Locus 7647

Sequence ID	X_DroMel_CAF1
Location	19,060,298 – 19,060,497
Length	199
Max. P	0.981925

overview

Window 0

Location	19,060,298 – 19,060,407
Length	109
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	76.81
Mean single sequence MFE	-28.32
Consensus MFE	-13.46
Energy contribution	-16.30
Covariance contribution	2.84
Combinations/Pair	1.10
Mean z-score	-2.45
Structure conservation index	0.48
SVM decision value	1.90
SVM RNA-class probability	0.981925
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19060298 109 + 22224390
AAAUUUCUCUUUCAUCCUUCCUUGUUGUGCGCAGAUACAUAUA---------GUACGUAUAUUUCUCUAUCCUAUAGCCGUGGGACAUUGUGCGUAACCCAGGGAGCAGAAAGUCAGA
.....((((((((...((((((.(((((((((((((((.....---------....)))).........((((((....))))))..)))))))))))..))))))..)))))..))) ( -27.90)
>DroSec_CAF1 12172 118 + 1
AAAUUUCUCUUUCAUCCUUCCUUGUCUUGCUCACAUACCUAUAUGUACAUACAUAUGUAUCUUUAUCUAUCCUAUAGCCGUGGGACAUUGUGCGUAACCCAGGGAGCAGAAAGUCAGA
.....((((((((....(((((((..((((.((((....(((((((....)))))))............((((((....))))))...)))).))))..)))))))..)))))..))) ( -29.60)
>DroSim_CAF1 13678 118 + 1
AAAUUUCUCUUUCAUCCUUCCUUGUCUUGCGCAGAUACCUAUAUGUACAUACAUAUGUAUCUUUAUCUAUCCUAUAGCCGUGGGAAAUUGUGCGUAACCCAGGGAGCAGAAAGUCAGA
.....((((((((....(((((((..((((((((((((..((((((....)))))))))))........((((((....)))))).....)))))))..)))))))..)))))..))) ( -35.50)
>DroEre_CAF1 12628 84 + 1
ACAUUUCUCUUUCAUCCUUCCUCG---------------------------------UAA-GUUAUCUACCUUAUAGCCGUGGGACAUUGGGCGUAACCCAGGGAGCAGAAAGUCAGA
...(((((((..(.((((..((.(---------------------------------(((-(........)))))))....))))...((((.....)))))..)).)))))...... ( -18.60)
>DroYak_CAF1 13687 103 + 1
ACAUUUCACUUUCAUCCUUUCCUGUUUUGCGCACAUAUUU--------------GUUUAU-CUUAUCUACAUUAUAGCCGUGGGACAUUGUGCGUAAUCCAGGGAGCAGAAAGUCAGA
...(((.((((((....(((((((..(((((((((....(--------------(((...-.....((((.........)))))))).)))))))))..)))))))..)))))).))) ( -30.00)
>consensus
AAAUUUCUCUUUCAUCCUUCCUUGUCUUGCGCACAUACCUAUA__________UAUGUAU_UUUAUCUAUCCUAUAGCCGUGGGACAUUGUGCGUAACCCAGGGAGCAGAAAGUCAGA
........(((((....(((((((..(((((((........((((......))))..............((((((....)))))).....)))))))..)))))))..)))))..... (-13.46 = -16.30 +   2.84)

alignment

secondary structure

dotplot

Window 1

Location	19,060,407 – 19,060,497
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	90.76
Mean single sequence MFE	-30.74
Consensus MFE	-26.12
Energy contribution	-26.36
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.88
Structure conservation index	0.85
SVM decision value	1.61
SVM RNA-class probability	0.967722
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19060407 90 - 22224390
CCCAAUCAAAAUCCCGAUCUCGAGUCCCGGAAGACCGCAGGCGAUGUCGAUUGUGGUGUCUUGCUCGUCUGAUGGGAUCGAUUACCGCUU
...((((...(((((.(((.(((((...(((..(((((((.((....)).))))))).))).)))))...)))))))).))))....... ( -29.50)
>DroSec_CAF1 12290 84 - 1
CC------AAAUCCCGAUCUCGAGUCCCGGAAGACCGCAGGCGAUGUCGAUUGUGGUGUCUUGCUCGUCUGUUGGGAUCGAUUACCGCUU
..------..((((((((..(((((...(((..(((((((.((....)).))))))).))).)))))...))))))))............ ( -29.20)
>DroSim_CAF1 13796 90 - 1
CCAAAUCCAAAUCCCGAUCUCGAGUCCCGGAAGACCGCAGGCGAUGUCGAUUGUGGUGUCUUGCUCGUCUGAUGGGAUCGAUUACCGCUU
...((((...(((((.(((.(((((...(((..(((((((.((....)).))))))).))).)))))...)))))))).))))....... ( -29.50)
>DroEre_CAF1 12712 85 - 1
----AUUCCAAUCCCGAUCUCGAGUCCCGGAAGACCGCAGUCGAUGUCGAUUGUGGUGUC-UGCUCGUCUGAUGGGAUCAAUUACCGCUU
----......(((((.(((.(((((...(((..((((((((((....)))))))))).))-))))))...))))))))............ ( -32.70)
>DroYak_CAF1 13790 90 - 1
CACUAUACAAAUCCCGAUCCCGAGUCCCGGAAGACCGCAGUCGAUGUCGAUUGUGGUGUCUUGCUCGUCUGACGGGAUCAAUUACCGCUU
..........((((((.((.(((((...(((..((((((((((....)))))))))).))).)))))...))))))))............ ( -32.80)
>consensus
CC__AUCCAAAUCCCGAUCUCGAGUCCCGGAAGACCGCAGGCGAUGUCGAUUGUGGUGUCUUGCUCGUCUGAUGGGAUCGAUUACCGCUU
..........((((((.((.(((((...(((..(((((((.((....)).))))))).))).)))))...))))))))............ (-26.12 = -26.36 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:13 2006