Locus 9164

Sequence ID	3R_DroMel_CAF1
Location	24,426,427 – 24,426,534
Length	107
Max. P	0.907673

overview

Window 9

Location	24,426,427 – 24,426,534
Length	107
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	79.78
Mean single sequence MFE	-31.83
Consensus MFE	-18.83
Energy contribution	-19.08
Covariance contribution	0.25
Combinations/Pair	1.16
Mean z-score	-1.88
Structure conservation index	0.59
SVM decision value	0.41
SVM RNA-class probability	0.724445
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24426427 107 + 27905053
-------GACUUUCCUCAGGACUCCAUCACCGAGCCGGAGCAUAUGCGCAAGCUGUUCAUCGGUGGCUUGGACUACCGUACCACCGACGAGAACCUAAAGGCUCACUUCGAGAA
-------.......(((.((.........))(((((.(((((...((....))))))).(((((((..(((....)))..)))))))............))))).....))).. ( -37.70)
>DroVir_CAF1 1 95 + 1
-------------------GACUCCAUUACAGAGCCAGAGCAUAUGCGUAAAUUGUUCAUUGGCGGUUUGGAUUACCGCACCACCGAUGACAAUUUAAAAGCGCACUUUGAAAA
-------------------..(((.......))).(((((....((((((((((((.((((((.(((.(((....))).))).)))))))))))))....)))))))))).... ( -30.00)
>DroSec_CAF1 1 95 + 1
-------------------GACUCCAUCACCGAGCCAGAGCAUAUGCGCAAGCUGUUCAUCGGUGGCUUGGACUACCGCACCACCGACGAGAACCUGAAGGCUCACUUCGAGAA
-------------------..(((.......(((((.(((((...((....))))))).(((((((..(((....)))..)))))))............))))).....))).. ( -34.30)
>DroEre_CAF1 1 95 + 1
-------------------GACUCCAUCACCGAGCCGGAGCAUAUGCGCAAACUGUUCAUCGGUGGCUUGGACUACCGCACCACCGACGAGAACCUGAAGGCGCACUUCGAGAA
-------------------..(((.......))).(((((....(((((.....((((.(((((((..(((....)))..)))))))...))))......)))))))))).... ( -30.70)
>DroWil_CAF1 1 95 + 1
-------------------GACUCAAUUACUGAGCCAGAGCAUAUGCGUAAACUGUUUAUUGGCGGUCUGGACUACCGCACUUCAGAUGAGAAUCUAAAGGCUCAUUUCGAGAA
-------------------..(((......((((((.((((....))...............(((((.......)))))...))((((....))))...))))))....))).. ( -23.20)
>DroYak_CAF1 1597 114 + 1
AAUUUAGGAAUUCCCUCAGGACUCCAUCACCGAGCCGGAGCAUAUGCGCAAACUGUUUAUCGGUGGCCUGGAUUACCGCACCACCGACGAGAACCUGAAGGCGCACUUCGAGAA
......((....))(((.((.(((.......)))))((((....(((((.....((((.(((((((..(((....)))..)))))))...))))......)))))))))))).. ( -35.10)
>consensus
___________________GACUCCAUCACCGAGCCAGAGCAUAUGCGCAAACUGUUCAUCGGUGGCUUGGACUACCGCACCACCGACGAGAACCUAAAGGCGCACUUCGAGAA
...............................(.(((...((....))........(((.(((((((..(((....)))..))))))).)))........))).).......... (-18.83 = -19.08 +   0.25)

alignment

secondary structure

dotplot

Window 0

Location	24,426,427 – 24,426,534
Length	107
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	79.78
Mean single sequence MFE	-36.02
Consensus MFE	-25.30
Energy contribution	-24.50
Covariance contribution	-0.80
Combinations/Pair	1.40
Mean z-score	-2.04
Structure conservation index	0.70
SVM decision value	1.05
SVM RNA-class probability	0.907673
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24426427 107 - 27905053
UUCUCGAAGUGAGCCUUUAGGUUCUCGUCGGUGGUACGGUAGUCCAAGCCACCGAUGAACAGCUUGCGCAUAUGCUCCGGCUCGGUGAUGGAGUCCUGAGGAAAGUC-------
(((((((((((((((....)))))(((((((((((..((....))..)))))))))))...))))........((((((.(.....).))))))..)))))).....------- ( -40.30)
>DroVir_CAF1 1 95 - 1
UUUUCAAAGUGCGCUUUUAAAUUGUCAUCGGUGGUGCGGUAAUCCAAACCGCCAAUGAACAAUUUACGCAUAUGCUCUGGCUCUGUAAUGGAGUC-------------------
........(((((....(((((((((((.((((((..((....))..)))))).))).))))))))))))).......((((((.....))))))------------------- ( -32.10)
>DroSec_CAF1 1 95 - 1
UUCUCGAAGUGAGCCUUCAGGUUCUCGUCGGUGGUGCGGUAGUCCAAGCCACCGAUGAACAGCUUGCGCAUAUGCUCUGGCUCGGUGAUGGAGUC-------------------
((((...(.((((((..((((((.(((((((((((..((....))..)))))))))))..)))))).((....))...)))))).)...))))..------------------- ( -39.60)
>DroEre_CAF1 1 95 - 1
UUCUCGAAGUGCGCCUUCAGGUUCUCGUCGGUGGUGCGGUAGUCCAAGCCACCGAUGAACAGUUUGCGCAUAUGCUCCGGCUCGGUGAUGGAGUC-------------------
........((((((......((((..(((((((((..((....))..))))))))))))).....))))))..((((((.(.....).)))))).------------------- ( -37.70)
>DroWil_CAF1 1 95 - 1
UUCUCGAAAUGAGCCUUUAGAUUCUCAUCUGAAGUGCGGUAGUCCAGACCGCCAAUAAACAGUUUACGCAUAUGCUCUGGCUCAGUAAUUGAGUC-------------------
..(((((..(((((((((((((....)))))))(.(((((.......))))))..............((....))...))))))....)))))..------------------- ( -26.30)
>DroYak_CAF1 1597 114 - 1
UUCUCGAAGUGCGCCUUCAGGUUCUCGUCGGUGGUGCGGUAAUCCAGGCCACCGAUAAACAGUUUGCGCAUAUGCUCCGGCUCGGUGAUGGAGUCCUGAGGGAAUUCCUAAAUU
.....(((.....((((((((..((((((((((((..((....))..)))))))))...((((..(.((....)).)..))).)......))).))))))))..)))....... ( -40.10)
>consensus
UUCUCGAAGUGAGCCUUCAGGUUCUCGUCGGUGGUGCGGUAGUCCAAGCCACCGAUGAACAGUUUGCGCAUAUGCUCCGGCUCGGUGAUGGAGUC___________________
..(((..(.((.(((..((((((.(((((((((((..((....))..)))))))))))..)))))).((....))...))).)).)....)))..................... (-25.30 = -24.50 +  -0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:59 2006