Locus 4632

Sequence ID	2L_DroMel_CAF1
Location	13,246,016 – 13,246,147
Length	131
Max. P	0.844604

overview

Window 6

Location	13,246,016 – 13,246,113
Length	97
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	93.57
Mean single sequence MFE	-22.87
Consensus MFE	-20.75
Energy contribution	-20.95
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.29
Structure conservation index	0.91
SVM decision value	0.66
SVM RNA-class probability	0.813355
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13246016 97 - 22407834
UAGGCCCCAACAAAAUCGGUCGGUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAAAAGCUCAUCUCUGACAAA----AAAAGCUUA
(((((..............(((((((...((((((.(((.......)))))))))..)))))))........(.(((....))))...----....))))) ( -23.70)
>DroSec_CAF1 27280 99 - 1
UAGGCGCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAAAAGCUCAUCUCGGACAAAA--AAAAAGCUUA
..(((.....((((((.....))))))..((((((.(((.......)))))))))....)))........(((((..............--....))))). ( -22.37)
>DroSim_CAF1 23160 101 - 1
UAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAAAAGCUCAUCUCGGCCAAAAAAAAAAAGCUUA
..((((....((((((.....))))))..((((((.(((..((......)).))).))))))...................))))................ ( -24.90)
>DroEre_CAF1 20442 98 - 1
UAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGCCUCUGCCGAAGCCAAAAGCCGAACUCAAAAGCUCAUCUCGCCCAAA---AAAAAGCUUA
..(((.....((((((.....))))))..((((((.(((.......)))))))))....)))........(((((.............---....))))). ( -21.53)
>DroYak_CAF1 20575 96 - 1
UAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCUCUGCCGAAGCCAAAAGCCGAACUCAAAAGCUCAUCUCGG--AUA---AAAAAGCUUU
..(((.....((((((.....))))))..((((((.(((.......)))))))))....))).......((((((........--...---....)))))) ( -21.86)
>consensus
UAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAAAAGCUCAUCUCGGACAAA___AAAAAGCUUA
..(((.....((((((.....))))))..((((((.(((.......)))))))))....)))........(((((....................))))). (-20.75 = -20.95 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	13,246,043 – 13,246,147
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	94.23
Mean single sequence MFE	-25.94
Consensus MFE	-20.70
Energy contribution	-20.90
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.86
Structure conservation index	0.80
SVM decision value	0.76
SVM RNA-class probability	0.844604
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13246043 104 - 22407834
CGAAGCCAAAGCAAACAGCAACAACAUACACAUGUAGGCCCCAACAAAAUCGGUCGGUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAA
.((.(((...((.....))....((((....)))).)))..............(((((((...((((((.(((.......)))))))))..)))))))..)).. ( -27.90)
>DroSec_CAF1 27309 104 - 1
CGAAGCCAAAGCAAACAGCAACAACACACACAAGUAGGCGCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAA
.((.(((...((.....))......((......)).)))..........(((((..((.....((((((.(((.......)))))))))))..)))))..)).. ( -22.80)
>DroSim_CAF1 23191 104 - 1
CGAAGCCAAAGCAAACAGCAACAACACACACAAGUAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAA
((((((....((.....)).................((((...........))))))))))..((((((.(((..((......)).))).))))))........ ( -23.20)
>DroEre_CAF1 20470 104 - 1
CGAAGCCAAAACAAACAGCAACAACAUAUAGUUGUAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGCCUCUGCCGAAGCCAAAAGCCGAACUCAA
.((...((((((.....(((((........))))).((((...........))))))))))..((((((.(((.((....))....))).))))))....)).. ( -27.00)
>DroYak_CAF1 20601 104 - 1
CGAAGCCAAAGCAAACAGCAACAACAUGUGGUUGUAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCUCUGCCGAAGCCAAAAGCCGAACUCAA
.((...((((((..(((((.((.....)).))))).((((...........))))))))))..((((((.(((..((......)).))).))))))....)).. ( -28.80)
>consensus
CGAAGCCAAAGCAAACAGCAACAACAUACACAUGUAGGCCCCAACAAAAUCGGUCGUUUUGAAGGCUUUAGGCCGUCACUGCCGAAGCCAAAAGCCGAACUCAA
.((.(((...((.....))....((........)).)))..........(((((...(((...((((((.(((.......))))))))).))))))))..)).. (-20.70 = -20.90 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:08 2006