Locus 6513

Sequence ID 3L_DroMel_CAF1
Location 17,268,239 – 17,268,426
Length 187
Max. P 0.932934
window10548 window10549

overview

Window 8

Location 17,268,239 – 17,268,351
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.23
Mean single sequence MFE -41.34
Consensus MFE -31.32
Energy contribution -31.56
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.68
Structure conservation index 0.76
SVM decision value -0.02
SVM RNA-class probability 0.523788
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17268239 112 + 23771897
UUCCCUUGCAAUUUUUGUACGCUUUGGCUUUUCUCGCAUUCAUUACGUGAGCUGUGUGGCUGAUGGCCGCAUUGAAUGGCCAU--------GGGGCGUGGCACCGCCCCUUGUGCCAUUA
......((((.....)))).((....))....(((((.........)))))(.(((((((.....))))))).)((((((((.--------((((((......)))))).)).)))))). ( -39.30)
>DroSec_CAF1 151662 112 + 1
UUCCCUUGCAAUUUUUGUACGCUUUGGCUUUUCUCGCAUUCAUUACGUGAGCUGUGUGGCUGAUGGCGGCAUUGAAUGGCCAG--------GGGGCGUGGCACCGCACCAUGUGCCAUUA
.(((((.((.((((.(((.(((((..(((.....(((((((((...))))).)))).)))..).)))))))..)))).)).))--------)))..(((((((........))))))).. ( -38.70)
>DroSim_CAF1 146713 112 + 1
UUCCCUUGCAAUUUUUGUACGUUUUGGCUUUUCUCGCAUUCAUUACGUGAGCUGUGUGGCUGAUGGCGGCAUUGAAUGGCCAG--------GGGGCGUGGCACCGCCCCAUGUGCCAUUA
...............(((.(((((..(((.....(((((((((...))))).)))).)))..).)))))))...((((((((.--------((((((......)))))).)).)))))). ( -37.60)
>DroEre_CAF1 154657 111 + 1
AUCCCCUGCAAUUUUUGUACGCUUUGGCUUUUCUCGCAUUCAUUACGUGAGCUGUGUGGCUGAUGGCGGCAU-GAAUGGGCAG--------GGGGCGUGGCACCGCCCCACGUGCCAUUA
.((((((((.((((.(((.(((((..(((.....(((((((((...))))).)))).)))..).))))))).-))))..))))--------)))).(((((((........))))))).. ( -46.00)
>DroYak_CAF1 159319 120 + 1
AUCCCUUGCAAUUUUUGUACGCUUUGGCUUUUCUCGCAUUCAUUACGUGAGCUGGGUGGCUGAUGGCGGCAUUGAAUGGCCAGGAGGCGAGGGGGCGUGGCACCGCCCCAUGUGCCAUUA
...(((.((.((((.(((.(((((..(((...(((((..((((...)))))).))).)))..).)))))))..)))).)).))).((((..((((((......))))))...)))).... ( -45.10)
>consensus
UUCCCUUGCAAUUUUUGUACGCUUUGGCUUUUCUCGCAUUCAUUACGUGAGCUGUGUGGCUGAUGGCGGCAUUGAAUGGCCAG________GGGGCGUGGCACCGCCCCAUGUGCCAUUA
................(((((...(((((.(((..((........(((.((((....)))).)))...))...))).))))).........((((((......)))))).)))))..... (-31.32 = -31.56 +   0.24)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,268,319 – 17,268,426
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.72
Mean single sequence MFE -43.50
Consensus MFE -35.58
Energy contribution -36.26
Covariance contribution 0.68
Combinations/Pair 1.03
Mean z-score -1.87
Structure conservation index 0.82
SVM decision value 1.22
SVM RNA-class probability 0.932934
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17268319 107 - 23771897
AAAACAACGAGGACUAAAUGAAAUGCUCCUUG-----GAGUCGGGGAUGUGCCACCGCAGAAGGGGAGCUCAUGCUGGGCUAAUGGCACAAGGGGCGGUGCCACGCCCC--------AUG
...((..(((((((..........).))))))-----..))......(((((((((.(....).))(((((.....)))))..))))))).((((((......))))))--------... ( -41.30)
>DroSec_CAF1 151742 107 - 1
AAAACAACGAGGGCUAAAUGAAAUGCUCCUUG-----GAGUCGGGUAUGUGCCACCGCAGAAGGGGAGCUCAUGCUGGGCUAAUGGCACAUGGUGCGGUGCCACGCCCC--------CUG
...((..(((((((..........)).)))))-----..)).(((.((((((((((.(....).))(((((.....)))))..))))))))((((.(....).))))))--------).. ( -39.80)
>DroSim_CAF1 146793 107 - 1
AAAACAACGAGGGCUAAAUGAAAUGCUCCUUG-----GAGUCGGGUAUGUGCCACCGCAGAAGGGGAGCUCAUGCUGGGCUAAUGGCACAUGGGGCGGUGCCACGCCCC--------CUG
...((..(((((((..........)).)))))-----..))(((((((((((((((.(....).))(((((.....)))))..)))))))))(((((......))))))--------))) ( -44.20)
>DroEre_CAF1 154736 105 - 1
-AAACAACGAGGGCUAAAUGAAAUGCUCCUUG-----GAGUCGGGCAUGUGCCACCACAGAAG-GGAGCUCAUGCUGGGCUAAUGGCACGUGGGGCGGUGCCACGCCCC--------CUG
-..((..(((((((..........)).)))))-----..))(((((((((((((((......)-).(((((.....)))))..)))))))))(((((......))))))--------))) ( -44.40)
>DroYak_CAF1 159399 119 - 1
-AAACAACGAGGGCUAAAUGAAAUGCUCCUUGGCUUCGAGUCGGGGAAGUGCCACCACAGACGGGGAGCUCAUGCUGGGCUAAUGGCACAUGGGGCGGUGCCACGCCCCCUCGCCUCCUG
-......(((((((..........)).))))).....(((.((((...((((((((......))..(((((.....)))))..))))))..((((((......)))))))))).)))... ( -47.80)
>consensus
AAAACAACGAGGGCUAAAUGAAAUGCUCCUUG_____GAGUCGGGGAUGUGCCACCGCAGAAGGGGAGCUCAUGCUGGGCUAAUGGCACAUGGGGCGGUGCCACGCCCC________CUG
.......(((((((..........)).)))))..............((((((((((.(....).))(((((.....)))))..))))))))((((((......))))))........... (-35.58 = -36.26 +   0.68)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:16 2006