Locus 7614

Sequence ID	X_DroMel_CAF1
Location	18,988,612 – 18,988,742
Length	130
Max. P	0.975800

overview

Window 7

Location	18,988,612 – 18,988,702
Length	90
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	77.60
Mean single sequence MFE	-40.46
Consensus MFE	-24.13
Energy contribution	-27.37
Covariance contribution	3.24
Combinations/Pair	1.04
Mean z-score	-2.51
Structure conservation index	0.60
SVM decision value	1.76
SVM RNA-class probability	0.975800
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18988612 90 + 22224390
----GAAAUCGUCGAAAGGGGCGGUGGCGGUG------GGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGU
----...((((((....)((((((.((((.((------(..(((........))).))))))).)))))))))))((((((.((....)).)))).)).. ( -44.10)
>DroSec_CAF1 11090 78 + 1
----GAAAUCGGCGAAAGUGGCGGUGGC------------------GGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGU
----...((((((....))(((((.(((------------------((((....))))..))).)))))..))))((((((.((....)).)))).)).. ( -35.70)
>DroSim_CAF1 13555 90 + 1
----GAAAUCGGAGAAUGGGGCGGUGGCGGUG------GGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGU
----...((((.......((((((.((((.((------(..(((........))).))))))).)))))).))))((((((.((....)).)))).)).. ( -40.80)
>DroEre_CAF1 11055 96 + 1
----GAAAUGGGCAAAAGGGGCGGUGGCGUUGGGGGUGGGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGU
----................((....((((((.(((((((((..(.((((....)))).).))))))))).))))))((((.((....)).)))).)).. ( -45.00)
>DroYak_CAF1 11627 96 + 1
----GAAGUCGGCGAAAGGGGCGGUGGCGGUGGGGGAGGGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGACAGAAAUGGCAGUAGCGU
----...((((.(....)((((((.((((.(((..(((..............))).))))))).)))))).))))((((((.((....)).)))).)).. ( -40.44)
>DroMoj_CAF1 24141 91 + 1
GCUU---GACGCAGACUGCGGCUGAGGCUGUU------GUUGCUGCAGCGCUGCGACAACGCUGCCGCUCACAAUGCACUGGCAGAAGUGGCAAUAGCGA
..((---(.(((((.(((((((...(((....------))))))))))..))))).)))((((((((((.....(((....)))..))))))...)))). ( -36.70)
>consensus
____GAAAUCGGCGAAAGGGGCGGUGGCGGUG______GGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGU
..................((((((.((((.........(......)((((....)))).)))).))))))...((((((((.((....)).)))).)))) (-24.13 = -27.37 +   3.24)

alignment

secondary structure

dotplot

Window 8

Location	18,988,612 – 18,988,702
Length	90
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	77.60
Mean single sequence MFE	-31.66
Consensus MFE	-20.49
Energy contribution	-20.99
Covariance contribution	0.50
Combinations/Pair	1.13
Mean z-score	-1.53
Structure conservation index	0.65
SVM decision value	0.58
SVM RNA-class probability	0.788070
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18988612 90 - 22224390
ACGCUACUGCCAUUUCUGCCAGUGCAUCGUGAGCGGGGGCGUGGUGAGUACACCGCCUCCCC------CACCGCCACCGCCCCUUUCGACGAUUUC----
..((.((((.((....)).))))))((((((((.((((((((((((.((.............------.))))))).)))))))))).)))))...---- ( -33.14)
>DroSec_CAF1 11090 78 - 1
ACGCUACUGCCAUUUCUGCCAGUGCAUCGUGAGCGGGGGCGUGGUGAGUACACC------------------GCCACCGCCACUUUCGCCGAUUUC----
..((.((((.((....)).))))))...(((.((((.(((..((((....))))------------------))).))))))).............---- ( -27.50)
>DroSim_CAF1 13555 90 - 1
ACGCUACUGCCAUUUCUGCCAGUGCAUCGUGAGCGGGGGCGUGGUGAGUACACCGCCUCCCC------CACCGCCACCGCCCCAUUCUCCGAUUUC----
..((.((((.((....)).))))))((((.(((..(((((((((((.((.............------.))))))).))))))...)))))))...---- ( -33.64)
>DroEre_CAF1 11055 96 - 1
ACGCUACUGCCAUUUCUGCCAGUGCAUCGUGAGCGGGGGCGUGGUGAGUACACCGCCUCCCCCACCCCCAACGCCACCGCCCCUUUUGCCCAUUUC----
..((.((((.((....)).))))))...(((.(((((((.((((((....))))))..))))).........((....)).......)).)))...---- ( -29.90)
>DroYak_CAF1 11627 96 - 1
ACGCUACUGCCAUUUCUGUCAGUGCAUCGUGAGCGGGGGCGUGGUGAGUACACCGCCUCCCCCUCCCCCACCGCCACCGCCCCUUUCGCCGACUUC----
..((.((((.((....)).)))))).(((((((.((((((((((((.((....................))))))).))))))))))).)))....---- ( -31.65)
>DroMoj_CAF1 24141 91 - 1
UCGCUAUUGCCACUUCUGCCAGUGCAUUGUGAGCGGCAGCGUUGUCGCAGCGCUGCAGCAAC------AACAGCCUCAGCCGCAGUCUGCGUC---AAGC
.((((.(((((((...(((....)))..))).)))).))))(((.(((((.(((((.((...------..........)).)))))))))).)---)).. ( -34.12)
>consensus
ACGCUACUGCCAUUUCUGCCAGUGCAUCGUGAGCGGGGGCGUGGUGAGUACACCGCCUCCCC______CACCGCCACCGCCCCUUUCGCCGAUUUC____
.(((((((((.(((......))))))..)).))))(((((((((((.........................)))))).)))))................. (-20.49 = -20.99 +   0.50)

