAUGGAGGCGAAAAUCAAUGUCCGUUAUGUGAAA-AAAG
(((.(((...(((...(..(((((((......)))))))..)......(....)..........)))((((((.(((.((....)).))).))))))....))))))........-.... ( -31.90)
>DroSim_CAF1 83259 119 - 1
AACAGGAAUAGGAACAGCUCCCUGGUGCAAUAGCCAGGGUUCAAAUUCGACUUCAACCCCAACCUCCGAUUUUAGCCACCAUAUGGAGGCGAAAAUCAAUGUCCGUUAUGUGAAA-AAAG
....(((...(((...(..(((((((......)))))))..)......(....)..........)))((((((.(((.((....)).))).))))))....)))...........-.... ( -31.90)
>DroEre_CAF1 94123 120 - 1
AACAGGAAUAGGAACAGCUCCCUGGUGCAAUAGCCAGGGUUCAAAUUUGACUUCAUUCUCAACCUCCGAUUUCAGCCACCAUAUGGAGGCAAAAAUCAAUGUCGGUUAUGUGAAAUAAAG
.((((((...((....(..(((((((......)))))))..)....((((........)))))))))(((((..(((.((....)).)))..)))))...........)))......... ( -30.30)
>DroYak_CAF1 64939 120 - 1
AACAGGAACAGGAACAGCUCCCUAGUGCAAUAGCCAGGGUUCAAAUUCGACUUCAGCCUCAACGUCCGAUUUUAGCCACCAUAUGGAGGCAAAAAUCAAUGUCCGUUUUGUGAAAAAAAG
.((((((...(((.(((..((((.(.((....)))))))..).........................((((((.(((.((....)).))).))))))..))))).))))))......... ( -28.50)
>consensus
AACAGGAAUAGGAACAGCUCCCUGGUGCAAUAGCCAGGGUUCAAAUUCGACUUCAACCUCAACCUCCGAUUUUAGCCACCAUAUGGAGGCGAAAAUCAAUGUCCGUUAUGUGAAA_AAAG
..........(((.(((..(((((((......)))))))..).........................((((((.(((.((....)).))).))))))..)))))................ (-26.26 = -27.06 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:29 2006