Locus 1132

Sequence ID X_DroMel_CAF1
Location 3,359,536 – 3,359,627
Length 91
Max. P 0.980081
window1818 window1819

overview

Window 8

Location 3,359,536 – 3,359,627
Length 91
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 73.73
Mean single sequence MFE -15.40
Consensus MFE -10.41
Energy contribution -10.75
Covariance contribution 0.34
Combinations/Pair 1.20
Mean z-score -1.22
Structure conservation index 0.68
SVM decision value 0.61
SVM RNA-class probability 0.798036
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3359536 91 + 22224390
----UUACUUACCUGGCAAUUUUUUGCCUUUUUUGCCCUUUUUCCCUUUAGGCGGCUGUAAGAAAAUA--A--GUUCAAAUGAAAUUAUUAUUUUGAUU-
----...(((((..(((((....)))))......((((((.........))).))).)))))((((((--(--.(((....)))....)))))))....- ( -18.80)
>DroVir_CAF1 5889 87 + 1
-----UACUCACCUGGCAGCUUCUUGCCCUUUUUUCCCUUUUUACCCUUUGGUGGCUGCAAAAAAAAAGAUAAAUUCA----ACA---AUA-AUUAAUUG
-----.........(((((....)))))(((((((......(((((....))))).......))))))).........----...---...-........ ( -10.32)
>DroSec_CAF1 5993 92 + 1
----UUACUUACCUGGCAAUUUUUUGCCUUUUUUGCCCUUCUUCCCCUUUGGCGGCUGUAAGAAAAUA--A--GUUUGAAUGAAAUUAUUAUUUCGAUUU
----...(((((..(((((....)))))......(((((...........)).))).)))))......--.--.......((((((....)))))).... ( -16.90)
>DroSim_CAF1 6022 92 + 1
----CUACUUACCUGGCAAUUUUUUGCCUUUUUUGCCCUUCUUCCCCUUUGGCGGCUGUAAGAAAAUA--A--GUUUGAAUGAAAUUAUUAUUUCGAUUU
----...(((((..(((((....)))))......(((((...........)).))).)))))......--.--.......((((((....)))))).... ( -16.90)
>DroEre_CAF1 9181 85 + 1
----UUACUUACCUGGCAAUUUUUUGCCCUUUUUGCCCUUUUUCCCCUUUGGCGGCUGUAAGAAAAUA-----------AUGAAAUUAUUAAUUUGAUUU
----...(((((..(((((....)))))......(((((...........)).))).)))))......-----------...((((((......)))))) ( -14.80)
>DroMoj_CAF1 8430 88 + 1
UUAUCAACUCACCUGGCAACUUCUUGCCCUUUUUGCCUUUCUUACUCUUUGGUGGCUGUGAAUGGAAAGUG-----GA----AAA---GUAUGUUAAUUC
.....(((......(((((....)))))((((((..(((((((((.((.....))..)))...))))))..-----))----)))---)...)))..... ( -14.70)
>consensus
____UUACUUACCUGGCAAUUUUUUGCCCUUUUUGCCCUUCUUCCCCUUUGGCGGCUGUAAGAAAAUA__A__GUUCA_AUGAAAUUAUUAUUUUGAUUU
.......(((((..(((((....)))))......(((((...........)).))).)))))...................................... (-10.41 = -10.75 +   0.34)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,359,536 – 3,359,627
Length 91
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 73.73
Mean single sequence MFE -17.05
Consensus MFE -12.46
Energy contribution -12.07
Covariance contribution -0.39
Combinations/Pair 1.31
Mean z-score -1.78
Structure conservation index 0.73
SVM decision value 1.85
SVM RNA-class probability 0.980081
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3359536 91 - 22224390
-AAUCAAAAUAAUAAUUUCAUUUGAAC--U--UAUUUUCUUACAGCCGCCUAAAGGGAAAAAGGGCAAAAAAGGCAAAAAAUUGCCAGGUAAGUAA----
-.........(((((.(((....))).--)--))))..(((((....((((...........))))......(((((....)))))..)))))...---- ( -17.10)
>DroVir_CAF1 5889 87 - 1
CAAUUAAU-UAU---UGU----UGAAUUUAUCUUUUUUUUUGCAGCCACCAAAGGGUAAAAAGGGAAAAAAGGGCAAGAAGCUGCCAGGUGAGUA-----
((((....-...---.))----)).((((((((((((((((((..((......)))))))))))))......((((......)))).))))))).----- ( -17.80)
>DroSec_CAF1 5993 92 - 1
AAAUCGAAAUAAUAAUUUCAUUCAAAC--U--UAUUUUCUUACAGCCGCCAAAGGGGAAGAAGGGCAAAAAAGGCAAAAAAUUGCCAGGUAAGUAA----
.....(((((....)))))......((--(--(((((((((.(..((......)).))))))).........(((((....)))))..))))))..---- ( -17.60)
>DroSim_CAF1 6022 92 - 1
AAAUCGAAAUAAUAAUUUCAUUCAAAC--U--UAUUUUCUUACAGCCGCCAAAGGGGAAGAAGGGCAAAAAAGGCAAAAAAUUGCCAGGUAAGUAG----
.....(((((....)))))......((--(--(((((((((.(..((......)).))))))).........(((((....)))))..))))))..---- ( -17.60)
>DroEre_CAF1 9181 85 - 1
AAAUCAAAUUAAUAAUUUCAU-----------UAUUUUCUUACAGCCGCCAAAGGGGAAAAAGGGCAAAAAGGGCAAAAAAUUGCCAGGUAAGUAA----
.....................-----------......(((((.(((.((.....))......)))......(((((....)))))..)))))...---- ( -14.50)
>DroMoj_CAF1 8430 88 - 1
GAAUUAACAUAC---UUU----UC-----CACUUUCCAUUCACAGCCACCAAAGAGUAAGAAAGGCAAAAAGGGCAAGAAGUUGCCAGGUGAGUUGAUAA
..((((((...(---(((----(.-----..(((((.((((............))))..)))))...)))))(((((....)))))......)))))).. ( -17.70)
>consensus
AAAUCAAAAUAAUAAUUUCAU_UAAAC__U__UAUUUUCUUACAGCCGCCAAAGGGGAAAAAGGGCAAAAAAGGCAAAAAAUUGCCAGGUAAGUAA____
......................................(((((.(((................)))......(((((....)))))..)))))....... (-12.46 = -12.07 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:07 2006