alignment

secondary structure

dotplot

Window 9

Location	18,988,638 – 18,988,742
Length	104
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	84.20
Mean single sequence MFE	-45.78
Consensus MFE	-29.63
Energy contribution	-33.38
Covariance contribution	3.75
Combinations/Pair	1.11
Mean z-score	-2.60
Structure conservation index	0.65
SVM decision value	0.06
SVM RNA-class probability	0.564374
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18988638 104 + 22224390
UG------GGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGUCCUUGGGCGGCAAACACGCCGUAGCCGCAACCCCGACAAA
..------((((..(((((.(((.............(((((.(((((((((.((....)).)))).)))))..)))))(((......)))))))))))..))))...... ( -48.30)
>DroSec_CAF1 11114 94 + 1
----------------GGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGUCCUUGGGCGGCAAACACGCCGUAGCCGCAACCCCGACAAA
----------------((((....))))..((....(((((.(((((((((.((....)).)))).)))))..)))))(((......)))......))............ ( -35.00)
>DroSim_CAF1 13581 104 + 1
UG------GGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGUCCUUGGGCGGCAAACACGCCGUAGCCGCAACCCCGACAAA
..------((((..(((((.(((.............(((((.(((((((((.((....)).)))).)))))..)))))(((......)))))))))))..))))...... ( -48.30)
>DroEre_CAF1 11081 110 + 1
UGGGGGUGGGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGUCCUUGGGCAGCAAACACGCCGUAGCCGCAUCCCCGACAAA
.(((((((.((..(((((((....))))..((....(((((.(((((((((.((....)).)))).)))))..))))).))......)))....)).)))))))...... ( -52.50)
>DroYak_CAF1 11653 110 + 1
UGGGGGAGGGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGACAGAAAUGGCAGUAGCGUCCUUGGGCGGCAAACACGCCAUAGCCGCAUCCGCGACAAA
..(.((((((((..(.((((....)))).).)))))(((((.(((((((((.((....)).)))).)))))..)))))(((......))).........))).)...... ( -48.30)
>DroMoj_CAF1 24168 104 + 1
UU------GUUGCUGCAGCGCUGCGACAACGCUGCCGCUCACAAUGCACUGGCAGAAGUGGCAAUAGCGACCUUGUGCUGCAAAGACGCCAUAGCCGCAGCCGUGGCACA
..------(((..((((((((.(((....)))(((((((.....(((....)))..)))))))...........))))))))..)))((((..((....))..))))... ( -42.30)
>consensus
UG______GGGGAGGCGGUGUACUCACCACGCCCCCGCUCACGAUGCACUGGCAGAAAUGGCAGUAGCGUCCUUGGGCGGCAAACACGCCGUAGCCGCAACCCCGACAAA
........((((..(((((.................(((((.(((((((((.((....)).)))).)))))..)))))(((......)))...)))))..))))...... (-29.63 = -33.38 +   3.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:26 2006