Locus 1523

Sequence ID	3L_DroMel_CAF1
Location	4,408,413 – 4,408,517
Length	104
Max. P	0.769305

overview

Window 1

Location	4,408,413 – 4,408,517
Length	104
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	79.55
Mean single sequence MFE	-33.70
Consensus MFE	-23.86
Energy contribution	-24.00
Covariance contribution	0.14
Combinations/Pair	1.21
Mean z-score	-1.25
Structure conservation index	0.71
SVM decision value	0.22
SVM RNA-class probability	0.641945
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4408413 104 + 23771897
UGAAGACUUUCCGCUUCACUGGAUCACCAGCGCUCUAUAUCGAGUGCGAUGUGCGGAUGUGCCAUGGACGGUGUCCAGUGAGUUAU--AUCGUAAAAUAAUCAGUA
..............(((((((((.((((.((((((......)))))).(((.(((....))))))....)))))))))))))....--.................. ( -33.30)
>DroVir_CAF1 8819 103 + 1
UGAAAACCUUCCGCUUCACCGGCUCCCCGGCCCUGUAUAUUGAGUGCGAUGUGCGCAUGUGCCAUGGACGUUGUCCGGUAUGUGAAUGUAGGCGGAGUAGGUU---
....((((((((((((((((((....))))....((((((((....)))))))).((((((((..((((...))))))))))))..)).)))))))..)))))--- ( -38.90)
>DroSec_CAF1 6376 103 + 1
UGAAGACCUUCCGCUUCACUGGAUCCCCAGCGCUCUAUAUCGAGUGCGAUGUGCGGAUGUGCCAUGGACGGUGUCCAGUGAGUCAU--AACUUAUACUAUUCGGA-
.........((((..((((((((..((..((((((......)))))).(((.(((....))))))....))..))))))))((...--.))..........))))- ( -31.80)
>DroEre_CAF1 6603 103 + 1
UGAAGACCUUCCGGUUCACUGGAUCCCCGGCGCUCUAUAUCGAGUGCGAUGUGCGGAUGUGCCAUGGACGGUGUCCAGUGAGUUUC--AUCUCAUACUAAUCGGU-
((((((((....)))(((((((((((((((((((((((((((....))))))..))).)))))..))..)).))))))))).))))--)................- ( -34.10)
>DroYak_CAF1 6675 103 + 1
UGAAGACCUUUCGGUUCACUGGAUCCCCGGCGCUCUAUAUCGAGUGCGAUGUGCGCAUGUGCCAUGGACGGUGUCCAGUGAGUUAU--AUCUAAUACUAAUAGUU-
.....(((....)))(((((((((..(((((((((......)))))).(((.(((....))))))...))).))))))))).....--.................- ( -33.20)
>DroAna_CAF1 7014 102 + 1
UGAAAACCUUCCGGUUCACUGGAUCUCCGGCACUUUACAUAGAGUGCGAUGUGCGCAUGUGCCACGGUCGUUGUCCAGUAAGUACU---UGGCUUGCUUGGUUUU-
..((((((.(((((....)))))...((.(((((((....)))))))...(((.((....))))))).........(((((((...---..))))))).))))))- ( -30.90)
>consensus
UGAAGACCUUCCGCUUCACUGGAUCCCCGGCGCUCUAUAUCGAGUGCGAUGUGCGCAUGUGCCAUGGACGGUGUCCAGUGAGUUAU__AUCGCAUACUAAUCGGU_
..............((((((((((..(((((((((......))))))..((.(((....)))))))).....))))))))))........................ (-23.86 = -24.00 +   0.14)

alignment

secondary structure

dotplot

Window 2

Location	4,408,413 – 4,408,517
Length	104
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	79.55
Mean single sequence MFE	-31.00
Consensus MFE	-20.11
Energy contribution	-20.25
Covariance contribution	0.14
Combinations/Pair	1.18
Mean z-score	-1.69
Structure conservation index	0.65
SVM decision value	0.52
SVM RNA-class probability	0.769305
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4408413 104 - 23771897
UACUGAUUAUUUUACGAU--AUAACUCACUGGACACCGUCCAUGGCACAUCCGCACAUCGCACUCGAUAUAGAGCGCUGGUGAUCCAGUGAAGCGGAAAGUCUUCA
....((..(((((.((..--.....((((((((((((....(((((......)).))).((.(((......))).)).)))).))))))))..)).)))))..)). ( -31.70)
>DroVir_CAF1 8819 103 - 1
---AACCUACUCCGCCUACAUUCACAUACCGGACAACGUCCAUGGCACAUGCGCACAUCGCACUCAAUAUACAGGGCCGGGGAGCCGGUGAAGCGGAAGGUUUUCA
---(((((..(((((.............((((((...))))........((((.....))))...........))(((((....)))))...)))))))))).... ( -31.30)
>DroSec_CAF1 6376 103 - 1
-UCCGAAUAGUAUAAGUU--AUGACUCACUGGACACCGUCCAUGGCACAUCCGCACAUCGCACUCGAUAUAGAGCGCUGGGGAUCCAGUGAAGCGGAAGGUCUUCA
-((((....(((.....)--))...((((((((..((....(((((......)).))).((.(((......))).))..))..))))))))..))))......... ( -30.00)
>DroEre_CAF1 6603 103 - 1
-ACCGAUUAGUAUGAGAU--GAAACUCACUGGACACCGUCCAUGGCACAUCCGCACAUCGCACUCGAUAUAGAGCGCCGGGGAUCCAGUGAACCGGAAGGUCUUCA
-................(--(((..((((((((..((....(((((......)).))).((.(((......))).))..))..))))))))(((....))).)))) ( -31.80)
>DroYak_CAF1 6675 103 - 1
-AACUAUUAGUAUUAGAU--AUAACUCACUGGACACCGUCCAUGGCACAUGCGCACAUCGCACUCGAUAUAGAGCGCCGGGGAUCCAGUGAACCGAAAGGUCUUCA
-..(((.......)))..--.....((((((((.....(((.((((...((((.....))))(((......))).)))).)))))))))))(((....)))..... ( -32.60)
>DroAna_CAF1 7014 102 - 1
-AAAACCAAGCAAGCCA---AGUACUUACUGGACAACGACCGUGGCACAUGCGCACAUCGCACUCUAUGUAAAGUGCCGGAGAUCCAGUGAACCGGAAGGUUUUCA
-................---.....(((((((((..((...(((((....)).)))...(((((........)))))))..).))))))))(((....)))..... ( -28.60)
>consensus
_ACCGAUUAGUAUGAGAU__AUAACUCACUGGACACCGUCCAUGGCACAUCCGCACAUCGCACUCGAUAUAGAGCGCCGGGGAUCCAGUGAACCGGAAGGUCUUCA
.........................(((((((((.(((...(((((......)).))).((.(((......))).))))).).))))))))............... (-20.11 = -20.25 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:49 2006