Locus 7599

Sequence ID X_DroMel_CAF1
Location 18,949,860 – 18,949,991
Length 131
Max. P 0.993275
window12469 window12470

overview

Window 9

Location 18,949,860 – 18,949,967
Length 107
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 78.49
Mean single sequence MFE -29.56
Consensus MFE -10.00
Energy contribution -9.80
Covariance contribution -0.20
Combinations/Pair 1.29
Mean z-score -1.92
Structure conservation index 0.34
SVM decision value 0.02
SVM RNA-class probability 0.542083
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18949860 107 - 22224390
CCGCUCACAAAGGACACGGCGACGG-----------GUUGUCCAUUGGACACCUAAAACAAAGGCAAAAGCCCUCUCUUUAAUUUUCCUUUUUUGUCUGUCACAGCAUUUAAUUAAAC
..(((.......((((.(((((.((-----------((.((((...))))))))........(((....)))....................)))))))))..)))............ ( -22.50)
>DroSec_CAF1 18090 105 - 1
CCGGUCACAAAGGACACGGCGACGG-----------GUUGUCCAUUGGACACCCGAAACAACGG--AAAAGCCACUCUUUAAUUUCCCUCUUUUGUCUGUCACAGCAUUUAAUUAAAC
............((((.((((((((-----------((.((((...))))))))).......((--(((.............))))).....)))))))))................. ( -24.42)
>DroSim_CAF1 6600 103 - 1
CCGGUCACAAA-GACACGGCGACGG-----------GUUGUCCAUUGGACACCCGAAACAAGGG--AAAAGCCACUCUUUA-UUUCCCUUUUUUGUCUGUCACAGCAUUUAAUUAAAC
...........-((((.((((((((-----------((.((((...)))))))))....(((((--(((............-))))))))..)))))))))................. ( -29.80)
>DroEre_CAF1 18887 116 - 1
CCGGUUGCAAGGAAAACGGCGACGGGGUGUCCUUGGGUUGUCCACGGGACACCUGCAGCAGGCA--AAAAGCCCGUCUUUAAUUUCCCUUUGUUGCCCCUUGCAGCAUUUAAUUAAAC
...(((((((((.....(((((((((((((((((((.....))).)))))))))...((.(((.--....))).))..............))))))))))))))))............ ( -46.30)
>DroYak_CAF1 8528 100 - 1
-----GACAAAGGACACGGCGACGG-----------GUCGUUCAUUGGACACCUGAAGCAAGCG--AAAAGCCACUCUUUAAUUUAAGUUUUUCGUCUGCCACAGCAUUCAAUUAAAC
-----....((.(((.((....)).-----------))).)).((((((...(((..(((..((--((((((...............))))))))..)))..)))..))))))..... ( -24.76)
>consensus
CCGGUCACAAAGGACACGGCGACGG___________GUUGUCCAUUGGACACCUGAAACAAGGG__AAAAGCCACUCUUUAAUUUCCCUUUUUUGUCUGUCACAGCAUUUAAUUAAAC
......((((((((..((....))...............((((...))))......................................))))))))...................... (-10.00 =  -9.80 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,949,898 – 18,949,991
Length 93
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 74.95
Mean single sequence MFE -31.96
Consensus MFE -11.82
Energy contribution -12.14
Covariance contribution 0.32
Combinations/Pair 1.28
Mean z-score -2.51
Structure conservation index 0.37
SVM decision value 2.39
SVM RNA-class probability 0.993275
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18949898 93 - 22224390
UUGUUUUUGCCCGCUUUAAGUUGGCCGCUCACAAAGGACACGGCGACGG-----------GUUGUCCAUUGGACACCUAAAACAAAGGCAAAAGCCCUCUCUUU
..(((((((((........((((.(((.((......))..)))))))((-----------((.((((...))))))))........)))))))))......... ( -27.90)
>DroSec_CAF1 18128 91 - 1
UUGUUUUUCCCCGCUUUAAGUUGCCCGGUCACAAAGGACACGGCGACGG-----------GUUGUCCAUUGGACACCCGAAACAACGG--AAAAGCCACUCUUU
..((((((((.........((((((..(((......)))..))))))((-----------((.((((...))))))))........))--))))))........ ( -32.70)
>DroSim_CAF1 6637 90 - 1
UUGUUUUUCCCCGCUUUAAGUUGCCCGGUCACAAA-GACACGGCGACGG-----------GUUGUCCAUUGGACACCCGAAACAAGGG--AAAAGCCACUCUUU
..(((((((((........((((((..(((.....-)))..))))))((-----------((.((((...)))))))).......)))--))))))........ ( -35.80)
>DroEre_CAF1 18925 102 - 1
UUGCUUUUCGCCGCUUUAAGUCGGCCGGUUGCAAGGAAAACGGCGACGGGGUGUCCUUGGGUUGUCCACGGGACACCUGCAGCAGGCA--AAAAGCCCGUCUUU
..((((((.((((((....((((.(((.............))))))).((((((((((((.....))).)))))))))..))).))).--))))))........ ( -41.92)
>DroYak_CAF1 8566 78 - 1
UUGCUUUUUUCCA----AAG---------GACAAAGGACACGGCGACGG-----------GUCGUUCAUUGGACACCUGAAGCAAGCG--AAAAGCCACUCUUU
(((((((..((((----(.(---------(((....(((.((....)).-----------))))))).))))).....)))))))((.--....))........ ( -21.50)
>consensus
UUGUUUUUCCCCGCUUUAAGUUGCCCGGUCACAAAGGACACGGCGACGG___________GUUGUCCAUUGGACACCUGAAACAAGGG__AAAAGCCACUCUUU
(((((((............((((.(((.............)))))))................((((...))))....)))))))................... (-11.82 = -12.14 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:58 2006