Locus 4821

Sequence ID	X_DroMel_CAF1
Location	12,523,671 – 12,523,802
Length	131
Max. P	0.997765

overview

Window 8

Location	12,523,671 – 12,523,775
Length	104
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	75.89
Mean single sequence MFE	-36.68
Consensus MFE	-14.19
Energy contribution	-14.35
Covariance contribution	0.16
Combinations/Pair	1.19
Mean z-score	-2.79
Structure conservation index	0.39
SVM decision value	2.93
SVM RNA-class probability	0.997765
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12523671 104 - 22224390
CACCACGAUCAA---CGGUAUCGCGAUCUGACCCUGCAUCACCAUCAUCAU-ACACUGGUGC---AGCAGCAGAU------UGCGCAACAACAGCAUUAUCGUAGCCUCAAUGUG---GC
..(((((..(.(---(((((..((((((((...((((((((..........-....))))))---))...)))))------)))((.......))..)))))).)......))))---). ( -32.24)
>DroSec_CAF1 53280 98 - 1
CACCACGAUCAG---CGGUAUCGCGAUCUGACCCUGCACCACC------AU-ACCCUGGUGC---AGCAGCAGAU------UGCGCAGCAACAGCAUUACCGUAGCCUCAAUGUG---GC
..(((((..(.(---(((((.(((((((((...((((((((..------..-....))))))---))...)))))------))))..((....))..)))))).)......))))---). ( -40.10)
>DroEre_CAF1 53368 101 - 1
CACCACGACCAG---CGGUACCGCGACCUGACCCUGCACCACC---AUCAC-AGCCUGGUGC---AGCAGCAGAU------UGCGCAGCAACAGCACUACCGCAGCCUCAACGUG---GC
..(((((....(---(((((.(((((.(((...((((((((..---.....-....))))))---))...))).)------))))..((....))..))))))........))))---). ( -37.80)
>DroYak_CAF1 53641 104 - 1
CACCACGAUCAG---CGGUAUCGCGAUCUAACGCUGCACCAUCAUCAUCAU-ACCCUCGUGC---AGCAGCAGAU------UGCGCAGCAGCAGCAUUACCGCAGCCUCAAUGUG---GC
...........(---(((((.((((((((...(((((((............-......))))---)))...))))------))))..((....))..)))))).(((.......)---)) ( -35.37)
>DroAna_CAF1 63742 116 - 1
CACCACGAGCUGUCCCGGUACCGUGAUAUAGCCAUGCACCAGCAA-AUGGCCGCCAUGGUCCAUCAGCAGCAGCUGGUCCAGGCCCAGCACCAGCAGUACCGGCACC---AUCUGAGCGC
........(((((.(((((((.((......(((((((....))).-.)))).(((.(((...((((((....)))))))))))).........)).))))))).)).---.....))).. ( -37.90)
>consensus
CACCACGAUCAG___CGGUAUCGCGAUCUGACCCUGCACCACCA__AUCAU_ACCCUGGUGC___AGCAGCAGAU______UGCGCAGCAACAGCAUUACCGCAGCCUCAAUGUG___GC
...((((........(((((..((...........((((((...............))))))....((.((...........)))).......))..))))).........))))..... (-14.19 = -14.35 +   0.16)

alignment

secondary structure

dotplot

Window 9

Location	12,523,707 – 12,523,802
Length	95
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	77.51
Mean single sequence MFE	-34.57
Consensus MFE	-14.47
Energy contribution	-14.47
Covariance contribution	-0.00
Combinations/Pair	1.21
Mean z-score	-2.06
Structure conservation index	0.42
SVM decision value	0.59
SVM RNA-class probability	0.793488
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12523707 95 - 22224390
GUGGCGCAGCCACCGCC---GCCGACCGCACACCACGAUCAA---CGGUAUCGCGAUCUGACCCUGCAUCACCAUCAUCAU-ACACUGGUGC---AGCAGCAGAU-----
(((((...)))))...(---((..((((..............---))))...)))(((((...((((((((..........-....))))))---))...)))))----- ( -28.28)
>DroSec_CAF1 53316 89 - 1
GUGGCCCAGCCACCGCC---GCCGACCGCACACCACGAUCAG---CGGUAUCGCGAUCUGACCCUGCACCACC------AU-ACCCUGGUGC---AGCAGCAGAU-----
(((((...)))))...(---((..(((((............)---))))...)))(((((...((((((((..------..-....))))))---))...)))))----- ( -36.10)
>DroEre_CAF1 53404 92 - 1
GUGGCGCAGCCGCCGCC---GCCGACCGCUCACCACGACCAG---CGGUACCGCGACCUGACCCUGCACCACC---AUCAC-AGCCUGGUGC---AGCAGCAGAU-----
((((((....))))))(---((.(((((((..........))---)))).).)))..(((...((((((((..---.....-....))))))---))...)))..----- ( -36.90)
>DroYak_CAF1 53677 95 - 1
GUUGCGCAGCCACCGCC---GCCGACCGCACACCACGAUCAG---CGGUAUCGCGAUCUAACGCUGCACCAUCAUCAUCAU-ACCCUCGUGC---AGCAGCAGAU-----
((((.((.((....)).---)))))).((.......((((.(---((....)))))))....(((((((............-......))))---))).))....----- ( -28.07)
>DroAna_CAF1 63779 109 - 1
GUGGGACAGCCACCGCCACCACCGGCCGCACACCACGAGCUGUCCCGGUACCGUGAUAUAGCCAUGCACCAGCAA-AUGGCCGCCAUGGUCCAUCAGCAGCAGCUGGUCC
..((((((((....(((......)))((.......)).))))))))((.((((((.....(((((((....))).-.))))...))))))))((((((....)))))).. ( -43.50)
>consensus
GUGGCGCAGCCACCGCC___GCCGACCGCACACCACGAUCAG___CGGUAUCGCGAUCUGACCCUGCACCACCA__AUCAU_ACCCUGGUGC___AGCAGCAGAU_____
(((((...))))).((....((..((((.................))))...))...........((((((...............))))))....))............ (-14.47 = -14.47 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:51 2006