Locus 6783

Sequence ID 3L_DroMel_CAF1
Location 18,221,947 – 18,222,058
Length 111
Max. P 0.876646
window11020 window11021

overview

Window 0

Location 18,221,947 – 18,222,058
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.18
Mean single sequence MFE -30.10
Consensus MFE -18.97
Energy contribution -18.83
Covariance contribution -0.14
Combinations/Pair 1.19
Mean z-score -1.41
Structure conservation index 0.63
SVM decision value 0.18
SVM RNA-class probability 0.622508
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18221947 111 + 23771897
GA----GCAA---AGUGAGCAUUUUGCGCGAAAUUGCAUUGCAGAGUUGAACAAUGAUUUAUGUGGCAGCCGGCCGCACCUACAUUUAUGCCAC-CGAGUGGCCAUAAAUCACACCAAA-
..----((((---(((....))))))).(((..((((...))))..))).....(((((((((((((.....)))))............(((((-...))))).)))))))).......- ( -29.90)
>DroVir_CAF1 26149 109 + 1
GGUAUCGAGUUACAGCAACGCUUUUCUGCA---ACGCGUUGCA-ACUUGGACGAUGAUUUAUGUG-----CGGCCGCACCUACAUUUAUGCCAU-AAAGUGGCCAUAAAUCACACCAGG-
(((.(((((((...(((((((.........---..))))))))-))))))..(.(((((((((((-----(....))))..........(((((-...))))).))))))))))))...- ( -34.40)
>DroPse_CAF1 6247 112 + 1
AGCCUCGAAU---GGCGAAAAUUUUGUGCA--AUUGCAA---AGCGUUGAACAAUGAUUUAUGUGGCAGCAGGCCGCACCUACAUUUAUGCCAUGCAAGUGGCCAUAAAUCACACCAAAA
.(((......---))).......((((.((--((.((..---.)))))).))))(((((((((((((.....)))))............(((((....))))).))))))))........ ( -29.60)
>DroEre_CAF1 4499 111 + 1
GA----GCAA---AGUGAGCAUUUUGCGCGAAUGUGCACUGCAGAGUUGAACAAUGAUUUAUGUGGCAGCUGGCCGCACCUACAUUUAUGCCAC-CGACCGGCCAUAAAUCACACCAAA-
..----....---.(((.(((...(((((....))))).)))............(((((((((((((.....)))))............(((..-.....))).)))))))))))....- ( -27.70)
>DroAna_CAF1 10087 111 + 1
GG----GAAA---AGUGAACAUUUUGCGCAAAAUUGCACUGCUGAGCUGAACAAUGAUUUAUGUGGCAGCAGGCCGCACCUACAUUUAUGCCAC-CGAGUGGCCAUAAAUCACACCAAA-
((----....---.((((......((((((....))).((((((.((((((......)))).))..))))))...)))......((((((((((-...)))).)))))))))).))...- ( -29.40)
>DroPer_CAF1 6105 112 + 1
AGCCUCGAAU---GGCGAAAAUUUUGUGCA--AUUGCAA---AGCGUUGAACAAUGAUUUAUGUGGCAGCAGGCCGCACCUACAUUUAUGCCAUGCAAGUGGCCAUAAAUCACACCAAAA
.(((......---))).......((((.((--((.((..---.)))))).))))(((((((((((((.....)))))............(((((....))))).))))))))........ ( -29.60)
>consensus
GG____GAAA___AGCGAACAUUUUGCGCA__AUUGCAAUGCAGAGUUGAACAAUGAUUUAUGUGGCAGCAGGCCGCACCUACAUUUAUGCCAC_CAAGUGGCCAUAAAUCACACCAAA_
..............(((.........))).........................(((((((((((((.....)))))............(((((....))))).))))))))........ (-18.97 = -18.83 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,221,947 – 18,222,058
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.18
Mean single sequence MFE -33.68
Consensus MFE -21.94
Energy contribution -22.05
Covariance contribution 0.11
Combinations/Pair 1.13
Mean z-score -1.78
Structure conservation index 0.65
SVM decision value 0.90
SVM RNA-class probability 0.876646
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18221947 111 - 23771897
-UUUGGUGUGAUUUAUGGCCACUCG-GUGGCAUAAAUGUAGGUGCGGCCGGCUGCCACAUAAAUCAUUGUUCAACUCUGCAAUGCAAUUUCGCGCAAAAUGCUCACU---UUGC----UC
-.((((.(((((((((((.((..((-((.((((........)))).))))..)).).))))))))))...))))....((((.((......))((.....)).....---))))----.. ( -33.10)
>DroVir_CAF1 26149 109 - 1
-CCUGGUGUGAUUUAUGGCCACUUU-AUGGCAUAAAUGUAGGUGCGGCCG-----CACAUAAAUCAUCGUCCAAGU-UGCAACGCGU---UGCAGAAAAGCGUUGCUGUAACUCGAUACC
-..(((.((((((((((((((....-.)))).....(((.((.....)))-----))))))))))))...)))(((-((((..(((.---(((......))).))))))))))....... ( -32.40)
>DroPse_CAF1 6247 112 - 1
UUUUGGUGUGAUUUAUGGCCACUUGCAUGGCAUAAAUGUAGGUGCGGCCUGCUGCCACAUAAAUCAUUGUUCAACGCU---UUGCAAU--UGCACAAAAUUUUCGCC---AUUCGAGGCU
..((((.((((((((((((.((((((((.......))))))))))(((.....))).))))))))))...)))).(((---(((.(((--.((...........)).---))))))))). ( -35.00)
>DroEre_CAF1 4499 111 - 1
-UUUGGUGUGAUUUAUGGCCGGUCG-GUGGCAUAAAUGUAGGUGCGGCCAGCUGCCACAUAAAUCAUUGUUCAACUCUGCAGUGCACAUUCGCGCAAAAUGCUCACU---UUGC----UC
-.((((.(((((((((((.((((.(-((.((((........)))).))).)))).).))))))))))...))))....(((.(((.(....).)))...))).....---....----.. ( -34.60)
>DroAna_CAF1 10087 111 - 1
-UUUGGUGUGAUUUAUGGCCACUCG-GUGGCAUAAAUGUAGGUGCGGCCUGCUGCCACAUAAAUCAUUGUUCAGCUCAGCAGUGCAAUUUUGCGCAAAAUGUUCACU---UUUC----CC
-.((((.(((((((((((((....)-))((((.....(((((.....))))))))).))))))))))...)))).......(((((....)))))............---....----.. ( -32.00)
>DroPer_CAF1 6105 112 - 1
UUUUGGUGUGAUUUAUGGCCACUUGCAUGGCAUAAAUGUAGGUGCGGCCUGCUGCCACAUAAAUCAUUGUUCAACGCU---UUGCAAU--UGCACAAAAUUUUCGCC---AUUCGAGGCU
..((((.((((((((((((.((((((((.......))))))))))(((.....))).))))))))))...)))).(((---(((.(((--.((...........)).---))))))))). ( -35.00)
>consensus
_UUUGGUGUGAUUUAUGGCCACUCG_AUGGCAUAAAUGUAGGUGCGGCCUGCUGCCACAUAAAUCAUUGUUCAACUCUGCAAUGCAAU__UGCACAAAAUGUUCACU___AUUC____CC
..((((.((((((((((((((......))))..............(((.....))).))))))))))...)))).........((......))........................... (-21.94 = -22.05 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:51 2006