Locus 885

Sequence ID	3L_DroMel_CAF1
Location	2,683,718 – 2,683,855
Length	137
Max. P	0.976292

overview

Window 8

Location	2,683,718 – 2,683,819
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	85.05
Mean single sequence MFE	-26.34
Consensus MFE	-18.08
Energy contribution	-18.72
Covariance contribution	0.64
Combinations/Pair	1.10
Mean z-score	-3.02
Structure conservation index	0.69
SVM decision value	1.73
SVM RNA-class probability	0.974497
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2683718 101 - 23771897
GCUAAUUGGCAGCAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACGAAGCAGAUAUGUUUCUAAAUUCAUAAAUUGUACCAUACAAUUUAAUAGCA
((((.(((((((((((.(((.....))).)))))))))))..........((((((....))))))........(((((((((...))))))))).)))). ( -33.60)
>DroSec_CAF1 44831 101 - 1
GCUAAUUGGCAGGAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACAAAGCAGAUCUGUUUCUAAAUUCAUAAAUUGUACCAUACAAUUCAAUACCA
(((....))).((((((((((....(((...((((....))))..)))...))))))))))...............(((((((...)))))))........ ( -22.20)
>DroSim_CAF1 43404 101 - 1
GCUAAUUGGCAGCAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACAAAGCAGAUCUGAUUCUAAAUUCAUAAAUUGUACCAUACAAUUCAAUACCA
(((...((((((((((.(((.....))).))))))))))))).............(((......))).........(((((((...)))))))........ ( -23.30)
>DroEre_CAF1 49682 101 - 1
GCAAAUUGGCAGCACAUGUUUGCUCGACCAGUGCUGCCAAGCUCAGCUACAAAGCAGAAUUGCUGCCUAAUUCAUAAAUUGUACCAUAAAAUCGCAAAGCA
((...((((((((((.((.((....)).))))))))))))((...(((....))).((((((.....))))))....................))...)). ( -28.10)
>DroYak_CAF1 45162 101 - 1
GCAAAUUGGCAUCACUUGUUUGCCCGACCAGUGCUGCCAAGCUAGGCUACAAAGCAGAUCUGUUUCCUAACUCAAAAUUUUAACCAUAAAAUUGCAAAGCA
((...((((((.((((.(((.....))).)))).))))))((((((..(((.........)))..))))......(((((((....)))))))))...)). ( -24.50)
>consensus
GCUAAUUGGCAGCAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACAAAGCAGAUCUGUUUCUAAAUUCAUAAAUUGUACCAUACAAUUCAAUAGCA
((...(((((((((((.(((.....))).))))))))))))).........(((((....))))).................................... (-18.08 = -18.72 +   0.64)

alignment

secondary structure

dotplot

Window 9

Location	2,683,744 – 2,683,855
Length	111
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	80.42
Mean single sequence MFE	-28.66
Consensus MFE	-17.38
Energy contribution	-19.42
Covariance contribution	2.04
Combinations/Pair	1.21
Mean z-score	-2.12
Structure conservation index	0.61
SVM decision value	0.82
SVM RNA-class probability	0.859276
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2683744 111 + 23771897
AUGAAUUUAGAAACAUAUCUGCUUCGUGACAUUGCUUGGCAGCACUGGUCGAGCAAACAAAUGCUGCCAAUUAGCAAGGACAUUUUUCAAAUGUUACUGUAAAAGAAAGAA
..(((..((((......)))).)))(((((((((((((((((((...((.......))...))))))))...)))..(((.....))).)))))))).............. ( -25.60)
>DroSec_CAF1 44857 111 + 1
AUGAAUUUAGAAACAGAUCUGCUUUGUGACAUUGCUUGGCAGCACUGGUCGAGCAAACAAAUCCUGCCAAUUAGCAAGGACAUUUUUCAAAUGUUACUGUAGAAGAAAGAA
.................(((((...(((((((((((((((.......))))))).......((((((......)).)))).........)))))))).)))))........ ( -28.80)
>DroSim_CAF1 43430 111 + 1
AUGAAUUUAGAAUCAGAUCUGCUUUGUGACAUUGCUUGGCAGCACUGGUCGAGCAAACAAAUGCUGCCAAUUAGCAAGGACUUUAUUCAAAUGUUACUGUAGAAUAAAGAA
.................(((((...(((((((((((((((((((...((.......))...))))))))...)))..(((.....))).)))))))).)))))........ ( -29.60)
>DroEre_CAF1 49708 101 + 1
AUGAAUUAGGCAGCAAUUCUGCUUUGUAGCUGAGCUUGGCAGCACUGGUCGAGCAAACAUGUGCUGCCAAUUUGCAAGGAAAUCAACCAAAUCUUGUUGUA----------
..(((((.(((((((..((.(((....))).))(((((((.......))))))).......))))))))))))((((((............))))))....---------- ( -30.00)
>DroYak_CAF1 45188 109 + 1
UUGAGUUAGGAAACAGAUCUGCUUUGUAGCCUAGCUUGGCAGCACUGGUCGGGCAAACAAGUGAUGCCAAUUUGCAAGGAAAUCAAUCAAAUCUUGCUAAAGGACA--UAA
..((((((((..(((((.....)))))..))))))))((((.((((.((.......)).)))).)))).....((((((............)))))).........--... ( -29.30)
>consensus
AUGAAUUUAGAAACAGAUCUGCUUUGUGACAUUGCUUGGCAGCACUGGUCGAGCAAACAAAUGCUGCCAAUUAGCAAGGACAUUAUUCAAAUGUUACUGUAGAAGAAAGAA
.................(((((...(((((((((((((((((((...((.......))...)))))))))...))..(((.....))).)))))))).)))))........ (-17.38 = -19.42 +   2.04)

