Locus 895

Sequence ID 2L_DroMel_CAF1
Location 2,552,469 – 2,552,612
Length 143
Max. P 0.976867
window1444 window1445

overview

Window 4

Location 2,552,469 – 2,552,586
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.76
Mean single sequence MFE -44.28
Consensus MFE -29.49
Energy contribution -31.30
Covariance contribution 1.81
Combinations/Pair 1.16
Mean z-score -1.94
Structure conservation index 0.67
SVM decision value 0.41
SVM RNA-class probability 0.725022
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2552469 117 - 22407834
GUCUGCAAGGUGCCUAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGUCCAGCAGGACACUCGCGUCCUGCACUCCACCUCAAAGGUAAGAAACUUU-AAAGGG--GAACGGUGGGGC
....((..(((((....)))))....((..((.((((.((....)).))))..(((((((......)))))))..(((.(((..(((((.....)))))-..))))--))..))..)))) ( -46.30)
>DroSec_CAF1 131840 117 - 1
CUCUGCAAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGUCCAGCAGGACACUCGCGUCCUGCACUCAACCUCAAAGGUAAGAGUCUUG-AAAGGG--GAACGGUGGGGC
....((..(((((....))))).(((((..(((((((.((....)).))))..(((((((......)))))))((((.(((.....)))..))))....-....))--)...))))).)) ( -46.50)
>DroSim_CAF1 135082 117 - 1
CUGUGCAAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUUGUCCAGCAGGACACUCGCGUCCUGCACUCCACUUCAAAGGUAAGAGUCUUG-AAAGGG--GAACGGUGGGGC
....((..(((((....))))).((((((((..(((((((((((((......))))))....)))))))..))).(((.(((..((((......)))).-.))).)--))..))))).)) ( -43.90)
>DroEre_CAF1 136139 119 - 1
CUCUGCCAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCACCCAGCAGGACACGCGCGUCCUGCACUCCACCUCAAAGGUAAGAGGCUUU-AAAGGGGGGCACGGUGGGGC
....(((.(((((....))))).((((((((((((.((.....)).)).(((.(((((((......))))))).(((.(((.....)))..))).....-...)))))))).)))))))) ( -55.70)
>DroYak_CAF1 135855 107 - 1
CUCUGCCAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGCCCAGCAGGACACUCGCGUCCUGCACUCCACCUCAAAGGUAAGAGGCUUU-AAAGG------------AGC
(((((((.(((((....)))))......(((..(((((((((((((......))))))....)))))))..)))............))).))))((((.-....)------------))) ( -39.20)
>DroAna_CAF1 185921 103 - 1
CUCAGCCAGGUGCACAUGCACCGCUAUCAUCCUGACGUCGCCUGUUUCACGCAGCGGGAGGCCCGUGUCCUGCACUCUACCUCGAAGGUAGGGAUCCUCUGAA-----------------
.((((...(((((....)))))((...((((((..(((.((.((...)).)).)))..)))...)))....)).(((((((.....))))))).....)))).----------------- ( -34.10)
>consensus
CUCUGCAAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGCCCAGCAGGACACUCGCGUCCUGCACUCCACCUCAAAGGUAAGAGUCUUU_AAAGGG__GAACGGUGGGGC
........(((((....))))).((((((((..((((((.((((((......)))))).....))))))..)))(((.(((.....)))..)))..................)))))... (-29.49 = -31.30 +   1.81)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,552,506 – 2,552,612
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 88.18
Mean single sequence MFE -42.77
Consensus MFE -36.15
Energy contribution -36.82
Covariance contribution 0.67
Combinations/Pair 1.16
Mean z-score -3.06
Structure conservation index 0.85
SVM decision value 1.78
SVM RNA-class probability 0.976867
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2552506 106 - 22407834
UCUUCAGCAGCACUCGACAGGUGCAGGUCUGCAAGGUGCCUAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGUCCAGCAGGACACUCGCGUCCUGCACUCCAC
......((((.((.(((..((.((((((......(((((....)))))...))))))))...(((.((((((......)))))).)))))).)).))))....... ( -43.40)
>DroSec_CAF1 131877 106 - 1
UCUUCAGCAGCACUCGACAGGUGGAGCUCUGCAAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGUCCAGCAGGACACUCGCGUCCUGCACUCAAC
.....(((((((((((.(((((((.((...))..(((((....))))).)))))))..))).)))..))))).......(((((((......)))))))....... ( -44.50)
>DroSim_CAF1 135119 106 - 1
UCUUCAGCAGCACUCGACAGGUGGAGCUGUGCAAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUUGUCCAGCAGGACACUCGCGUCCUGCACUCCAC
.....(((((((((((.(((((((.((...))..(((((....))))).)))))))..))).)))..))))).......(((((((......)))))))....... ( -44.50)
>DroEre_CAF1 136178 106 - 1
UCUUCAGCAGCACUCGACAGGAGGAGCUCUGCCAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCACCCAGCAGGACACGCGCGUCCUGCACUCCAC
.....(((((((((((.((((.((.......)).(((((....)))))....))))..))).)))..))))).......(((((((......)))))))....... ( -40.20)
>DroYak_CAF1 135882 106 - 1
UCUUCAGCAGCACGCGGCAGGUGGAGCUCUGCCAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGCCCAGCAGGACACUCGCGUCCUGCACUCCAC
......((((.(((((((((((((.((...))..(((((....))))).))))))))).((.(((.((((((......)))))).))))))))).))))....... ( -53.50)
>DroAna_CAF1 185944 106 - 1
UUAUCAACACCACUCGCCAGGUAGUGCUCAGCCAGGUGCACAUGCACCGCUAUCAUCCUGACGUCGCCUGUUUCACGCAGCGGGAGGCCCGUGUCCUGCACUCUAC
...............(((((((..((.((((...(((((....))))).........))))))..)))))......)).((((((.(....).))))))....... ( -30.50)
>consensus
UCUUCAGCAGCACUCGACAGGUGGAGCUCUGCAAGGUGCACAUGCACCACUACCUGCCCGACGUGGCCUGCUUCGCCCAGCAGGACACUCGCGUCCUGCACUCCAC
.....(((((((((((.(((((((.((...))..(((((....))))).)))))))..))).)))..))))).......(((((((......)))))))....... (-36.15 = -36.82 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:09 2006