Locus 7465

Sequence ID	X_DroMel_CAF1
Location	18,640,342 – 18,640,530
Length	188
Max. P	0.650696

overview

Window 1

Location	18,640,342 – 18,640,434
Length	92
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	84.85
Mean single sequence MFE	-29.60
Consensus MFE	-19.96
Energy contribution	-20.20
Covariance contribution	0.24
Combinations/Pair	1.12
Mean z-score	-1.90
Structure conservation index	0.67
SVM decision value	0.24
SVM RNA-class probability	0.650696
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18640342 92 + 22224390
----UUGUGUUUGCCCAAACAUUUUAUGGACGAGUAAAUAGAAAGCUCGCCGAACGUGGGUGGCAUUGUCAUACAUAACCAACCACGGUGAUUUUU-------------
----..((((((....))))))....(((.(((((.........))))))))..(((((.(((...((.....))...))).))))).........------------- ( -23.80)
>DroSec_CAF1 15683 94 + 1
--CGUUGUGUUUGCCCAAACAUUUCAUGGACGAGUAAAUAGAAAGCUCGCCGAACGUGGGUGGCAUUGUCAUACAUAACCAACUACGGUGAUUUUC-------------
--.(..((((((....))))))..).(((.(((((.........))))))))..(((((.(((...((.....))...))).))))).........------------- ( -23.40)
>DroSim_CAF1 16560 94 + 1
--CGUUGUGUUUGCCCAAACAUUUCAUGGACGAGUAAAUAGAAAGCUCGCCGAACGUGGGUGGCAUUGUCAUACAUAACCAACCACGGUGAUUUUC-------------
--.(..((((((....))))))..).(((.(((((.........))))))))..(((((.(((...((.....))...))).))))).........------------- ( -25.70)
>DroEre_CAF1 16175 107 + 1
--CGUUGUGUUUGCCCAAACAUUUCAUGGAAGAGUAAAUAGAAAGCUCGCGGAACGUGGGUGGCAUUGUCACACAUAGCCGCCCACGUAGAUUUUCCGUAUUUCCCGGA
--.(..((((((....))))))..)..((((((((.........))))((((((((((((((((..((.....))..)))))))))))......)))))..)))).... ( -39.40)
>DroYak_CAF1 17341 106 + 1
CGCGUUGUGUUUGCCCAAACAUUUCAUGGAAGAGUAAAUAGAAAGCUCUGCGAACGUGGGUGGCAUUGUCAUACAUAACCACCCACGUAGACUUUC-GACUUUCGCA--
.(((..((((((....))))))..)...((.((((.....(((((.(((....((((((((((...((.....))...))))))))))))))))))-.)))))))).-- ( -35.70)
>consensus
__CGUUGUGUUUGCCCAAACAUUUCAUGGACGAGUAAAUAGAAAGCUCGCCGAACGUGGGUGGCAUUGUCAUACAUAACCAACCACGGUGAUUUUC_____________
...(..((((((....))))))..).(((.(((((.........))))))))..(((((.(((...((.....))...))).)))))...................... (-19.96 = -20.20 +   0.24)

alignment

secondary structure

dotplot

Window 2

Location	18,640,434 – 18,640,530
Length	96
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.01
Mean single sequence MFE	-40.23
Consensus MFE	-21.26
Energy contribution	-21.65
Covariance contribution	0.39
Combinations/Pair	1.25
Mean z-score	-1.76
Structure conservation index	0.53
SVM decision value	0.16
SVM RNA-class probability	0.611512
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18640434 96 - 22224390
CUCGUU--CGCUCUCCUCCCGGCUGUUCGUGCCCGCAUCCUGG--CGUAAGCAGCAGCUGACAAAGCUCCGGAAAA----GGGGGAAAAGCUCC------GGGAAAUGCG----------
((((..--.(((.(((.(((.((((((..((((........))--))..))))))((((.....))))........----))))))..)))..)------))).......---------- ( -34.70)
>DroSec_CAF1 15777 96 - 1
CUCGCU--CGCUCUCCUCCCGGCUGUUCGUGCCCGCAUCCUGG--CGUGAGCAGCAGCUGACAAAGCUCCGGAAAA----GGGGGAAAAGCUCC------GGGAAAUGCG----------
((((..--.(((.(((.(((.((((((((((((........))--))))))))))((((.....))))........----))))))..)))..)------))).......---------- ( -37.10)
>DroSim_CAF1 16654 96 - 1
CUCGUU--CGCUCUUCUCCCGGCUGUUCGUGUCCGCAUCCUGG--CGUGAGCAGCAGCUGACAAAGCUCCGGAAAA----GGGGGAAAAGCUCC------GGGAAAUGCG----------
((((..--.(((.(((((((.((((((((((((........))--))))))))))((((.....))))........----))))))).)))..)------))).......---------- ( -38.20)
>DroEre_CAF1 16282 104 - 1
CUCGCU--CGCUCUCCUCCCGGCUGUUCGUGCCCACAUCCUGG--CGCGAGCAGCAGCUGACAAAGCUCCGGAAAA--A-GGGGCAAAAGCUCC------GGGAAAUACG---GAAAAGC
......--.(((.((((((((((((((((((((........))--))))))))))((((......(((((......--.-)))))...)))).)------)))).....)---))..))) ( -45.20)
>DroYak_CAF1 17447 106 - 1
CACGUUCGCGCUCUCCUCCCGGCUGUUCGUGCCCGCAUCCUGG--CGCGAGCAGCAGCUGACAAAGCUUCGGAAAAACA-GGGGGGAAAGCUCC------GGGAAAUGCG---GAAAG--
.........(((.(((((((.((((((((((((........))--))))))))))((((.....))))...........-))))))).)))(((------(.......))---))...-- ( -48.80)
>DroAna_CAF1 29218 113 - 1
CUCCUC--UGCUCUACGC---UCUGUUCGUUUCUC--GCCAGGAACAAAAGGAGCAGCUGACAAAGCGUCGGAAAAGCUUCGCGCGAAAGCCCGCCCACGCUGAAAUCCUGGCGAAAAGC
......--.((.....))---.......((((.((--(((((((......(((((..(((((.....)))))....)))))((((....))..))...........))))))))).)))) ( -37.40)
>consensus
CUCGUU__CGCUCUCCUCCCGGCUGUUCGUGCCCGCAUCCUGG__CGUGAGCAGCAGCUGACAAAGCUCCGGAAAA____GGGGGAAAAGCUCC______GGGAAAUGCG__________
.........(((.((((((..((((((((((((........))..)))))))))).(((.....))).............))))))..)))............................. (-21.26 = -21.65 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:34 2006