Locus 2963

Sequence ID 2L_DroMel_CAF1
Location 8,501,037 – 8,501,156
Length 119
Max. P 0.999649
window4706 window4707

overview

Window 6

Location 8,501,037 – 8,501,156
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.88
Mean single sequence MFE -25.25
Consensus MFE -22.78
Energy contribution -22.82
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -2.14
Structure conservation index 0.90
SVM decision value 3.05
SVM RNA-class probability 0.998278
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8501037 119 + 22407834
CCGGUACUCUUUACAUUUACUUAAAAAUUCAUUGCGGCCCAAGGAAUUCUUGUAUUUUACUUUGGCCCCAAACCUUGAAUCUUUAAAAUUGAUGAAAAAUUAUGCCGAAAAUGUCGGC-A
.............((((...(((((.((((((((.((((.(((((((......))))..))).)))).)))....))))).)))))....))))........((((((.....)))))-) ( -24.80)
>DroSec_CAF1 10487 119 + 1
CCGGCACUCUUUACAUUUACUUAAAAAUUCAUUGCGGCCCAAGGAAUUCUUGUAUUUUACUUUGGCCCCA-ACCUUGAAUCUUUAAAAUUGAUGAAAAAUUAUGCCGAAAAUAAUGCCGA
.((((........((((...(((((.((((((((.((((.(((((((......))))..))).)))).))-)...))))).)))))....))))....(((((.......))))))))). ( -25.10)
>DroSim_CAF1 10040 118 + 1
CCGGCACUCUUUACAUUUACUUAAAAAUUCCUUGCGGCCCAAGGAAUUCUUGUAUUUUACUUUGGCCCCA-ACCUUGAAUCUUUAAAAUUGAUGAAAAAUUAUGCCGAAAAUGUCGGC-A
((((((...............(((.(((((((((.....))))))))).)))........((((((....-.......(((.........)))..........))))))..)))))).-. ( -23.60)
>DroEre_CAF1 10069 119 + 1
CCGGCACUCUUUGCAUUUACUUAAAAAUUCAUUGCGGCCCAAGGAAUUCUUUUAUUUCACUUCGGCCCCAAACCUUGAAUCUUUAAAAUUGAUGAAAAAUUAUGCCGAAAAUGUCGGC-A
.(((((.......((((...(((((.((((((((.((((.((((((.........))).))).)))).)))....))))).)))))....))))........)))))...........-. ( -26.76)
>DroYak_CAF1 10670 118 + 1
UCGGCACUCUUUACAUUUACUUAAAAAUUCAUUGCGGCCCAAGGAAUUCUUUUAUUUUACUUCGGCCCCA-ACCUUGAAUCUUUAAAAUUGAUGAAAAAUUAUGCCGAAAAUGCCGGC-A
((((((...(((.((((...(((((.((((((((.((((.(((((((......))))..))).)))).))-)...))))).)))))....)))).)))....))))))..........-. ( -26.00)
>consensus
CCGGCACUCUUUACAUUUACUUAAAAAUUCAUUGCGGCCCAAGGAAUUCUUGUAUUUUACUUUGGCCCCA_ACCUUGAAUCUUUAAAAUUGAUGAAAAAUUAUGCCGAAAAUGUCGGC_A
.(((((...(((.((((...(((((.(((((.((.((((.(((((((......))))..))).)))).)).....))))).)))))....)))).)))....)))))............. (-22.78 = -22.82 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,501,037 – 8,501,156
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.88
Mean single sequence MFE -32.98
Consensus MFE -29.03
Energy contribution -29.27
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -2.83
Structure conservation index 0.88
SVM decision value 3.83
SVM RNA-class probability 0.999649
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8501037 119 - 22407834
U-GCCGACAUUUUCGGCAUAAUUUUUCAUCAAUUUUAAAGAUUCAAGGUUUGGGGCCAAAGUAAAAUACAAGAAUUCCUUGGGCCGCAAUGAAUUUUUAAGUAAAUGUAAAGAGUACCGG
(-(((((.....))))))...((((((((....((((((((((((....(((.((((..(......).((((.....)))))))).)))))))))))))))...))).)))))....... ( -30.20)
>DroSec_CAF1 10487 119 - 1
UCGGCAUUAUUUUCGGCAUAAUUUUUCAUCAAUUUUAAAGAUUCAAGGU-UGGGGCCAAAGUAAAAUACAAGAAUUCCUUGGGCCGCAAUGAAUUUUUAAGUAAAUGUAAAGAGUGCCGG
.............((((((..((((((((....((((((((((((...(-((.((((..(......).((((.....)))))))).)))))))))))))))...))).))))))))))). ( -31.90)
>DroSim_CAF1 10040 118 - 1
U-GCCGACAUUUUCGGCAUAAUUUUUCAUCAAUUUUAAAGAUUCAAGGU-UGGGGCCAAAGUAAAAUACAAGAAUUCCUUGGGCCGCAAGGAAUUUUUAAGUAAAUGUAAAGAGUGCCGG
.-...........((((((..((((((((....(((((((((((....(-((.((((..(......).((((.....)))))))).))).)))))))))))...))).))))))))))). ( -31.10)
>DroEre_CAF1 10069 119 - 1
U-GCCGACAUUUUCGGCAUAAUUUUUCAUCAAUUUUAAAGAUUCAAGGUUUGGGGCCGAAGUGAAAUAAAAGAAUUCCUUGGGCCGCAAUGAAUUUUUAAGUAAAUGCAAAGAGUGCCGG
.-...........((((((..((((((((....((((((((((((....(((.((((.(((.(((.........)))))).)))).)))))))))))))))...))).))))))))))). ( -36.10)
>DroYak_CAF1 10670 118 - 1
U-GCCGGCAUUUUCGGCAUAAUUUUUCAUCAAUUUUAAAGAUUCAAGGU-UGGGGCCGAAGUAAAAUAAAAGAAUUCCUUGGGCCGCAAUGAAUUUUUAAGUAAAUGUAAAGAGUGCCGA
.-..(((((((((..((((..............((((((((((((...(-((.((((.(((................))).)))).)))))))))))))))...))))..))))))))). ( -35.62)
>consensus
U_GCCGACAUUUUCGGCAUAAUUUUUCAUCAAUUUUAAAGAUUCAAGGU_UGGGGCCAAAGUAAAAUACAAGAAUUCCUUGGGCCGCAAUGAAUUUUUAAGUAAAUGUAAAGAGUGCCGG
............(((((((..((((((((....((((((((((((.....((.((((.(((................))).)))).)).))))))))))))...))).)))))))))))) (-29.03 = -29.27 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:44 2006