Locus 51

Sequence ID	3R_DroMel_CAF1
Location	308,190 – 308,310
Length	120
Max. P	0.998580

overview

Window 0

Location	308,190 – 308,310
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.25
Mean single sequence MFE	-45.42
Consensus MFE	-41.42
Energy contribution	-41.58
Covariance contribution	0.16
Combinations/Pair	1.08
Mean z-score	-2.10
Structure conservation index	0.91
SVM decision value	3.15
SVM RNA-class probability	0.998580
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 308190 120 + 27905053
GGCAUCAGCGAGGAUCGCAAGGUGUUUUACUCCACUGACCCGGAUGAGUUCCAGCCGGGGCUGGUCGAGAUCUUUAAGAAGUGCCUGGAGAAAUCGUCUGGAGUAAGAUGCAUUGAUGGG
..((((((((.....)))...((((((((((((.....(((((.((.....)).)))))...((.(((..((((((.(.....).))))))..))).))))))))))))))..))))).. ( -45.20)
>DroSec_CAF1 44592 120 + 1
GGCAUCAGCGAGGAUCGCAAGGUGUUUUACUCCACUGACCCGGAUGAGUUCCAGCCGGGGCUGGUCGAGAUCUUUAAGAAGUGCCUGGAGAAAUCGUCUGGAGUAAGAUGCAUCGAUGGG
..((((.(((.....)))...((((((((((((.....(((((.((.....)).)))))...((.(((..((((((.(.....).))))))..))).))))))))))))))...)))).. ( -44.60)
>DroSim_CAF1 45439 120 + 1
GGCAUCAGCGAGGAUCGCAGGGUGUUUUACUCCACUGACCCGGAUGAGUUCCAGCCGGGGCUGGUCGAGAUCUUUAAGAAGUGCCUGGAGAAAUCGUCUGGAGUAAGAUGCAUCGAUGGG
..((((.(((.....)))...((((((((((((.....(((((.((.....)).)))))...((.(((..((((((.(.....).))))))..))).))))))))))))))...)))).. ( -44.60)
>DroEre_CAF1 47512 120 + 1
GGCAUCAGCGAUGAUCGGAAGGUAUUCUACUCCACUGACCCGGAUGAGUUCCAGCCGGGGCUGGUCGAGAUCUUCAAGAAGUGCCUGGAGAAAUCGGCUGGCGUAAGGUGCAUAGAUGGC
(.((((.........(....)((((..(((........(((((.((.....)).)))))((..(((((..((((((.(.....).))))))..)))))..)))))..))))...)))).) ( -44.80)
>DroYak_CAF1 47328 120 + 1
GGCAUCAGCGAUGAUCGCAAAGUAUUUUACUCCACUGACCCGGAUGAGUUUCAGCCGGGGCUGGUCGAGAUCUUUAAGAAGUGCCUGGAGAAAUCGGCUGGCGUAAGGUGCAUAGAUGGU
..((((.(((.....)))...(((((((((........(((((.((.....)).)))))((..(((((..((((((.(.....).))))))..)))))..)))))))))))...)))).. ( -47.90)
>consensus
GGCAUCAGCGAGGAUCGCAAGGUGUUUUACUCCACUGACCCGGAUGAGUUCCAGCCGGGGCUGGUCGAGAUCUUUAAGAAGUGCCUGGAGAAAUCGUCUGGAGUAAGAUGCAUAGAUGGG
..((((.(((.....)))...((((((((((((.....(((((.((.....)).)))))...((.(((..((((((.(.....).))))))..))).))))))))))))))...)))).. (-41.42 = -41.58 +   0.16)

alignment

secondary structure

dotplot

Window 1

Location	308,190 – 308,310
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.25
Mean single sequence MFE	-34.34
Consensus MFE	-30.74
Energy contribution	-31.58
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.67
Structure conservation index	0.90
SVM decision value	1.74
SVM RNA-class probability	0.974828
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 308190 120 - 27905053
CCCAUCAAUGCAUCUUACUCCAGACGAUUUCUCCAGGCACUUCUUAAAGAUCUCGACCAGCCCCGGCUGGAACUCAUCCGGGUCAGUGGAGUAAAACACCUUGCGAUCCUCGCUGAUGCC
.........(((((((((((((..(((..(((..(((.....)))..)))..))).(((((....))))).((((....))))...))))))))........(((.....))).))))). ( -36.30)
>DroSec_CAF1 44592 120 - 1
CCCAUCGAUGCAUCUUACUCCAGACGAUUUCUCCAGGCACUUCUUAAAGAUCUCGACCAGCCCCGGCUGGAACUCAUCCGGGUCAGUGGAGUAAAACACCUUGCGAUCCUCGCUGAUGCC
.........(((((((((((((..(((..(((..(((.....)))..)))..))).(((((....))))).((((....))))...))))))))........(((.....))).))))). ( -36.30)
>DroSim_CAF1 45439 120 - 1
CCCAUCGAUGCAUCUUACUCCAGACGAUUUCUCCAGGCACUUCUUAAAGAUCUCGACCAGCCCCGGCUGGAACUCAUCCGGGUCAGUGGAGUAAAACACCCUGCGAUCCUCGCUGAUGCC
.........(((((((((((((..(((..(((..(((.....)))..)))..))).(((((....))))).((((....))))...))))))))........(((.....))).))))). ( -36.30)
>DroEre_CAF1 47512 120 - 1
GCCAUCUAUGCACCUUACGCCAGCCGAUUUCUCCAGGCACUUCUUGAAGAUCUCGACCAGCCCCGGCUGGAACUCAUCCGGGUCAGUGGAGUAGAAUACCUUCCGAUCAUCGCUGAUGCC
..((((...((...........(((..........))).......((.((((..(((((((....)))(((.....))).))))...((((.........)))))))).)))).)))).. ( -30.20)
>DroYak_CAF1 47328 120 - 1
ACCAUCUAUGCACCUUACGCCAGCCGAUUUCUCCAGGCACUUCUUAAAGAUCUCGACCAGCCCCGGCUGAAACUCAUCCGGGUCAGUGGAGUAAAAUACUUUGCGAUCAUCGCUGAUGCC
..((((...((...........(((..........)))..........((((.......(.(((((.((.....)).))))).).(..(((((...)))))..)))))...)).)))).. ( -32.60)
>consensus
CCCAUCGAUGCAUCUUACUCCAGACGAUUUCUCCAGGCACUUCUUAAAGAUCUCGACCAGCCCCGGCUGGAACUCAUCCGGGUCAGUGGAGUAAAACACCUUGCGAUCCUCGCUGAUGCC
.........(((((((((((((..(((..(((..(((.....)))..)))..)))....(.(((((.((.....)).))))).)..))))))))........(((.....))).))))). (-30.74 = -31.58 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:24 2006