Locus 119

Sequence ID	2L_DroMel_CAF1
Location	379,562 – 379,767
Length	205
Max. P	0.999771

overview

Window 2

Location	379,562 – 379,674
Length	112
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	91.02
Mean single sequence MFE	-24.01
Consensus MFE	-19.56
Energy contribution	-20.28
Covariance contribution	0.72
Combinations/Pair	1.13
Mean z-score	-1.76
Structure conservation index	0.81
SVM decision value	0.97
SVM RNA-class probability	0.891770
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 379562 112 + 22407834
AAUAUGUUCUCCACCGAAAUGUAGUUCAAUUCAAUUACGGCAACAUACAAUUAAAACUUGUUGCCAGAUACCUUAGAUACUG------UAUCUUGUAGAUAUACACCCGAAUUUUUGG
.............((((((.((((((......))))))(((((((.............)))))))((((((..........)------)))))((((....)))).......)))))) ( -20.92)
>DroSec_CAF1 47218 118 + 1
AAUAUGUUCUCCACCAAAAUGCAGUUCAAUUCAAUUACGGCAACAUACAAUUAAAACGUGUUGCCAGAUACCUUAGAUACUGUCUCGGUAUCUCGUAGAUAUACACCUGAAUUUUUGG
.............((((((..(((..............((((((((...........))))))))(((((((..((((...)))).))))))).(((....)))..)))...)))))) ( -28.60)
>DroSim_CAF1 47875 118 + 1
AAUAUGUUCUCCACCAAAAUGCAGUUCAAUUCAAUUACGGCAACAUACAAUUAAAACGUGUUGCCAGAUACCUUAGAUACCGUCUCGGUAUCUCGUAGAUAUACACCCGAAAUUUUGG
.............(((((((..............((((((((((((...........))))))))(((((((..((((...)))).))))))).)))).............))))))) ( -26.93)
>DroEre_CAF1 54180 117 + 1
AAUAUGUUCUUCGCCGA-AUGCAGUUCAAUUCAAUUACGGCAACAAACAAUUAAAACUUGUUGCCAGAUACCUCAGAUACCGUCUCGGUAUCUCGUAGAUAUACACCCGAAUUUUUGG
....(((...((...((-((........))))...(((((((((((...........))))))))(((((((..((((...)))).))))))).)))))...))).((((....)))) ( -27.00)
>DroYak_CAF1 48471 117 + 1
AAUAUGUUCUCCAUCGAAAUGCAGUUCAAUUCAAUUACGGCUACAAACAAUUAAAACUUGUUGCAAGAUACCUUAGAUACUGUAUCGGUAUCUGAUAGAUAUACACCCGAAUU-UUGG
..............(((((((((((((............((.((((...........)))).))(((....))).)).))))).((((((((.....)))).....)))))))-))). ( -16.60)
>consensus
AAUAUGUUCUCCACCGAAAUGCAGUUCAAUUCAAUUACGGCAACAUACAAUUAAAACUUGUUGCCAGAUACCUUAGAUACUGUCUCGGUAUCUCGUAGAUAUACACCCGAAUUUUUGG
.............((((((....((((...........((((((((...........))))))))..(((.((.(((((((.....)))))))...)).)))......)))))))))) (-19.56 = -20.28 +   0.72)

