Locus 7715

Sequence ID X_DroMel_CAF1
Location 19,220,222 – 19,220,336
Length 114
Max. P 0.996971
window12653 window12654

overview

Window 3

Location 19,220,222 – 19,220,336
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.48
Mean single sequence MFE -30.76
Consensus MFE -16.38
Energy contribution -16.72
Covariance contribution 0.34
Combinations/Pair 1.05
Mean z-score -3.43
Structure conservation index 0.53
SVM decision value 2.78
SVM RNA-class probability 0.996971
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19220222 114 + 22224390
UUUAGAAUU-GCCGCGCG-CU-GUAACAGGA-GCAAUGGCAAAGCCUUUAAAGUUGAAGGCAUAUGAAGAUAUACAUAUGUAUGUACAUACAUAAAUAUUGU--GUGGCAAUCUGGUUUU
.(((((.((-((((((((-((-.(....).)-)).(((.....(((((((....))))))).((((...((((((....)))))).))))))).......))--)))))))))))).... ( -36.20)
>DroSec_CAF1 7155 97 + 1
UUUAGAAUU-GCCGCGCG-CU-GUAAGAGGAGGCAAUGGCC-AGCCUUUAAAGUUGAAGGCAUAUGAAGA----------------CAUUCAUAAAUAUUGU--GUGGCAAUCUGGUU-U
.(((((.((-((((((((-.(-((.......(((....)))-.(((((((....))))))).((((((..----------------..)))))).))).)))--))))))))))))..-. ( -35.60)
>DroSim_CAF1 7233 86 + 1
UUUAGAAUU-GCCGCGCG-CU-GUAAGAGGA------------GCCUUUAAAGUUGAAGGCAUAUGAAGA----------------CAUUCAUAAAUAUUGU--GUGGCAAUCUGGUU-U
.(((((.((-((((((((-.(-((.......------------(((((((....))))))).((((((..----------------..)))))).))).)))--))))))))))))..-. ( -31.60)
>DroEre_CAF1 5915 91 + 1
UUUAGAAUUUUUCGCACG-CU-GUAAGAGGA-GCAAUGGCG-AGCCUUUAAAGUUUAAGGCA--UGAAGA----------------C----AUAAAUAUUGU--GUGGCAAUCUGGUU-U
.(((((..((.(((((((-((-.(....).)-)).(((.((-.(((((........))))).--))....----------------)----)).......))--)))).)))))))..-. ( -19.10)
>DroYak_CAF1 6261 94 + 1
UUUAGAAUU-GCCGCACGGCUGGCAAGAGGA-GCAAUGGCA-AGCCUUUAAAGUUGAAGGCA--UGAAGA----------------C----AUAAAUAUUGUGUGUGGCAAUCUGGUU-U
.(((((.((-(((((((((((.((.......-))...))).-.(((((((....))))))).--......----------------.----..........)))))))))))))))..-. ( -31.30)
>consensus
UUUAGAAUU_GCCGCGCG_CU_GUAAGAGGA_GCAAUGGCA_AGCCUUUAAAGUUGAAGGCAUAUGAAGA________________CAU_CAUAAAUAUUGU__GUGGCAAUCUGGUU_U
.(((((....(((((.................((....))...(((((((....)))))))...........................................)))))..))))).... (-16.38 = -16.72 +   0.34)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,220,222 – 19,220,336
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.48
Mean single sequence MFE -19.96
Consensus MFE -7.50
Energy contribution -8.00
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.38
SVM decision value 0.48
SVM RNA-class probability 0.752890
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19220222 114 - 22224390
AAAACCAGAUUGCCAC--ACAAUAUUUAUGUAUGUACAUACAUAUGUAUAUCUUCAUAUGCCUUCAACUUUAAAGGCUUUGCCAUUGC-UCCUGUUAC-AG-CGCGCGGC-AAUUCUAAA
.......(((((((..--...((((.(((((((....))))))).))))..........(((((........))))).........((-.((((...)-))-.).)))))-))))..... ( -24.90)
>DroSec_CAF1 7155 97 - 1
A-AACCAGAUUGCCAC--ACAAUAUUUAUGAAUG----------------UCUUCAUAUGCCUUCAACUUUAAAGGCU-GGCCAUUGCCUCCUCUUAC-AG-CGCGCGGC-AAUUCUAAA
.-.....(((((((.(--.(......((((((..----------------..)))))).(((((........))))).-(((....))).........-..-.).).)))-))))..... ( -21.20)
>DroSim_CAF1 7233 86 - 1
A-AACCAGAUUGCCAC--ACAAUAUUUAUGAAUG----------------UCUUCAUAUGCCUUCAACUUUAAAGGC------------UCCUCUUAC-AG-CGCGCGGC-AAUUCUAAA
.-.....(((((((.(--.(......((((((..----------------..)))))).(((((........)))))------------.........-..-.).).)))-))))..... ( -18.50)
>DroEre_CAF1 5915 91 - 1
A-AACCAGAUUGCCAC--ACAAUAUUUAU----G----------------UCUUCA--UGCCUUAAACUUUAAAGGCU-CGCCAUUGC-UCCUCUUAC-AG-CGUGCGAAAAAUUCUAAA
.-....(((.......--...........----.----------------......--.(((((........)))))(-(((...(((-(........-))-)).)))).....)))... ( -13.80)
>DroYak_CAF1 6261 94 - 1
A-AACCAGAUUGCCACACACAAUAUUUAU----G----------------UCUUCA--UGCCUUCAACUUUAAAGGCU-UGCCAUUGC-UCCUCUUGCCAGCCGUGCGGC-AAUUCUAAA
.-.....(((((((.(((........(((----(----------------....))--))..............((((-.((......-.......)).))))))).)))-))))..... ( -21.42)
>consensus
A_AACCAGAUUGCCAC__ACAAUAUUUAUG_AUG________________UCUUCAUAUGCCUUCAACUUUAAAGGCU_UGCCAUUGC_UCCUCUUAC_AG_CGCGCGGC_AAUUCUAAA
......(((..(((.............................................(((((........)))))...((....))...................)))....)))... ( -7.50 =  -8.00 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:45 2006