Locus 8075

Sequence ID 3R_DroMel_CAF1
Location 21,685,250 – 21,685,340
Length 90
Max. P 0.711214
window13000 window13001

overview

Window 0

Location 21,685,250 – 21,685,340
Length 90
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 73.26
Mean single sequence MFE -17.65
Consensus MFE -5.06
Energy contribution -5.39
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.18
Structure conservation index 0.29
SVM decision value 0.04
SVM RNA-class probability 0.554467
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21685250 90 + 27905053
CCUCCCAUGGUUAAAGCCAUAAAACAUGCGU--GUGCAGGCAUCGGGUGUGCUACAUAC--ACACAUAUGCAACAGCUAGGAAAAAAAGGAAUC
..(((.(((((....))))).......((.(--((....((((...(((((.......)--))))..)))).)))))..)))............ ( -20.90)
>DroSec_CAF1 8330 74 + 1
CCUCCCAUGGUUAAAGCCAUAAAACAUG--U--GUGCAGGC--------------AUAC--ACACAUAUGCAACAGCUAGGAAAAAAAGGAAUC
..(((.(((((....))))).....(((--(--(((.....--------------...)--))))))..((....))..)))............ ( -14.90)
>DroSim_CAF1 8730 74 + 1
CCUCCCAUGGUUAAAGCCAUAAAACAUG--U--GUGCAGGC--------------AUAC--ACACAUAUGCAACAGCUAGGAAAAAAAGGAAUC
..(((.(((((....))))).....(((--(--(((.....--------------...)--))))))..((....))..)))............ ( -14.90)
>DroEre_CAF1 9090 85 + 1
UCU-CCAUGGUUAAAGCCAUAAAACAUG--UGUGUGCAGGCAUCGCAUGUGGCACAU----ACACAUAUGCAACAGCUAGGAA--AACCGAAUC
..(-(((((((....)))))......((--(((((((..((((...)))).))))))----))).....((....))..))).--......... ( -22.70)
>DroAna_CAF1 10131 81 + 1
GCCCCCAUGGUUAAAGCCAUAAAGCGUG--U----GCAUGU-----GUAUAAAAAAUACGUAUACAUAUGCAACAAAUAGGGAAAAA--UAAAC
...((((((((....))))).....((.--(----((((((-----(((((.........)))))))))))))).....))).....--..... ( -24.10)
>DroPer_CAF1 74540 69 + 1
UCCCCCCUGGUUAAGGCCAUAAAACAUA--------CAUGG--------------AUAC--ACACGAAUGCAACAGCUAGGAAA-AAAGUAAAC
.....(((((((..(.((((........--------.))))--------------...)--....(....)...)))))))...-......... (  -8.40)
>consensus
CCUCCCAUGGUUAAAGCCAUAAAACAUG__U__GUGCAGGC______________AUAC__ACACAUAUGCAACAGCUAGGAAAAAAAGGAAUC
....(((((((....)))))...............(((..............................)))........))............. ( -5.06 =  -5.39 +   0.33)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,685,250 – 21,685,340
Length 90
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 73.26
Mean single sequence MFE -21.51
Consensus MFE -6.68
Energy contribution -6.68
Covariance contribution 0.00
Combinations/Pair 1.27
Mean z-score -2.23
Structure conservation index 0.31
SVM decision value 0.38
SVM RNA-class probability 0.711214
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21685250 90 - 27905053
GAUUCCUUUUUUUCCUAGCUGUUGCAUAUGUGU--GUAUGUAGCACACCCGAUGCCUGCAC--ACGCAUGUUUUAUGGCUUUAACCAUGGGAGG
..(((((.........((((((.((((.(((((--(((.(((.(......).))).)))))--))).))))...))))))........))))). ( -26.33)
>DroSec_CAF1 8330 74 - 1
GAUUCCUUUUUUUCCUAGCUGUUGCAUAUGUGU--GUAU--------------GCCUGCAC--A--CAUGUUUUAUGGCUUUAACCAUGGGAGG
..(((((.........((((((...((((((((--(((.--------------...)))))--)--)))))...))))))........))))). ( -23.83)
>DroSim_CAF1 8730 74 - 1
GAUUCCUUUUUUUCCUAGCUGUUGCAUAUGUGU--GUAU--------------GCCUGCAC--A--CAUGUUUUAUGGCUUUAACCAUGGGAGG
..(((((.........((((((...((((((((--(((.--------------...)))))--)--)))))...))))))........))))). ( -23.83)
>DroEre_CAF1 9090 85 - 1
GAUUCGGUU--UUCCUAGCUGUUGCAUAUGUGU----AUGUGCCACAUGCGAUGCCUGCACACA--CAUGUUUUAUGGCUUUAACCAUGG-AGA
.....((((--.....((((((...((((((((----..((((..(((...)))...)))))))--)))))...))))))..))))....-... ( -21.90)
>DroAna_CAF1 10131 81 - 1
GUUUA--UUUUUCCCUAUUUGUUGCAUAUGUAUACGUAUUUUUUAUAC-----ACAUGC----A--CACGCUUUAUGGCUUUAACCAUGGGGGC
.....--....(((((((..(((((((.((((((.........)))))-----).))))----)--.))(((....))).......))))))). ( -19.80)
>DroPer_CAF1 74540 69 - 1
GUUUACUUU-UUUCCUAGCUGUUGCAUUCGUGU--GUAU--------------CCAUG--------UAUGUUUUAUGGCCUUAACCAGGGGGGA
.......((-(..(((.(((((.((((.((((.--....--------------.))))--------.))))...))))).......)))..))) ( -13.40)
>consensus
GAUUCCUUUUUUUCCUAGCUGUUGCAUAUGUGU__GUAU______________GCCUGCAC__A__CAUGUUUUAUGGCUUUAACCAUGGGAGG
...........((((((((....))..................................................(((......))))))))). ( -6.68 =  -6.68 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:00 2006