Locus 6030

Sequence ID	2L_DroMel_CAF1
Location	16,993,189 – 16,993,303
Length	114
Max. P	0.951005

overview

Window 4

Location	16,993,189 – 16,993,284
Length	95
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	79.93
Mean single sequence MFE	-15.62
Consensus MFE	-12.90
Energy contribution	-13.23
Covariance contribution	0.34
Combinations/Pair	1.33
Mean z-score	-1.84
Structure conservation index	0.83
SVM decision value	1.04
SVM RNA-class probability	0.904993
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16993189 95 + 22407834
CUCAACUGCCCUUAAUUCCUUA--CUUAAUUCCACACAAUUUCUGGACCAAGUCGUGCGCUUAACAACUUGUCCAGGAGCCCACAAGAUCCCCGAAC
......................--...............(((((((((.((((.((.......)).))))))))))))).................. ( -15.90)
>DroSec_CAF1 100448 95 + 1
CUCAACUGCCCUUAAUUCCUUA--CUUAAUUCCACACAAUUUCUGGACCAAGUCGUGCGCUUAACAACUUGUCCAGGAGCCCACAAGAUCCCCGAAC
......................--...............(((((((((.((((.((.......)).))))))))))))).................. ( -15.90)
>DroSim_CAF1 102403 95 + 1
CUCAACUGCCCUUAAUUCCUUA--CUUAAUUCCACACAAUUUCUGGACCAAGUCGUGCGCUUAACAACUUGUCCGGGAGCCCACAAAAUCCCCGAAC
......................--...............(((((((((.((((.((.......)).))))))))))))).................. ( -15.20)
>DroEre_CAF1 103194 94 + 1
CACAACUGCCCUUAAUACCUUA--CUUAAUUCCACACAAUUUCUGGACCAAGU-GUGUGCCUAACCACUUGUCCAGGAGCCCACAAGAUCCCCGAAC
......................--...............(((((((((.((((-(.((.....)))))))))))))))).................. ( -18.90)
>DroYak_CAF1 103201 85 + 1
CUCAACUGCGCUUAAUUCCUUG--CUUAAUUUCACACAAUUUCUGGACCAAGUAGUGCACCUAACAACUUGUCCAGAAGUCCACA----------AC
.........((..........)--).............((((((((((.((((.((.......)).)))))))))))))).....----------.. ( -17.80)
>DroAna_CAF1 92181 93 + 1
----ACAGCCUGUAAUUCUUCCCACACGAUUUCCUCAAACUCCUGGCUCAGUUUAAGCGCUUUACAACUUGUCCCAGAGCCCACAAGAUCCCUGAGC
----.............................((((.....(((((((.(..((((..........))))..)..)))))....)).....)))). ( -10.00)
>consensus
CUCAACUGCCCUUAAUUCCUUA__CUUAAUUCCACACAAUUUCUGGACCAAGUCGUGCGCUUAACAACUUGUCCAGGAGCCCACAAGAUCCCCGAAC
.......................................((((((((.(((((.((.......)).))))))))))))).................. (-12.90 = -13.23 +   0.34)

alignment

secondary structure

dotplot

Window 5

Location	16,993,207 – 16,993,303
Length	96
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	72.70
Mean single sequence MFE	-22.51
Consensus MFE	-10.73
Energy contribution	-11.35
Covariance contribution	0.62
Combinations/Pair	1.39
Mean z-score	-2.14
Structure conservation index	0.48
SVM decision value	1.41
SVM RNA-class probability	0.951005
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16993207 96 + 22407834
CUUACUUAAUUCCACACAAUUUCUGG-ACCAAGUCGUGCGCUUAACAACUUGUCCAGGAGCCCACAAGAUCCCCGAACUCCCAGCUCCUGGCCAG----U---------C
......................((((-..(((((.((.......)).))))).((((((((.....((.((...)).))....))))))))))))----.---------. ( -23.00)
>DroPse_CAF1 110984 98 + 1
CCUACUAUUUUCCAU-CAAUUUGUGGGGCCGGCUUAAGCGCUCAACAACUUGUCCGAGAU-----------CGGGUACUUGCUGCUGCCUGCCAGAUUCCCAGGACAAUC
...............-....((((.((((..((....)))))).)))).((((((..(((-----------(.((((...((....)).)))).))))....)))))).. ( -24.10)
>DroSec_CAF1 100466 96 + 1
CUUACUUAAUUCCACACAAUUUCUGG-ACCAAGUCGUGCGCUUAACAACUUGUCCAGGAGCCCACAAGAUCCCCGAACUACCAGCUCCUGGCCAG----U---------C
......................((((-..(((((.((.......)).))))).((((((((.....((.((...)).))....))))))))))))----.---------. ( -23.00)
>DroSim_CAF1 102421 96 + 1
CUUACUUAAUUCCACACAAUUUCUGG-ACCAAGUCGUGCGCUUAACAACUUGUCCGGGAGCCCACAAAAUCCCCGAACUCCCAGCUUCUGGCCAG----U---------A
......................((((-..(((((.((.......)).))))).((((((((......................))))))))))))----.---------. ( -18.95)
>DroEre_CAF1 103212 94 + 1
CUUACUUAAUUCCACACAAUUUCUGG-ACCAAGU-GUGUGCCUAACCACUUGUCCAGGAGCCCACAAGAUCCCCGAACUCCCAGCUCCUGGCUA-----U---------C
..........((((.........)))-).(((((-(.((.....)))))))).((((((((.....((.((...)).))....))))))))...-----.---------. ( -22.90)
>DroYak_CAF1 103219 90 + 1
CUUGCUUAAUUUCACACAAUUUCUGG-ACCAAGUAGUGCACCUAACAACUUGUCCAGAAGUCCACA----------ACUUCCAGCUCCUGGCUC-----CAAGGA----G
..................((((((((-((.((((.((.......)).)))))))))))))).....----------........((((((....-----).))))----) ( -23.10)
>consensus
CUUACUUAAUUCCACACAAUUUCUGG_ACCAAGUCGUGCGCUUAACAACUUGUCCAGGAGCCCACAAGAUCCCCGAACUCCCAGCUCCUGGCCAG____U_________C
.......................(((...(((((.((.......)).))))).((((((((......................)))))))))))................ (-10.73 = -11.35 +   0.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:15 2006