Locus 8596

Sequence ID X_DroMel_CAF1
Location 21,322,677 – 21,322,780
Length 103
Max. P 0.999773
window14133 window14134

overview

Window 3

Location 21,322,677 – 21,322,780
Length 103
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 74.34
Mean single sequence MFE -36.53
Consensus MFE -22.93
Energy contribution -22.60
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -2.84
Structure conservation index 0.63
SVM decision value 4.05
SVM RNA-class probability 0.999773
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21322677 103 + 22224390
-----GAUCUGGGA--CCCAAGAUCCUUGAACUCAAUUAAAGAGGAAAUGGCAUUUUUCUGAGUGCAACUACUCCACUUCAUGGACUC-----CGAAGUUCACUGUGGAGUGGGA
-----(((((.(..--..).)))))......(((.......)))......((((((....))))))..(((((((((....((((((.-----...))))))..))))))))).. ( -32.60)
>DroEre_CAF1 61361 112 + 1
AAACAGAUCUGGGGCUCCC---CUCCACAACUUCAAUUUGGGAGUGAAUGGCAUUUUCUUGAGUGCAGCUACUCCACUUCAUGGACUCUGUAGCGCAGUUCGCUGUGGAGUGGGA
...............((((---((((((((((((......)))))((((.((((((....)))))).(((((((((.....))))....)))))...))))..))))))).)))) ( -38.80)
>DroYak_CAF1 65048 102 + 1
AAAGAGA---------CCC---CUCCAUUCACUCAAUUUAAGAGUGAAUGGCAUUUUCUUGAGUGGACCUACUUCACUUCAUGGACUCUGUC-CGAAGUUCACUGUGGAGUGGGA
.((((((---------...---..((((((((((.......))))))))))...)))))).......((((((((((....((((((.....-...))))))..)))))))))). ( -38.20)
>consensus
AAA_AGAUCUGGG___CCC___CUCCAUAAACUCAAUUUAAGAGUGAAUGGCAUUUUCUUGAGUGCAACUACUCCACUUCAUGGACUCUGU__CGAAGUUCACUGUGGAGUGGGA
...............................(((.......)))......((((((....))))))..(((((((((....(((((((......).))))))..))))))))).. (-22.93 = -22.60 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 21,322,677 – 21,322,780
Length 103
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 74.34
Mean single sequence MFE -30.63
Consensus MFE -18.09
Energy contribution -19.20
Covariance contribution 1.11
Combinations/Pair 1.04
Mean z-score -1.62
Structure conservation index 0.59
SVM decision value 0.21
SVM RNA-class probability 0.633908
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21322677 103 - 22224390
UCCCACUCCACAGUGAACUUCG-----GAGUCCAUGAAGUGGAGUAGUUGCACUCAGAAAAAUGCCAUUUCCUCUUUAAUUGAGUUCAAGGAUCUUGGG--UCCCAGAUC-----
.((((((((..((....))..)-----)))(((..(((((((.....(((....))).......)))))))(((.......))).....)))...))))--.........----- ( -23.10)
>DroEre_CAF1 61361 112 - 1
UCCCACUCCACAGCGAACUGCGCUACAGAGUCCAUGAAGUGGAGUAGCUGCACUCAAGAAAAUGCCAUUCACUCCCAAAUUGAAGUUGUGGAG---GGGAGCCCCAGAUCUGUUU
((((.(((((((((((..((((((((....(((((...)))))))))).))).))............((((.........)))))))))))))---))))............... ( -35.90)
>DroYak_CAF1 65048 102 - 1
UCCCACUCCACAGUGAACUUCG-GACAGAGUCCAUGAAGUGAAGUAGGUCCACUCAAGAAAAUGCCAUUCACUCUUAAAUUGAGUGAAUGGAG---GGG---------UCUCUUU
...((((....)))).((((((-(((...))))..)))))((((.((..((.(((..(......)(((((((((.......))))))))))))---)).---------.)))))) ( -32.90)
>consensus
UCCCACUCCACAGUGAACUUCG__ACAGAGUCCAUGAAGUGGAGUAGCUGCACUCAAGAAAAUGCCAUUCACUCUUAAAUUGAGUUAAUGGAG___GGG___CCCAGAUCU_UUU
.((((((((((.(((.(((.(......)))).)))...)))))))...................((((...(((.......)))...)))).....)))................ (-18.09 = -19.20 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:05 2006