Locus 2332

Sequence ID 2R_DroMel_CAF1
Location 8,542,700 – 8,542,894
Length 194
Max. P 0.677955
window3847 window3848

overview

Window 7

Location 8,542,700 – 8,542,815
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.81
Mean single sequence MFE -35.35
Consensus MFE -27.45
Energy contribution -28.05
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.78
SVM decision value 0.30
SVM RNA-class probability 0.677955
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8542700 115 - 20766785
CCACCG---CUUCGAAUGGGUUUUCUUUUCUAUUCGCUUGAGCGGGCAC-UGGCCAAGAAAAAUGUUGGGUUAGCGUGGUUAUCCGCCGCGU-UUUGGCCACAUUGCUUUAAGUCGGUGA
...(((---(((((((((((........))))))))...)))))).(((-((((.(((...(((((.((.(.((((((((.....)))))))-)..).))))))).)))...))))))). ( -44.90)
>DroSec_CAF1 18352 110 - 1
-CACCG---CUCAGAAUGGGUUUUCUUUUCUAUUCGCUUCAGUGGGCAC-UGGCCAAGAAAAAUUUUGGGUUAGCGUGGUUAUCCGCCGCGU-UUUGGCCACAUUGCUUUAAGUCA----
-..(((---((..(((((((........))))))).....)))))(((.-((((((((...............(((((((.....)))))))-))))))))...))).........---- ( -33.36)
>DroSim_CAF1 21955 110 - 1
-CACCG---CUCAGAAUGGGUUUUCUUUUCUAUUCGCUUCAGUGGGCAC-UGGCCAAGAAAAAUGUUGGGUUAGCGUGGUUAUCCGCCGCGU-UUUGGCCACAUUGCUUUAAGUCA----
-..(((---((..(((((((........))))))).....)))))(((.-(((((((((.....((((...))))(((((.....))))).)-))))))))...))).........---- ( -33.60)
>DroEre_CAF1 7650 107 - 1
-GAAUGAGUAUGAGAAUGGGUUUU-----CUAUUCGCUUGAGCGGUCAC-UGGCCAAGAAAA--GUUGGGUUAGCGUGGUUAUCCGCCGCCUUUUUGGCCACAUUGCUUUAAGUCA----
-....(((((.(((((....))))-----))))))(((((((((((...-((((((((((..--((((...))))(((((.....))))).)))))))))).))))).))))))..---- ( -33.30)
>DroYak_CAF1 21520 100 - 1
-AA---------AGAAUGGGUUUUC---UCUAUUCGCUUCAGCGGGCACAUGGCCAAGAAAC--GUUGGGUUAGCGUGGUUAUCCGCCGCGU-UUUGGCCACAUUGCUUUAAGUCG----
-..---------.(((((((.....---)))))))((....))(((((..(((((((((..(--(.(((((.(((...)))))))).))..)-))))))))...))))).......---- ( -31.60)
>consensus
_CACCG___CUCAGAAUGGGUUUUCUUUUCUAUUCGCUUCAGCGGGCAC_UGGCCAAGAAAAAUGUUGGGUUAGCGUGGUUAUCCGCCGCGU_UUUGGCCACAUUGCUUUAAGUCA____
.............(((((((........)))))))((((....(((((..((((((((...............(((((((.....))))))).))))))))...))))).))))...... (-27.45 = -28.05 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,542,778 – 8,542,894
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.44
Mean single sequence MFE -32.28
Consensus MFE -19.20
Energy contribution -20.00
Covariance contribution 0.80
Combinations/Pair 1.17
Mean z-score -1.66
Structure conservation index 0.59
SVM decision value 0.07
SVM RNA-class probability 0.568616
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8542778 116 - 20766785
UGGUGUGCUUGGUGGUGCAAUUAACCGCAAAAGGUUUCCUUUUGUCACUCACUGGAUCUACCGGGCCUCUC-CUCGGUCACCACCG---CUUCGAAUGGGUUUUCUUUUCUAUUCGCUUG
......((..(((((((.........((((((((...))))))))..............((((((......-))))))))))))).---....(((((((........)))))))))... ( -34.30)
>DroSec_CAF1 18426 111 - 1
UGGUGUGGUUGGUGGUGCAAUUAACCGCAAAAGGUUUCCUUUUGUCACUCGCUGGGUCU-CCGGGCCUCUCGCUCG-----CACCG---CUCAGAAUGGGUUUUCUUUUCUAUUCGCUUC
.(((.....(((((((((........((((((((...)))))))).....((.(((((.-...)))))...))..)-----)))))---).))(((((((........)))))))))).. ( -35.10)
>DroSim_CAF1 22029 111 - 1
UGGUGUGGUUGGUGGUGCAAUUAACCGCAAAAGGUUUCCUUUUGUCACUCGCUGGGUCU-CCGGGCCUCUCGCUCG-----CACCG---CUCAGAAUGGGUUUUCUUUUCUAUUCGCUUC
.(((.....(((((((((........((((((((...)))))))).....((.(((((.-...)))))...))..)-----)))))---).))(((((((........)))))))))).. ( -35.10)
>DroEre_CAF1 7723 100 - 1
UAGUC-GG-CGGUGGUGCAAUUAACCACAAAAGGUUUCCUUUUGUCACUCACUGGGC--------CCUCUCGCUCA-----GAAUGAGUAUGAGAAUGGGUUUU-----CUAUUCGCUUG
.....-((-(.(((((.......)))))((((((...)))))))))(((((((((((--------......)))))-----)..)))))....((((((.....-----))))))..... ( -30.70)
>DroYak_CAF1 21593 91 - 1
CAGUC-AGUCGGUGGUGCAAUUAACCACAAAAGGUUUCCUUUUGUCACUCAUUCG-----------CUGGCACUCG-----AA---------AGAAUGGGUUUUC---UCUAUUCGCUUC
..(((-(((..(((((((((..((((......)))).....))).))).)))..)-----------)))))....(-----((---------.(((((((.....---)))))))..))) ( -26.20)
>consensus
UGGUGUGGUUGGUGGUGCAAUUAACCGCAAAAGGUUUCCUUUUGUCACUCACUGGGUCU_CCGGGCCUCUCGCUCG_____CACCG___CUCAGAAUGGGUUUUCUUUUCUAUUCGCUUC
.((((....(((((((((((..((((......)))).....))).))).)))))((((.....))))..............))))........(((((((........)))))))..... (-19.20 = -20.00 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:11 2006