Locus 2396

Sequence ID	X_DroMel_CAF1
Location	6,420,079 – 6,420,224
Length	145
Max. P	0.995560

overview

Window 9

Location	6,420,079 – 6,420,190
Length	111
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	82.83
Mean single sequence MFE	-33.54
Consensus MFE	-25.78
Energy contribution	-26.78
Covariance contribution	1.00
Combinations/Pair	1.13
Mean z-score	-3.01
Structure conservation index	0.77
SVM decision value	2.59
SVM RNA-class probability	0.995560
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6420079 111 + 22224390
ACCGAAGGCUGAGAGAAAAACGACUGUUGGCCGGCCAGCAGCACAACAAAAUGGUCAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGU
(((((((((..(.((........)).)..))).(((((..((((.......((((((.....)))))).))))((((((....))))))..))))).........)))))) ( -38.90)
>DroSec_CAF1 37047 105 + 1
ACCGAAGACUAAAAGAAAAACGACUGUUGGCCGGCCAGCAGCACAAC------AACAGUCAAUGGCCAAGUGCAGUGUGCAAAUCAGCUAACUGGCAAUGAUCGCUUUGGU
(((((((..............((((((((....((.....))....)------)))))))...(..((..((((((..((......))..))).))).))..).))))))) ( -30.10)
>DroSim_CAF1 36135 111 + 1
ACCGAAGGCUAAAAGAAAAACGACUGUUGGCCGGCCAGCAGCACAACAACAACAACAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGU
(((((((..............(.(((((((....))))))))...............((((...((((.((..((((((....)))))).))))))..))))..))))))) ( -34.20)
>DroEre_CAF1 37086 96 + 1
AUCACAGGCAGCGAGAUGAACGACUGUUGGCC----AGCAGC-----------AGCAGUCAAUGGCCAAGUGCAGCUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGU
....(((..(((((.......((((((((...----.....)-----------)))))))....((((.((..((((((....)))))).)))))).....)))))))).. ( -34.50)
>DroYak_CAF1 39943 96 + 1
AUCAAUGGCAGAGAGAAAAACGACUGUUGACC----AGCAGC-----------AACAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUACCUGGCAAUGAUCGCUUUGGU
........(((((.((.....((((((((...----.....)-----------)))))))....((((.((..((((((....)))))))).)))).....)).))))).. ( -30.00)
>consensus
ACCGAAGGCUGAGAGAAAAACGACUGUUGGCCGGCCAGCAGCACAAC______AACAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGU
(((((((..............(.(((((((....))))))))...............((((...((((.((..((((((....)))))).))))))..))))..))))))) (-25.78 = -26.78 +   1.00)

alignment

secondary structure

dotplot

Window 0

Location	6,420,110 – 6,420,224
Length	114
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.06
Mean single sequence MFE	-29.08
Consensus MFE	-20.95
Energy contribution	-22.07
Covariance contribution	1.11
Combinations/Pair	1.09
Mean z-score	-1.89
Structure conservation index	0.72
SVM decision value	1.79
SVM RNA-class probability	0.977368
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6420110 114 + 22224390
CGGCCAGCAGCACAACAAAAUGGUCAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGUCAGCUGCACUGCC-----CCACUCCCCAUUUCCCCCG-CC
.(((..(((((....((((.((((((.......((((.((..((((((....)))))).))))))..)))))).))))....)))))...)))-----...................-.. ( -34.50)
>DroSec_CAF1 37078 107 + 1
CGGCCAGCAGCACAAC------AACAGUCAAUGGCCAAGUGCAGUGUGCAAAUCAGCUAACUGGCAAUGAUCGCUUUGGUCAGCUGCACU-CC-----CCACCACCCAUUUCCCCCG-CC
.(((((...((.....------....))...))))).((((((((..........(((....)))..(((((.....)))))))))))))-..-----...................-.. ( -27.50)
>DroSim_CAF1 36166 113 + 1
CGGCCAGCAGCACAACAACAACAACAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGUCAGCUGCACU-CC-----CCACCACCCAUUUCCCCCG-CC
.(((((...((...............))...))))).(((((((((((..((.(((....)))((.......)).))..)))))))))))-..-----...................-.. ( -27.76)
>DroEre_CAF1 37117 91 + 1
C----AGCAGC-----------AGCAGUCAAUGGCCAAGUGCAGCUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGUCAGCUGCACU-CC------------CCAUUUCCCCCG-CC
.----.(((((-----------(((.((((...((((.((..((((((....)))))).))))))..)))).))).......)))))...-..------------............-.. ( -30.21)
>DroYak_CAF1 39974 90 + 1
C----AGCAGC-----------AACAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUACCUGGCAAUGAUCGCUUUGGUCAGCUGCACU-CC------------CCAUUUCCCCC--CC
.----.(((((-----------...........((((.((..((((((....)))))))).))))..(((((.....))))))))))...-..------------...........--.. ( -25.90)
>DroAna_CAF1 49059 102 + 1
AGAAGAGCAGCAAACCAUAAAUAACAGUCAGUGGCCAAGUGCAG-----------------UGGCAAUGAUCGCUUUGGUCAGCUGCACU-CUAGCUGCCACGCCCCCUCCGCCCUGAUC
..........................(((((.(((..((.((.(-----------------(((((.(((((.....)))))((((....-.))))))))))))...))..)))))))). ( -28.60)
>consensus
CGGCCAGCAGCACAAC______AACAGUCAAUGGCCAAGUGCAGUUGAAAAAUCAGCUAACUGGCAAUGAUCGCUUUGGUCAGCUGCACU_CC_____CCAC__CCCAUUUCCCCCG_CC
......(((((......................((((.((..((((((....)))))).))))))..(((((.....))))))))))................................. (-20.95 = -22.07 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:31 2006