Locus 3367

Sequence ID	2R_DroMel_CAF1
Location	11,411,302 – 11,411,447
Length	145
Max. P	0.970736

overview

Window 1

Location	11,411,302 – 11,411,421
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	80.03
Mean single sequence MFE	-25.19
Consensus MFE	-18.06
Energy contribution	-18.54
Covariance contribution	0.48
Combinations/Pair	1.27
Mean z-score	-1.82
Structure conservation index	0.72
SVM decision value	0.73
SVM RNA-class probability	0.833943
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11411302 119 - 20766785
UACAAAGCUAAGCCUUUUGCUUACUUUGUGGCUAGCCAUGCAAUUGGCCAGCAAAGUGAGUAGAUAUGCACUUAAAUCAUGCCUAAAAUCAGUCUUUUAACAGAGGAUAACUUACAUUU
(((((((.(((((.....))))))))))))(((.((((......)))).)))...((((((.(((..(((.........))).....))).((((((.....)))))).)))))).... ( -31.50)
>DroSec_CAF1 24349 107 - 1
UACAAA------GCUUUUGCUUACUUUCUGGCUAACCAUGCAAUUUGUCAGCAAAGUAAGUAGAUAUGCACUUAAAUCAACACUAAAU--GGU-AUUUAUGAG---AAAACUUACAUUU
......------((.(((((((((((((((((..............))))).))))))))))))...))......((((........)--)))-.....((((---....))))..... ( -21.44)
>DroSim_CAF1 23977 116 - 1
UACAAAGCUAAAGCUUUUGCUUACUUUCUGGCUAACCAUGCAAUUGGUCAGCAAAGUAAGUAGAUAUGAACUUAAAUCAGUACUAAAU--GGU-AUUUAUCAGAUGAAAACUUACAUUU
...(((((....)))))((((((((((((((((((........)))))))).))))))))))(((((((.......)))(((((....--)))-)).))))(((((........))))) ( -27.10)
>DroEre_CAF1 27032 115 - 1
UACUAGGCUAAAGCUUUUGCUUACUUUCUGGCUAGCCAUGCAAUUGGUCAGCAGAGUAAGUAGAUAUGCACUUAAUUCAGCCAUAAAC--GUC-UUUUGUCACAGGUAAACUUAC-UUU
((((.((((.((((.((((((((((((((((((((........)))))))).))))))))))))...))......)).))))......--(.(-....).)...)))).......-... ( -28.20)
>DroYak_CAF1 25526 116 - 1
UACAAAUCUAAAGUUAAUACUUACUUUCUGGAUAGCCACGCAAUUGGUCAGCAGAGUACGUAGAUGAGCACUUAAAUCAGCCCUAAAU--GUC-UUUUGUCAGAGGUAAAAAUACAUUU
............(((..(((.(((((((((....((((......))))))).)))))).)))....)))............(((...(--(.(-....).)).)))............. ( -17.70)
>consensus
UACAAAGCUAAAGCUUUUGCUUACUUUCUGGCUAGCCAUGCAAUUGGUCAGCAAAGUAAGUAGAUAUGCACUUAAAUCAGCCCUAAAU__GGU_UUUUAUCAGAGGAAAACUUACAUUU
............((.((((((((((((((((((((........)))))))).))))))))))))...)).................................................. (-18.06 = -18.54 +   0.48)

alignment

secondary structure

dotplot

Window 2

Location	11,411,342 – 11,411,447
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	86.86
Mean single sequence MFE	-28.85
Consensus MFE	-22.19
Energy contribution	-23.27
Covariance contribution	1.08
Combinations/Pair	1.18
Mean z-score	-2.50
Structure conservation index	0.77
SVM decision value	1.66
SVM RNA-class probability	0.970736
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11411342 105 - 20766785
CGUGAUCACCGAUGACUUAGGAUGUAUACAAAGCUAAGCCUUUUGCUUACUUUGUGGCUAGCCAUGCAAUUGGCCAGCAAAGUGAGUAGAUAUGCACUUAAAUCA
............(((.(((((.((((((....((...))..((((((((((((((((((((........))))))).)))))))))))))))))))))))).))) ( -32.00)
>DroSec_CAF1 24383 99 - 1
CGUGAUCACCGAUGAUUUAGGAUGUAUACAAA------GCUUUUGCUUACUUUCUGGCUAACCAUGCAAUUUGUCAGCAAAGUAAGUAGAUAUGCACUUAAAUCA
............(((((((((.((((((....------...(((((((((((((((((..............))))).))))))))))))))))))))))))))) ( -29.75)
>DroSim_CAF1 24014 105 - 1
CGUGAUCACCGAUGAUUUAGGAUGUAUACAAAGCUAAAGCUUUUGCUUACUUUCUGGCUAACCAUGCAAUUGGUCAGCAAAGUAAGUAGAUAUGAACUUAAAUCA
............(((((((((...((((((((((....)))))((((((((((((((((((........)))))))).))))))))))).))))..))))))))) ( -31.40)
>DroEre_CAF1 27068 105 - 1
CGUGAUCGCCGAUGCCUUAGGAUGUAUACUAGGCUAAAGCUUUUGCUUACUUUCUGGCUAGCCAUGCAAUUGGUCAGCAGAGUAAGUAGAUAUGCACUUAAUUCA
.(((...((....((((.((........))))))....)).((((((((((((((((((((........)))))))).))))))))))))....)))........ ( -32.20)
>DroYak_CAF1 25563 105 - 1
UGUGAUCACCGAUGCCGUAGGAUGUAUACAAAUCUAAAGUUAAUACUUACUUUCUGGAUAGCCACGCAAUUGGUCAGCAGAGUACGUAGAUGAGCACUUAAAUCA
.(((.(((.(.........((((........))))........(((.(((((((((....((((......))))))).)))))).)))).))).)))........ ( -18.90)
>consensus
CGUGAUCACCGAUGACUUAGGAUGUAUACAAAGCUAAAGCUUUUGCUUACUUUCUGGCUAGCCAUGCAAUUGGUCAGCAAAGUAAGUAGAUAUGCACUUAAAUCA
............(((.(((((.((((((.............((((((((((((((((((((........)))))))).))))))))))))))))))))))).))) (-22.19 = -23.27 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:47 2006