Locus 1207

Sequence ID 2L_DroMel_CAF1
Location 3,244,140 – 3,244,336
Length 196
Max. P 0.999514
window1969 window1970

overview

Window 9

Location 3,244,140 – 3,244,256
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.26
Mean single sequence MFE -46.92
Consensus MFE -41.84
Energy contribution -42.44
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.75
Structure conservation index 0.89
SVM decision value 3.67
SVM RNA-class probability 0.999514
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3244140 116 + 22407834
CUUAAACCGUUCAGGAAACAAGCUGUAAAUCGCUGGCAAGCGGGCCGUGUAAUAAAUGCGCCGGCAUACGCUGCGGCU-CAGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG---UG
......((((((.(....).(((((((..(((((....)))))((((((((.....)))).))))......)))))))-(((((((..((....))..)))))))..))))))..---.. ( -46.10)
>DroSec_CAF1 78198 116 + 1
CUUAAACCGUUCAGGAAACAAGCUGUAAAUCGCUGGCAAGCGGGCCGUGUAAUAAAUGCGGCGGCAUACGCUGCGGCC-CAGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG---UG
......((((((.(....)..(((((...(((((....)))))(((((((.....)))))))(((....))))))))(-(((((((..((....))..)))))))).))))))..---.. ( -49.10)
>DroSim_CAF1 81340 116 + 1
CUUAAACCGUUCAGGAAACAAGCUGUAAAUCGCUGGCAAGCGGGCCGUGUAAUAAAUGCGGCGGCAUACGCUGCGGCC-CAGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG---UG
......((((((.(....)..(((((...(((((....)))))(((((((.....)))))))(((....))))))))(-(((((((..((....))..)))))))).))))))..---.. ( -49.10)
>DroEre_CAF1 75131 116 + 1
CUUAAACCGCUCAGGAAACAAGCUGUAAAUCGCUGGCAAGCGGGCCGUGUAAUAAAUGCGGCGGCAUACGCUGCGGCC-CAGGUGGAAAUCCGGAUUACCACCUGGAGAACGGGG---UG
......(((((..(....)..(((((.....)).))).)))))(((.(((.......((.(((((....))))).))(-(((((((.(((....))).))))))))...))).))---). ( -47.20)
>DroYak_CAF1 74249 120 + 1
CUUAAACCGUUCAGGAAACAAGCUGUAAAUCGCUGGCAAGCGGGCCGUGUAAUAAAUGCGGCGGCAUACGCUGCGGCCCCACGUGGAAAUCCGGAUACCCACCUGGAUAACGGGGGACUG
......((((...(....).(((.(((..(((((....)))))(((((((.....)))))))....))))))))))((((.(((....((((((........)))))).))))))).... ( -43.10)
>consensus
CUUAAACCGUUCAGGAAACAAGCUGUAAAUCGCUGGCAAGCGGGCCGUGUAAUAAAUGCGGCGGCAUACGCUGCGGCC_CAGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG___UG
......((((((.(....)..((((((..(((((....)))))((((((((.....)))).))))......))))))..(((((((..((....))..)))))))..))))))....... (-41.84 = -42.44 +   0.60)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,244,219 – 3,244,336
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.43
Mean single sequence MFE -40.74
Consensus MFE -35.14
Energy contribution -35.30
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.69
Structure conservation index 0.86
SVM decision value 1.24
SVM RNA-class probability 0.935160
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3244219 117 + 22407834
AGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG---UGCUGCGUAACGAGCUAUGCUGAUUUUUGCGGCUUUAAGUAGGAGCCGUAAAGUUGAUGCGGCCAAAGCCAGCACAGAUAUU
((((((..((....))..))))))..........(---(((((((((((.(((...)))....(((((((((((.....)))))))))))))).))))(((....))))))))....... ( -39.50)
>DroSec_CAF1 78277 117 + 1
AGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG---UGCUGCGUAACGAGCUAUGCUGAUUUUUGCGGCUUUAAGUGGGAGCCGUAAAGUUGAUGCGGCCAAAGCCGGCACAGAUAUU
((((((..((....))..))))))..........(---(((((((((((.(((...)))....(((((((((((.....)))))))))))))).))))(((....))))))))....... ( -39.60)
>DroSim_CAF1 81419 117 + 1
AGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG---UGCUGCGUAACGAGCUAUGCUGAUUUUUGCGGCUUUAAGUAGGAGCCGUAAAGUUGAUGCGACCAAAGCCGGCACAGAUAUU
..(((.....((((.....(((((.(....).)))---)).((((((((.(((...)))....(((((((((((.....)))))))))))))).))))).......)))))))....... ( -34.60)
>DroEre_CAF1 75210 117 + 1
AGGUGGAAAUCCGGAUUACCACCUGGAGAACGGGG---UGCCGCGCAACGAGCUAUGCUGAUUUUUGCGGCUUUAAGUAGGAGCCGUAAAGUUGAUGCGGCCAAAGCCCGCACAGAUAUU
((((((.(((....))).))))))......((((.---(((((((((((.(((...)))....(((((((((((.....))))))))))))))).))))))...).)))).......... ( -46.10)
>DroYak_CAF1 74329 120 + 1
ACGUGGAAAUCCGGAUACCCACCUGGAUAACGGGGGACUGCCGCGUAACGAGCUAUGCUGAUUUUUGCGGCUUUAAGUAGGAGCCGUAAAGUUGAUGCGGCCAAAGCCAGCACAGAUAUU
((((((...(((((....)).((((.....)))))))...)))))).....(((..((....((((((((((((.....)))))))))))).....))(((....))))))......... ( -43.90)
>consensus
AGGUGGAAAUCCGGAUACCCACCUGGAGAACGGGG___UGCUGCGUAACGAGCUAUGCUGAUUUUUGCGGCUUUAAGUAGGAGCCGUAAAGUUGAUGCGGCCAAAGCCAGCACAGAUAUU
..(((....(((((........))))).....((.....((((((((((.(((...)))....(((((((((((.....)))))))))))))).))))))).....))..)))....... (-35.14 = -35.30 +   0.16)

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 09:56:31 2006