Locus 4407

Sequence ID	2R_DroMel_CAF1
Location	14,487,864 – 14,488,003
Length	139
Max. P	0.969761

overview

Window 4

Location	14,487,864 – 14,487,965
Length	101
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	75.61
Mean single sequence MFE	-25.73
Consensus MFE	-13.11
Energy contribution	-14.70
Covariance contribution	1.59
Combinations/Pair	1.18
Mean z-score	-2.01
Structure conservation index	0.51
SVM decision value	0.82
SVM RNA-class probability	0.860085
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14487864 101 + 20766785
AAAAUUAACUGAGAUAUAGUGCGAUUUCUGG--CCCGAAAAUUGUGCUAUUUUACAGAACAGGCCACUGACCACCACAUAGACCGCAAGAGAAUACGGAUAAU
........(((.((.((((..(((((((...--...).))))))..)))).)).)))..(((....))).............(((..........)))..... ( -18.60)
>DroGri_CAF1 137853 100 + 1
AUAAAUAAUUACAUUAUUGUGAAAUAGAAGCAUACCGUUA---GUGACAAAUCGCUGGCCAUAGAAGUGGCCAGCGAAUGCGCUACAGCAGCAAGCGAGAAAU
........(((((....))))).............((((.---((......(((((((((((....))))))))))).(((......))))).))))...... ( -31.20)
>DroSec_CAF1 119710 101 + 1
AAAAUUAACAGAGAUAUAGUGCGAUUUCUGG--CCCGAAAAUUGUGCUAUAUCACGGGACAGGCCACUGACCACCACAUAGACCGCAAGGGAAUACGGAUAAU
............(((((((..(((((((...--...).))))))..))))))).((((.(((....))).))..........((....)).....))...... ( -27.60)
>DroSim_CAF1 120864 101 + 1
AAAAUUAACAGAGAUAUAGUGCGAUUUCUGG--CCCGAAAAUUGUGCUAUAUCACGGGACAGGCCACUGACCACCACAUAGACCGCAAGGGAAUACGGAUAAU
............(((((((..(((((((...--...).))))))..))))))).((((.(((....))).))..........((....)).....))...... ( -27.60)
>DroEre_CAF1 121377 101 + 1
CAAAAUAGCUAAUAUAUAGUGCGAAUUCUGA--CCCGAAAAUAGUGCUAUAUCACGGGGCAGGCCACUGACCACCAUAUAGACCGCAAGGGAAUACAGAUGAU
........(((..((((((..(...(((...--...)))....)..))))))...(((((((....))).)).))...))).((....))............. ( -22.70)
>DroYak_CAF1 123136 101 + 1
CUAAAUAGCAGCGAUAUAGUGCGAAUUCUGG--CCUGAAAAUAGUGCUAUAUCACGGGGCAGACCACUGACCACCAAAUAGACCGCAAGGGAAUACGGAUAAU
(((.......(.(((((((..(...(((...--...)))....)..))))))).)(((((((....))).)).))...))).((....))............. ( -26.70)
>consensus
AAAAAUAACAGAGAUAUAGUGCGAUUUCUGG__CCCGAAAAUUGUGCUAUAUCACGGGACAGGCCACUGACCACCACAUAGACCGCAAGGGAAUACGGAUAAU
............((((((((((..((((.(....).))))...))))))))))...((.(((....))).))..........((....))............. (-13.11 = -14.70 +   1.59)

alignment

secondary structure

dotplot

Window 5

Location	14,487,902 – 14,488,003
Length	101
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	77.18
Mean single sequence MFE	-34.99
Consensus MFE	-19.10
Energy contribution	-19.05
Covariance contribution	-0.05
Combinations/Pair	1.46
Mean z-score	-2.49
Structure conservation index	0.55
SVM decision value	1.65
SVM RNA-class probability	0.969761
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14487902 101 - 20766785
CCUCGUU--UUCCAGCGGCCUUUUCCGGGCUAGGGGACGCAUUAUCCGUAUUCUCUUGCGGUCUAUGUGGUGGUCAGUGGCCUGUUCUGUAAAAUAGCACAAU
((((((.--.....))(((((.....))))).)))).(((((...(((((......)))))...)))))..(((.....)))(((.((((...)))).))).. ( -28.40)
>DroGri_CAF1 137893 99 - 1
CGUCUUUUUUUCCAU-GGCAUUUAAUAUGUCAAUGUGCACAUUUCUCGCUUGCUGCUGUAGCGCAUUCGCUGGCCACUUCUAUGGCCAGCGAUUUGUCAC---
..............(-(((((.....))))))(((((((((......((.....))))).))))))((((((((((......))))))))))........--- ( -32.50)
>DroSec_CAF1 119748 101 - 1
CCUCGUU--UUCCAGCGGCCUUUUCCGGGACAGUGGCCGCAUUAUCCGUAUUCCCUUGCGGUCUAUGUGGUGGUCAGUGGCCUGUCCCGUGAUAUAGCACAAU
...(((.--.....)))((..(.(((((((((...(((((((...(((((......)))))...)))))))(((.....)))))))))).)).)..))..... ( -37.90)
>DroSim_CAF1 120902 101 - 1
CCUCGUU--UUCCAGCGGCCUUUUCCGGGACAGUGGCCGCAUUAUCCGUAUUCCCUUGCGGUCUAUGUGGUGGUCAGUGGCCUGUCCCGUGAUAUAGCACAAU
...(((.--.....)))((..(.(((((((((...(((((((...(((((......)))))...)))))))(((.....)))))))))).)).)..))..... ( -37.90)
>DroEre_CAF1 121415 101 - 1
CGUCGUU--UUGCAACGACCUUUUCCGGGCCAGUGGCCACAUCAUCUGUAUUCCCUUGCGGUCUAUAUGGUGGUCAGUGGCCUGCCCCGUGAUAUAGCACUAU
.((((((--....))))))......(((((((.(((((((.....(((((......)))))........))))))).)))))))....(((......)))... ( -38.02)
>DroYak_CAF1 123174 101 - 1
CGUCGUU--UUCCAACGGCCUUUUAUGGGCCAGUGGCCACAUUAUCCGUAUUCCCUUGCGGUCUAUUUGGUGGUCAGUGGUCUGCCCCGUGAUAUAGCACUAU
.((((((--....)))))).......((((((.(((((((.....(((((......)))))........))))))).)))))).....(((......)))... ( -35.22)
>consensus
CCUCGUU__UUCCAGCGGCCUUUUCCGGGCCAGUGGCCACAUUAUCCGUAUUCCCUUGCGGUCUAUGUGGUGGUCAGUGGCCUGUCCCGUGAUAUAGCACAAU
..(((((......))))).......((((.((.(((((((.....(((((......)))))........))))))).)).))))....(((......)))... (-19.10 = -19.05 +  -0.05)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:52 2006