alignment

secondary structure

dotplot

Window 0

Location	2,683,744 – 2,683,855
Length	111
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	80.42
Mean single sequence MFE	-27.58
Consensus MFE	-19.48
Energy contribution	-19.28
Covariance contribution	-0.20
Combinations/Pair	1.22
Mean z-score	-2.41
Structure conservation index	0.71
SVM decision value	1.77
SVM RNA-class probability	0.976292
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2683744 111 - 23771897
UUCUUUCUUUUACAGUAACAUUUGAAAAAUGUCCUUGCUAAUUGGCAGCAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACGAAGCAGAUAUGUUUCUAAAUUCAU
......................((((...((.(.(((((...((((((((((.(((.....))).))))))))))))))).).)).((((((....))))))....)))). ( -30.90)
>DroSec_CAF1 44857 111 - 1
UUCUUUCUUCUACAGUAACAUUUGAAAAAUGUCCUUGCUAAUUGGCAGGAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACAAAGCAGAUCUGUUUCUAAAUUCAU
...........((((....(((((.....((.(.(((((...((((((.(((.(((.....))).))).))))))))))).).)).....)))))))))............ ( -24.00)
>DroSim_CAF1 43430 111 - 1
UUCUUUAUUCUACAGUAACAUUUGAAUAAAGUCCUUGCUAAUUGGCAGCAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACAAAGCAGAUCUGAUUCUAAAUUCAU
..((((((((.............))))))))...(((((...((((((((((.(((.....))).)))))))))))))))...........(((......)))........ ( -28.12)
>DroEre_CAF1 49708 101 - 1
----------UACAACAAGAUUUGGUUGAUUUCCUUGCAAAUUGGCAGCACAUGUUUGCUCGACCAGUGCUGCCAAGCUCAGCUACAAAGCAGAAUUGCUGCCUAAUUCAU
----------............(((((((.......((...((((((((((.((.((....)).)))))))))))))))))))))....((((.....))))......... ( -27.61)
>DroYak_CAF1 45188 109 - 1
UUA--UGUCCUUUAGCAAGAUUUGAUUGAUUUCCUUGCAAAUUGGCAUCACUUGUUUGCCCGACCAGUGCUGCCAAGCUAGGCUACAAAGCAGAUCUGUUUCCUAACUCAA
...--.((.....((((.((((((........(((.((...((((((.((((.(((.....))).)))).)))))))).)))........)))))))))).....)).... ( -27.29)
>consensus
UUCUUUCUUCUACAGUAACAUUUGAAUAAUGUCCUUGCUAAUUGGCAGCAUUUGUUUGCUCGACCAGUGCUGCCAAGCAAUGUCACAAAGCAGAUCUGUUUCUAAAUUCAU
............(((..(((((.....)))))..)))....(((((((((((.(((.....))).)))))))))))...........(((((....))))).......... (-19.48 = -19.28 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:34 2006