Locus 9054

Sequence ID	3R_DroMel_CAF1
Location	24,207,984 – 24,208,152
Length	168
Max. P	0.915432

overview

Window 9

Location	24,207,984 – 24,208,075
Length	91
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.11
Mean single sequence MFE	-26.23
Consensus MFE	-10.95
Energy contribution	-11.23
Covariance contribution	0.28
Combinations/Pair	1.09
Mean z-score	-2.50
Structure conservation index	0.42
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24207984 91 - 27905053
CACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-UGAGCUCAAAG--------CCG-------------------CGGGCCAAGC-AAAAGCUAAACAAUAUUUUAGCAAAA
..((.....(((((((((((((.(((..........))).)-)).)))..)))--------)))-------------------).))......-....((((((......)))))).... ( -22.70)
>DroPse_CAF1 31972 116 - 1
CACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-UG-GCUCAACGGACUGCCGCCGGG-GGUAGUGCCGCUGCCGCUGCUGCUGC-AAAAGCUGAACAAUAUUUUAACAAAA
.......(((((((..((((((.(((..........))).)-))-)))...(((((((((......-)))))).)))..)))))))..(((..-...))).................... ( -34.30)
>DroEre_CAF1 35446 91 - 1
CACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-UGAGCUCAAAG--------CCG-------------------CGGGCCAAGC-AAAAGCUAAACAAUAUUUUAGCAAAA
..((.....(((((((((((((.(((..........))).)-)).)))..)))--------)))-------------------).))......-....((((((......)))))).... ( -22.70)
>DroYak_CAF1 32452 91 - 1
CACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-UGAGCUCAAAG--------CCG-------------------CGGGCCAAGC-AAAAGCUAAACAAUAUUUUAGCAAAA
..((.....(((((((((((((.(((..........))).)-)).)))..)))--------)))-------------------).))......-....((((((......)))))).... ( -22.70)
>DroAna_CAF1 28968 93 - 1
CACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUACGCUUAGCUCAGCG--------CUG-------------------UGGGCCAAGCGAAAAGCUAAACAAUAUUUUAGGAAAA
..((.....(((((...))))).................(((((.(((((...--------...-------------------))))).)))))....................)).... ( -24.10)
>DroPer_CAF1 31926 111 - 1
CACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-UG-GCUCAACGGACUGCCGCCGGGGGGUAGUGCCG------CUGCUGCUGC-AAAAGCUGAACAAUAUUUUAACAAAA
........((((((..((((((.(((..........))).)-))-)))....((((((((.(....))))))).)))------)))))(((..-...))).................... ( -30.90)
>consensus
CACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG_UGAGCUCAAAG________CCG___________________CGGGCCAAGC_AAAAGCUAAACAAUAUUUUAGCAAAA
.........(((((...)))))............................................................................((((((......)))))).... (-10.95 = -11.23 +   0.28)

alignment

secondary structure

dotplot

Window 0

Location	24,208,035 – 24,208,152
Length	117
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	80.72
Mean single sequence MFE	-30.47
Consensus MFE	-19.24
Energy contribution	-18.88
Covariance contribution	-0.36
Combinations/Pair	1.39
Mean z-score	-2.62
Structure conservation index	0.63
SVM decision value	1.10
SVM RNA-class probability	0.915432
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24208035 117 - 27905053
GUGGUUUG-UAGCUGCAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
((((((..-.(((((((((((...............((((((((....))))....((((......)))).......))))))))).)))))).)))))).................. ( -36.06)
>DroPse_CAF1 32048 104 - 1
GUAGUCAU-GGACUGC--AUGGAAAUAAAUCUUAAAGCACGU---C-AAAGCUGACGACGACAA-------UGCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
......((-((..(((--((((.............(((....---.-...)))...........-------..)))))))))))...(((((...))))).................. ( -24.87)
>DroEre_CAF1 35497 117 - 1
GUGGUUUG-UAGCUGCAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
((((((..-.(((((((((((...............((((((((....))))....((((......)))).......))))))))).)))))).)))))).................. ( -36.06)
>DroYak_CAF1 32503 117 - 1
GUGGUUUG-UAGCUGCAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
((((((..-.(((((((((((...............((((((((....))))....((((......)))).......))))))))).)))))).)))))).................. ( -36.06)
>DroAna_CAF1 29021 114 - 1
GUGGUUUGGCGGCACCAAAUGAAAAUAAAUCUUAAAGUAUGCU--CACCCACAAUGGCCAUCAACUCGGCGC--UGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUAC
.(((((((.((((..............................--...........(((........)))((--(((..........)))))...)))))))))))............ ( -24.90)
>DroPer_CAF1 31997 104 - 1
GUAGUCAU-GGACUGC--AUGGAAAUAAAUCUUAAAGCACGU---C-AAAGCUGACGACGACAA-------UGCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
......((-((..(((--((((.............(((....---.-...)))...........-------..)))))))))))...(((((...))))).................. ( -24.87)
>consensus
GUGGUUUG_UAGCUGCAAAUGAAAAUAAAUCUUAAAGUACGCU__CAACAGCAAACGCCAUCAACUUGGCACUCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
((((((....))))))...(((..............((((((........))....(((........))).....))))........(((((...)))))...)))............ (-19.24 = -18.88 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:39 2006