Locus 6367

Sequence ID	2R_DroMel_CAF1
Location	19,949,089 – 19,949,204
Length	115
Max. P	0.821799

overview

Window 9

Location	19,949,089 – 19,949,204
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	73.57
Mean single sequence MFE	-37.83
Consensus MFE	-13.24
Energy contribution	-14.10
Covariance contribution	0.86
Combinations/Pair	1.18
Mean z-score	-2.07
Structure conservation index	0.35
SVM decision value	0.17
SVM RNA-class probability	0.617151
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19949089 115 + 20766785
UACGUGAGCGAAAUCCCAAAUUCCGGCUUGGAAGAGUUGCCGAAGGGCGGGGCUUCGCCGCGUUCCAGUGACACCGGUGAGGUGUUAAUGGUUUGUAAACUAAUUAAC-----UGGAGGA
.(((((.(((((..(((...((((.....)))).....(((....))))))..))))))))))((((((((((((.....))))))..(((((....)))))....))-----))))... ( -49.40)
>DroSec_CAF1 32098 115 + 1
UACGUGAGCGAAAUCCCAAGUUCCGGCUGGGAAGAUUCGCCGACGGGCGGGACUUCGCCGAGUUCCAGUGACACCGGUGAGGUGUUAAUGGUUUGUAAACUAAUUAAC-----UGGAGGA
..(((..(((((.(((((.((....)))))))...)))))..)))(((((....)))))...(((((((((((((.....))))))..(((((....)))))....))-----))))).. ( -42.40)
>DroSim_CAF1 34383 115 + 1
UACGUGAGCGAAAUCCCAAGUUCCGGCUGGGAAGAGUCGCCGAAGGGCGGGGAUUCGCCGAGUUCCAGUGACACCGGUGAGGUGUUAAUGGUUUGUAAACUAAUUAAC-----UGGAGGA
....((.(((((.((((...((((.....))))....((((....)))))))))))))))..(((((((((((((.....))))))..(((((....)))))....))-----))))).. ( -44.70)
>DroEre_CAF1 31188 97 + 1
UACGUGAGCGAAAUGCCAAGUUGCGGCUGGG----------------CG-GGAUUCGCCGAGUUCCAGUGACACCGGUGCGGUGUUAAUGGCUUGUAAACUAAUUAAC-----UGG-GGA
...((..((((...((((..(((..(((.((----------------((-.....)))).)))..)))((((((((...)))))))).))))))))..))........-----...-... ( -30.80)
>DroYak_CAF1 29887 87 + 1
---GUGAGCGAAAUCUCAAGUUCCGGCUGGA-------------------------ACCCAGUUCCAGUGACACCGGUGAGGUGUUAAUGGUUUGUAAACUAAUUAAC-----UGGAGGA
---.((((......))))...(((.(((((.-------------------------..)))))((((((((((((.....))))))..(((((....)))))....))-----))))))) ( -27.30)
>DroAna_CAF1 31408 110 + 1
UACGUGAGUGCCAUUUUAAGUUA--GCCUGCAGCUGUUGGC--CGGGAGAGCUUUUGG------CCAUACAUCCCCGUGUGGUGUUAAUGGUUUGUAAACUAAUUAGCCAGUCCGGAGGA
...(((.(.((((....(((((.--.((((..((.....))--))))..))))).)))------)).))).((((((..((((.....(((((....)))))....))))...))).))) ( -32.40)
>consensus
UACGUGAGCGAAAUCCCAAGUUCCGGCUGGGAAGAGU_GCC___GGGCGGGGAUUCGCCGAGUUCCAGUGACACCGGUGAGGUGUUAAUGGUUUGUAAACUAAUUAAC_____UGGAGGA
...((..(((((...((.(((....))).)).................................(((.(((((((.....))))))).))))))))..)).................... (-13.24 = -14.10 +   0.86)

alignment

secondary structure

dotplot

Window 0

Location	19,949,089 – 19,949,204
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	73.57
Mean single sequence MFE	-30.12
Consensus MFE	-10.19
Energy contribution	-11.00
Covariance contribution	0.81
Combinations/Pair	1.12
Mean z-score	-2.29
Structure conservation index	0.34
SVM decision value	0.68
SVM RNA-class probability	0.821799
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19949089 115 - 20766785
UCCUCCA-----GUUAAUUAGUUUACAAACCAUUAACACCUCACCGGUGUCACUGGAACGCGGCGAAGCCCCGCCCUUCGGCAACUCUUCCAAGCCGGAAUUUGGGAUUUCGCUCACGUA
...((((-----((......(((....))).....(((((.....))))).))))))(((.((((((..((((...((((((...........))))))...))))..))))).).))). ( -37.20)
>DroSec_CAF1 32098 115 - 1
UCCUCCA-----GUUAAUUAGUUUACAAACCAUUAACACCUCACCGGUGUCACUGGAACUCGGCGAAGUCCCGCCCGUCGGCGAAUCUUCCCAGCCGGAACUUGGGAUUUCGCUCACGUA
...((((-----((......(((....))).....(((((.....))))).))))))....((((((((((((....(((((...........)))))....))))))))))))...... ( -39.20)
>DroSim_CAF1 34383 115 - 1
UCCUCCA-----GUUAAUUAGUUUACAAACCAUUAACACCUCACCGGUGUCACUGGAACUCGGCGAAUCCCCGCCCUUCGGCGACUCUUCCCAGCCGGAACUUGGGAUUUCGCUCACGUA
...((((-----((......(((....))).....(((((.....))))).))))))....((((((..((((...((((((...........))))))...))))..))))))...... ( -34.60)
>DroEre_CAF1 31188 97 - 1
UCC-CCA-----GUUAAUUAGUUUACAAGCCAUUAACACCGCACCGGUGUCACUGGAACUCGGCGAAUCC-CG----------------CCCAGCCGCAACUUGGCAUUUCGCUCACGUA
...-(((-----((......(((....))).....((((((...)))))).))))).....((((((...-.(----------------((.((......)).)))..))))))...... ( -23.10)
>DroYak_CAF1 29887 87 - 1
UCCUCCA-----GUUAAUUAGUUUACAAACCAUUAACACCUCACCGGUGUCACUGGAACUGGGU-------------------------UCCAGCCGGAACUUGAGAUUUCGCUCAC---
....(((-----(((.....(....)...(((.(.(((((.....))))).).)))))))))((-------------------------(((....))))).((((......)))).--- ( -24.00)
>DroAna_CAF1 31408 110 - 1
UCCUCCGGACUGGCUAAUUAGUUUACAAACCAUUAACACCACACGGGGAUGUAUGG------CCAAAAGCUCUCCCG--GCCAACAGCUGCAGGC--UAACUUAAAAUGGCACUCACGUA
(((.(((...(((.((((..(((....))).))))...)))..))))))(((.(((------((............)--)))))))((((.((((--((........)))).)))).)). ( -22.60)
>consensus
UCCUCCA_____GUUAAUUAGUUUACAAACCAUUAACACCUCACCGGUGUCACUGGAACUCGGCGAAGCCCCGCCC___GGC_ACUCUUCCCAGCCGGAACUUGGGAUUUCGCUCACGUA
...................(((((.....(((...(((((.....)))))...)))....((((.............................))))))))).................. (-10.19 = -11.00 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:20 2006