Locus 6694

Sequence ID	3R_DroMel_CAF1
Location	17,613,487 – 17,613,589
Length	102
Max. P	0.961608

overview

Window 1

Location	17,613,487 – 17,613,589
Length	102
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	80.38
Mean single sequence MFE	-34.45
Consensus MFE	-27.57
Energy contribution	-27.90
Covariance contribution	0.33
Combinations/Pair	1.19
Mean z-score	-2.91
Structure conservation index	0.80
SVM decision value	1.53
SVM RNA-class probability	0.961608
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17613487 102 + 27905053
--ACUAGAAUGU--AGAAACUUACGUGGUAUGGGAUAGGCGUACUUGUCGGGGUACUUCGAUAUCAAGGUGUUCUUAAUGUGCCGCCUGCCCACCCCAUGAGCACC
--..........--.........(((((..((((.(((((((((...(.((..(((((.(....).)))))..)).)..))).))))))))))..)))))...... ( -34.30)
>DroVir_CAF1 12650 95 + 1
----UAG-------UUUAACUUACGUGGUAUGGGAUAGGCGUACUUAUCGGGAUACUUUGAUAUUAAAGUAUUCUUAAUAUGCCGCCUGCCCACGCCAUGUGCGCC
----...-------.......(((((((..((((.((((((........(((((((((((....)))))))))))........))))))))))..))))))).... ( -37.89)
>DroGri_CAF1 10096 95 + 1
----UCG-------UGUCACUUACGUGGUAUGGGAUAGGCGUACUUAUCGGGAUACUUUGAUAUUAAAGUAUUCUUUAUGUGCCUCCUACCAACUCCAUGUGCACC
----..(-------(((.....((((((....((.((((.((((.....(((((((((((....)))))))))))....))))..))))))....)))))))))). ( -30.90)
>DroYak_CAF1 8711 94 + 1
----------AU--AUCAACUUACGUGGUAUGGGAUAGGCGUACUUGUCGGGAUACUUCGAUAUCAAGGUGUUCUUGAUGUGCCGCCUGCCGACUCCAUGAGCACC
----------..--.........(((((..(.((.(((((((((..((((((((((((.(....).))))).)))))))))).)))))))).)..)))))...... ( -31.80)
>DroMoj_CAF1 9805 94 + 1
----UAG-------UU-GACUUACGUGGUAUGGGAUAAGCGUACUUGUCGGGAUACUUUGAUAUCAAUGUAUUUUUAAUAUGCCGCCUACCCACGCCAUGUGCGCC
----...-------..-....(((((((..((((.((.(((......(..((((((.(((....))).))))))..)......))).))))))..))))))).... ( -27.80)
>DroAna_CAF1 17387 106 + 1
UCGGCAGAAUGCCAUGAAACUUACGUGGAAUGGGAUAGGCGUACUUGUCCGGGUACUUGGAAAUCAAGGUGUUCUUGAUGUGCCGCCUGCCCACUCCAUGGGCACC
..(((.....)))..........((((((.((((.(((((((((((....))))))..((..((((((.....))))))...))))))))))).))))))...... ( -44.00)
>consensus
____UAG_______UGAAACUUACGUGGUAUGGGAUAGGCGUACUUGUCGGGAUACUUUGAUAUCAAGGUAUUCUUAAUGUGCCGCCUGCCCACUCCAUGUGCACC
.......................(((((..((((.(((((((((.....(((((((((........)))))))))....))).))))))))))..)))))...... (-27.57 = -27.90 +   0.33)

alignment

secondary structure

dotplot

Window 2

Location	17,613,487 – 17,613,589
Length	102
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	80.38
Mean single sequence MFE	-28.38
Consensus MFE	-17.64
Energy contribution	-17.67
Covariance contribution	0.03
Combinations/Pair	1.22
Mean z-score	-1.90
Structure conservation index	0.62
SVM decision value	0.48
SVM RNA-class probability	0.751617
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17613487 102 - 27905053
GGUGCUCAUGGGGUGGGCAGGCGGCACAUUAAGAACACCUUGAUAUCGAAGUACCCCGACAAGUACGCCUAUCCCAUACCACGUAAGUUUCU--ACAUUCUAGU--
.(((...(((((((((((...(((...((((((.....)))))).)))..((((........)))))))))))))))..)))(((......)--))........-- ( -29.90)
>DroVir_CAF1 12650 95 - 1
GGCGCACAUGGCGUGGGCAGGCGGCAUAUUAAGAAUACUUUAAUAUCAAAGUAUCCCGAUAAGUACGCCUAUCCCAUACCACGUAAGUUAAA-------CUA----
(((..((.(((..((((.(((((((.((((..((.((((((......))))))))..)))).)).)))))..))))..))).))..)))...-------...---- ( -29.00)
>DroGri_CAF1 10096 95 - 1
GGUGCACAUGGAGUUGGUAGGAGGCACAUAAAGAAUACUUUAAUAUCAAAGUAUCCCGAUAAGUACGCCUAUCCCAUACCACGUAAGUGACA-------CGA----
.((((((.((..((.((((((((((...(((((....)))))........((((........))))))))...)).)))))).)).))).))-------)..---- ( -22.30)
>DroYak_CAF1 8711 94 - 1
GGUGCUCAUGGAGUCGGCAGGCGGCACAUCAAGAACACCUUGAUAUCGAAGUAUCCCGACAAGUACGCCUAUCCCAUACCACGUAAGUUGAU--AU----------
(((....((((....(..(((((..((((((((.....)))))).(((........)))...)).)))))..))))))))((....))....--..---------- ( -22.10)
>DroMoj_CAF1 9805 94 - 1
GGCGCACAUGGCGUGGGUAGGCGGCAUAUUAAAAAUACAUUGAUAUCAAAGUAUCCCGACAAGUACGCUUAUCCCAUACCACGUAAGUC-AA-------CUA----
(((..((.(((..((((((((((...........((((.(((....))).))))...........)))))).))))..))).))..)))-..-------...---- ( -28.65)
>DroAna_CAF1 17387 106 - 1
GGUGCCCAUGGAGUGGGCAGGCGGCACAUCAAGAACACCUUGAUUUCCAAGUACCCGGACAAGUACGCCUAUCCCAUUCCACGUAAGUUUCAUGGCAUUCUGCCGA
((((((...((((((((.((((((...((((((.....))))))..))..((((........))))))))..))))))))((....)).....))))))....... ( -38.30)
>consensus
GGUGCACAUGGAGUGGGCAGGCGGCACAUUAAGAACACCUUGAUAUCAAAGUAUCCCGACAAGUACGCCUAUCCCAUACCACGUAAGUUAAA_______CUA____
.........((.(((((.((((.....((((((.....))))))......((((........))))))))..))))).))((....)).................. (-17.64 = -17.67 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:45 2006