Locus 5214

Sequence ID 3R_DroMel_CAF1
Location 13,654,739 – 13,654,866
Length 127
Max. P 0.982749
window8504 window8505

overview

Window 4

Location 13,654,739 – 13,654,834
Length 95
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 65.33
Mean single sequence MFE -24.11
Consensus MFE -9.19
Energy contribution -9.33
Covariance contribution 0.14
Combinations/Pair 1.67
Mean z-score -2.43
Structure conservation index 0.38
SVM decision value 1.92
SVM RNA-class probability 0.982749
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13654739 95 + 27905053
UCGGG---GGCUU---CUGGCUUUAUCUCUGCUUACUUUGCCACCUU---GUGGGUGGGACACUCUC-ACAUUCACCGUUUCAU---CC-----UCCGACUUCUCCUCGGAGU
..(((---(((..---..(((.........)))......))).))).---(((.(((((.....)))-))...)))........---.(-----(((((.......)))))). ( -25.50)
>DroSec_CAF1 19752 98 + 1
UCGGG---GGCUU---CAGGCUUUAUCUCUGCUUACUUUGCCACCUCGUCGUGGGUGGCACACUCUC-ACAUUCUCCGUUUCAU---CC-----UCUGACUUCUCCUCGAAGU
(((((---((...---.((((.........))))....((((((((......)))))))).......-................---))-----)))))((((.....)))). ( -26.50)
>DroSim_CAF1 19587 98 + 1
UCGGG---GGCUU---CCGGCUUUAUCUCUGCUUACUUUGCCACCUCGUCGUGGGUGGCACACUCUC-ACAUUCUCCGCUUCAU---CC-----UCUGACUUCUCCUCGAAGU
(((((---((...---..(((.........))).....((((((((......)))))))).......-................---))-----)))))((((.....)))). ( -25.30)
>DroYak_CAF1 20095 98 + 1
UCGGG---GGUCA---CUGGCUUUAUCUCUGCUUACUUUGCCACCUU---AUGGGUGGGAACUACCA--GAUUUUCCUAUUC-U---CCUUUUCUCUGAAUUCUCUCUGGAGU
.((((---(((..---........))))))).........(((((..---...)))))..(((.(((--((.......((((-.---..........))))....)))))))) ( -20.20)
>DroAna_CAF1 15313 85 + 1
UCGGG---GGAAAAGUAUUUCUUUAUCUCUGCUUACUUUGCCACCUU---U---------CUCUCUC--CACUGGCAGUUCCAU-----------UUGCCUACUCCCCUGACU
(((((---(((((((((................))))))........---.---------.......--....(((((......-----------)))))...)))))))).. ( -22.29)
>DroPer_CAF1 25449 100 + 1
UCAGGUCGGAAAA---GUGUCUUUAUCUCUGCUUACUUUUCCACCUA---GCAGGGGGUUCCUCCCCUCCCCGCACCGC-CCAUGCCCCUACCCUCU--UUUCUCCCU----C
..((((.((((((---(((..............))))))))))))).---((.(((((........))))).)).....-.................--.........----. ( -24.84)
>consensus
UCGGG___GGCUA___CUGGCUUUAUCUCUGCUUACUUUGCCACCUU___GUGGGUGGCACACUCUC_ACAUUCUCCGUUUCAU___CC_____UCUGACUUCUCCCCGGAGU
(((((...((((......))))..................((((((......))))))...............................................)))))... ( -9.19 =  -9.33 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,654,766 – 13,654,866
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 71.17
Mean single sequence MFE -26.90
Consensus MFE -11.56
Energy contribution -12.58
Covariance contribution 1.03
Combinations/Pair 1.13
Mean z-score -1.73
Structure conservation index 0.43
SVM decision value 0.10
SVM RNA-class probability 0.585482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13654766 100 + 27905053
UACUUUGCCACCUU---GUGGGUGGGACACUCUC-ACAUUCACCGUUUCAU---CC-----UCCGACUUCUCCUCGGAGUUCUCUAGUGCAGAUUGCC---CGAGUGGCCGUGUC-----
.......(((((..---...)))))(((((....-.(((((..........---.(-----(((((.......)))))).......(.((.....)).---))))))...)))))----- ( -28.00)
>DroSec_CAF1 19779 103 + 1
UACUUUGCCACCUCGUCGUGGGUGGCACACUCUC-ACAUUCUCCGUUUCAU---CC-----UCUGACUUCUCCUCGAAGUUCUCUAGUGCAGAUUGCC---CGAGUGGCCGUGUC-----
(((..((((((((......))))))))(((((..-................---..-----...((((((.....)))))).....(.((.....)).---))))))...)))..----- ( -26.50)
>DroSim_CAF1 19614 103 + 1
UACUUUGCCACCUCGUCGUGGGUGGCACACUCUC-ACAUUCUCCGCUUCAU---CC-----UCUGACUUCUCCUCGAAGUUCUCUAGUGCAGAUUGCC---CGAGUGGCCGUGUC-----
(((..((((((((......))))))))(((((..-.((.(((.((((....---..-----...((((((.....))))))....)))).))).))..---.)))))...)))..----- ( -31.12)
>DroEre_CAF1 23581 98 + 1
UACUUUGCCACCUU---GUGGGUGGGAACCUCAC--GAUUCUCUCUUUC-U---CC-----UCUGACUUCUCUACGGAGUUCUCUAGUUCAAAUUGCC---CGAGUGGCCGUGUC-----
......(((((...---.((((((((((.(....--).)))))......-.---..-----...((...(((....)))...))...........)))---)).)))))......----- ( -22.80)
>DroYak_CAF1 20122 103 + 1
UACUUUGCCACCUU---AUGGGUGGGAACUACCA--GAUUUUCCUAUUC-U---CCUUUUCUCUGAAUUCUCUCUGGAGUUCUUUAGUUCAAAUUGCC---CUAGUGGCCAUGUC-----
......(((((...---..(((((((((((.(((--((.......((((-.---..........))))....))))))))))))...........)))---)..)))))......----- ( -25.60)
>DroPer_CAF1 25479 110 + 1
UACUUUUCCACCUA---GCAGGGGGUUCCUCCCCUCCCCGCACCGC-CCAUGCCCCUACCCUCU--UUUCUCCCU----CUUUUAAUUUCAGAUUGCCUCUUGAGUGGCUCUGGCUGGGA
..........((((---((((((((..............(((....-...)))...........--...))))))----..........((((..(((........))))))))))))). ( -27.39)
>consensus
UACUUUGCCACCUU___GUGGGUGGGACACUCUC_ACAUUCUCCGUUUCAU___CC_____UCUGACUUCUCCUCGGAGUUCUCUAGUGCAGAUUGCC___CGAGUGGCCGUGUC_____
.......((((((......)))))).......................................((((((.....))))))..............(((........)))........... (-11.56 = -12.58 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:12 2006