Locus 1576

Sequence ID	X_DroMel_CAF1
Location	4,523,295 – 4,523,510
Length	215
Max. P	0.872592

overview

Window 6

Location	4,523,295 – 4,523,405
Length	110
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	78.62
Mean single sequence MFE	-15.28
Consensus MFE	-1.30
Energy contribution	-2.18
Covariance contribution	0.88
Combinations/Pair	1.21
Mean z-score	-1.70
Structure conservation index	0.09
SVM decision value	0.29
SVM RNA-class probability	0.668565
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4523295 110 - 22224390
GCAUCACCACAACAGCCCCAGAAAAUAUCACUUAUUCGAUUUGGCUAUGA--AAGUAUCUUACAAUUCCAACUUUUCAAAGUAACUAGCUUUCAAAGAUCACUUAAAUCUAC
(.(((........((((......((((.....))))......)))).(((--((((...((((.................))))...)))))))..))))............ ( -12.73)
>DroSec_CAF1 18505 97 - 1
GCAUCACCGCAACAACCCUAGAAAAUAUCACUU-UUUGAUUUGGCUACAAGCAUGUAUCU--------------UUCAAUGUAACUAGCUUUUAAAGAUCACUCAAAUCUAC
((......))........((((.........((-(((((...(((((...((((......--------------....))))...))))).))))))).........)))). ( -11.97)
>DroSim_CAF1 10939 110 - 1
GCAUCACCGCAACAACCCCAUAAAAUAUCA-UU-UUUAAUUUGGCUACGAGCAUGUAUCUUACAAUUCCAACUUUUCAAAGUAACUAGCUUUCAAAGAUCAAUCAAACCUAC
((......))..........(((((.....-.)-)))).(((((....((((.((((...))))......((((....)))).....)))))))))................ (  -7.40)
>DroEre_CAF1 10021 110 - 1
GCAUCACCUCAACAACCCCAGAAAAUAUCACUUUUUGGAUGUGUUUACGA--AAGUAUCUUACAAUUGCAAUUCUUCAAAGCAACUAACUUCCGAAGAUCAAUUAAAUCUAC
(((..............(((((((.......))))))).((((..(((..--..)))...))))..)))...(((((.(((.......)))..))))).............. ( -18.50)
>DroYak_CAF1 18783 110 - 1
GCAUCAGCGCAGCAACCCCAGAAAAUAUAAUUUUCUGGUUUUGCUUACGA--AAGUAUUUUACAAUUCCCACUCCUCAAAGCAACUAGCUUUCGCAGAUCAAUCAAAUCCAC
(.(((.(((.(((((..(((((((((...)))))))))..)))))(((..--..)))....................(((((.....)))))))).))))............ ( -25.80)
>consensus
GCAUCACCGCAACAACCCCAGAAAAUAUCACUU_UUGGAUUUGGCUACGA__AAGUAUCUUACAAUUCCAACUCUUCAAAGUAACUAGCUUUCAAAGAUCAAUCAAAUCUAC
.....................................((((((..(((......)))....................(((((.....)))))...........))))))... ( -1.30 =  -2.18 +   0.88)

alignment

secondary structure

dotplot

Window 7

Location	4,523,405 – 4,523,510
Length	105
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.07
Mean single sequence MFE	-26.46
Consensus MFE	-11.15
Energy contribution	-13.77
Covariance contribution	2.61
Combinations/Pair	1.17
Mean z-score	-2.82
Structure conservation index	0.42
SVM decision value	0.88
SVM RNA-class probability	0.872592
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4523405 105 + 22224390
CACCCCCU-UUUCCAG-G-------CAACUGAACCCGUUCGCCCCCUCU----CUGUCGCACCCACACAGUGCAUUCGAUGGAAGGUGACACGUCACUUUCCACGACUCCUA--CCCUCU
........-....(((-.-------...)))..................----..(((((((.......))))....(.((((((((((....)))))))))))))).....--...... ( -27.30)
>DroSec_CAF1 18602 97 + 1
CACCCCCU-UUUCCAGGG-------CAACUGAACCCGUUCGCCCCCUCU----CUGUCGCACCCACACAGUGCAU---------GGUGACACGUCACUUUCCACGACUCCUA--CCCUCU
........-......(((-------((((.......))).)))).....----..(((((((.......))))..---------(((((....)))))......))).....--...... ( -20.40)
>DroSim_CAF1 11049 106 + 1
CACCCCCU-UUUCCAGGG-------CAACUGAACCCGUUCGCCCCCUCU----CUGUCGCACCCACACAGUGCAUUUGAUGGAAGGUGACACGUCACUUUCCACGACUCCUA--CCCUCU
........-......(((-------((((.......))).)))).....----..(((((((.......))))......((((((((((....)))))))))).))).....--...... ( -30.20)
>DroEre_CAF1 10131 107 + 1
CACCCCCUUUUUCCAGGG-------CAACUGAACCCGUUCGCCCGCUCU----CUGUCGCACCCACACAAUGCAUUUGAUGGAAGGUGACACGUCACUUUCCACGGCCCCUA--CCCUCU
...............(((-------((((.......))).)))).....----..((((........(((.....))).((((((((((....)))))))))))))).....--...... ( -26.70)
>DroYak_CAF1 18893 113 + 1
CACCCCGU-UUUCCAGGGGGUGAAUUAACUGAACCCGUUCGCCCCCUCU----CUGUCGCACCCACACAAUGCAUCUGCUGGAAGGUGACACGUCACUUUCCACGACCCCUA--CCCUCU
........-.....(((((((((((...........)))))))))))..----..((((............((....))((((((((((....)))))))))))))).....--...... ( -36.30)
>DroAna_CAF1 23711 112 + 1
CACCCCUU-UGUUUAGAG------CCACCCCAACUCCUACUCUCCUACUUCUACUCUCUCGCUCGCACACUGCAU-UGAUAAAUGGUGACACGUAGGUCCCCCUGACCCGCAUAUCCCCA
((((..((-((((..(((------(...................................))))((.....))..-.)))))).))))....(..((((.....))))..)......... ( -17.85)
>consensus
CACCCCCU_UUUCCAGGG_______CAACUGAACCCGUUCGCCCCCUCU____CUGUCGCACCCACACAGUGCAUUUGAUGGAAGGUGACACGUCACUUUCCACGACCCCUA__CCCUCU
..............((((............(((....)))...............((((((.........)))......((((((((((....)))))))))).))).......)))).. (-11.15 = -13.77 +   2.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:52 2006