Locus 8388

Sequence ID 3L_DroMel_CAF1
Location 22,056,231 – 22,056,326
Length 95
Max. P 0.997991
window13717 window13718

overview

Window 7

Location 22,056,231 – 22,056,326
Length 95
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 92.87
Mean single sequence MFE -18.58
Consensus MFE -17.86
Energy contribution -17.70
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.83
Structure conservation index 0.96
SVM decision value 2.98
SVM RNA-class probability 0.997991
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22056231 95 + 23771897
AUGCCCCACAAAUUUAAUUGUAAAUACAUAAAUCGCUUUACGAGCGUUU-UUUCGCCGGUAUAAUUUUAUGUGCUCCACCUUGGGCCCCCUUUCU--U
..((((.((((......))))...((((((((........((.(((...-...))))).......)))))))).........)))).........--. ( -18.86)
>DroSec_CAF1 41129 94 + 1
AUGCCCCACAAAUUUAAUUGUAAAUACAUAAAUCGCUUUACGAGCGUUU-UUUCGCCGGUAUAAUUUUAUGUGCUCCACCUUGGGCCCCUUUCCU---
..((((.((((......))))...((((((((........((.(((...-...))))).......)))))))).........)))).........--- ( -18.86)
>DroSim_CAF1 47121 97 + 1
AUGCCCCACAAAUUUAAUUGUAAAUACAUAAAUCGCUUUACGAGCGUUU-UUUCGCCGGUAUAAUUUUAUGUGCUCCACCUUGGGCCCCCUUUCUGUU
..((((.((((......))))...((((((((........((.(((...-...))))).......)))))))).........))))............ ( -18.86)
>DroEre_CAF1 41673 89 + 1
AUGCCCCACAAAUUUAAUUGUAAAUACAUAAAUCGCUUUACGAGCGUUU-UUUCGCCGGUGUAAUUUUAUGUGCUCCACCUUGGGCCCCU--------
..((((.((((......))))...((((((((..((....((.(((...-...)))))..))...)))))))).........))))....-------- ( -19.50)
>DroYak_CAF1 45562 90 + 1
AUGCCCCACAAAUUUAAUUGUAAAUACAUAAAUCGCUUUACGAGCGUUUUUUUCGCUGCUAUAAUUUUAUGUGCUCCACCUUGGGCCCCU--------
..((((.((((......))))...(((((((((((.....)))(((.......))).........)))))))).........))))....-------- ( -16.80)
>consensus
AUGCCCCACAAAUUUAAUUGUAAAUACAUAAAUCGCUUUACGAGCGUUU_UUUCGCCGGUAUAAUUUUAUGUGCUCCACCUUGGGCCCCUUU_CU___
..((((.((((......))))...((((((((........((.(((.......))))).......)))))))).........))))............ (-17.86 = -17.70 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,056,231 – 22,056,326
Length 95
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 92.87
Mean single sequence MFE -21.01
Consensus MFE -20.04
Energy contribution -20.04
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.38
Structure conservation index 0.95
SVM decision value 1.32
SVM RNA-class probability 0.941388
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22056231 95 - 23771897
A--AGAAAGGGGGCCCAAGGUGGAGCACAUAAAAUUAUACCGGCGAAA-AAACGCUCGUAAAGCGAUUUAUGUAUUUACAAUUAAAUUUGUGGGGCAU
.--.........((((..........(((((((....(((.((((...-...)))).)))......)))))))...(((((......))))))))).. ( -21.30)
>DroSec_CAF1 41129 94 - 1
---AGGAAAGGGGCCCAAGGUGGAGCACAUAAAAUUAUACCGGCGAAA-AAACGCUCGUAAAGCGAUUUAUGUAUUUACAAUUAAAUUUGUGGGGCAU
---.........((((..........(((((((....(((.((((...-...)))).)))......)))))))...(((((......))))))))).. ( -21.30)
>DroSim_CAF1 47121 97 - 1
AACAGAAAGGGGGCCCAAGGUGGAGCACAUAAAAUUAUACCGGCGAAA-AAACGCUCGUAAAGCGAUUUAUGUAUUUACAAUUAAAUUUGUGGGGCAU
............((((..........(((((((....(((.((((...-...)))).)))......)))))))...(((((......))))))))).. ( -21.30)
>DroEre_CAF1 41673 89 - 1
--------AGGGGCCCAAGGUGGAGCACAUAAAAUUACACCGGCGAAA-AAACGCUCGUAAAGCGAUUUAUGUAUUUACAAUUAAAUUUGUGGGGCAU
--------....((((..((((...............))))((((...-...))))((((((....))))))....(((((......))))))))).. ( -20.96)
>DroYak_CAF1 45562 90 - 1
--------AGGGGCCCAAGGUGGAGCACAUAAAAUUAUAGCAGCGAAAAAAACGCUCGUAAAGCGAUUUAUGUAUUUACAAUUAAAUUUGUGGGGCAU
--------....((((..........(((((((.........(((.......)))(((.....))))))))))...(((((......))))))))).. ( -20.20)
>consensus
___AG_AAAGGGGCCCAAGGUGGAGCACAUAAAAUUAUACCGGCGAAA_AAACGCUCGUAAAGCGAUUUAUGUAUUUACAAUUAAAUUUGUGGGGCAU
............((((..........(((((((.........(((.......)))(((.....))))))))))...(((((......))))))))).. (-20.04 = -20.04 +  -0.00)

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 13:14:06 2006