alignment

secondary structure

dotplot

Window 3

Location	379,640 – 379,749
Length	109
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.13
Mean single sequence MFE	-32.64
Consensus MFE	-27.97
Energy contribution	-28.25
Covariance contribution	0.28
Combinations/Pair	1.07
Mean z-score	-2.18
Structure conservation index	0.86
SVM decision value	2.35
SVM RNA-class probability	0.992750
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 379640 109 - 22407834
GCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG-----AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUGCCAAAAAUUCGGGUGUAUAUCUACAAGAUA------CAGU
((((....((((.(((((((((....))((((....(((-----(((....((......)))))))))))).))))))).))))......))))...((((.....))))------.... ( -31.60)
>DroSec_CAF1 47296 115 - 1
GCCCGAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG-----AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUGCCAAAAAUUCAGGUGUAUAUCUACGAGAUACCGAGACAGU
(((.(((.((((.(((((((((....))((((....(((-----(((....((......)))))))))))).))))))).))))...))).))).....(((.((......))))).... ( -32.00)
>DroSim_CAF1 47953 115 - 1
GCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG-----AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUGCCAAAAUUUCGGGUGUAUAUCUACGAGAUACCGAGACGGU
(((.....((((.(((((((((....))((((....(((-----(((....((......)))))))))))).))))))).))))..((((((.((((....)))).....)))))).))) ( -35.10)
>DroEre_CAF1 54257 120 - 1
GCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGUGAAUCGAAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUGCCAAAAAUUCGGGUGUAUAUCUACGAGAUACCGAGACGGU
(((.....((((.((((((((((((..(((((.....(((......)))..((......)))))))))))).))))))).))))...(((((.((((....)))).....)))))..))) ( -35.60)
>DroYak_CAF1 48549 119 - 1
GCCCCAAAUUGGGCGCUGUCGAGCAAUCGAGCAACAACGAUUGAAAUCAAAUCAAAUCAGAGUUCAUGUUCAGAUAGUUGCCAA-AAUUCGGGUGUAUAUCUAUCAGAUACCGAUACAGU
((((......))))((((((((....))))(((((...((((.......))))..(((.(((......))).))).)))))...-...((((.....((((.....))))))))..)))) ( -28.90)
>consensus
GCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG_____AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUGCCAAAAAUUCGGGUGUAUAUCUACGAGAUACCGAGACAGU
((((....((((.((((((((((((..(((((.............................)))))))))).))))))).))))......))))...((((.....)))).......... (-27.97 = -28.25 +   0.28)

alignment

secondary structure

dotplot

Window 4

Location	379,674 – 379,767
Length	93
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	92.64
Mean single sequence MFE	-28.90
Consensus MFE	-21.98
Energy contribution	-22.22
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-2.02
Structure conservation index	0.76
SVM decision value	0.60
SVM RNA-class probability	0.795309
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 379674 93 + 22407834
CAGCUAUCUGAACACGAACUCUGAUUUGAUUUGAUU-----CGCUGUUGUUCGAUUGCUCGACAGCUCCCAAUUUGGGGCGCUGUCUUUUGAAGGGAU
.(((.(((.(((((((((.((...........))))-----))....)))))))).))).((((((((((.....)))).))))))............ ( -27.00)
>DroSec_CAF1 47336 93 + 1
CAGCUAUCUGAACACGAACUCUGAUUUGAUUUGAUU-----CGCUGUUGUUCGAUUGCUCGACAGCUCCCAAUUUCGGGCGCUGUCUUUUGAAGGGAU
.(((.(((.(((((((((.((...........))))-----))....)))))))).))).((((((.(((......))).))))))............ ( -27.10)
>DroSim_CAF1 47993 93 + 1
CAGCUAUCUGAACACGAACUCUGAUUUGAUUUGAUU-----CGCUGUUGUUCGAUUGCUCGACAGCUCCCAAUUUGGGGCGCUGUCUUUUGAAGGGAU
.(((.(((.(((((((((.((...........))))-----))....)))))))).))).((((((((((.....)))).))))))............ ( -27.00)
>DroEre_CAF1 54297 98 + 1
CAGCUAUCUGAACACGAACUCUGAUUUGAUUUGAUUCGAUUCACUGUUGUUCGAUUGCUCGACAGCUCCCAAUUUGGGGCGCUGUCUUUUGAUGGGCU
...(((((((((((...((..(((.((((......)))).)))..)))))))).......((((((((((.....)))).))))))....)))))... ( -31.60)
>DroYak_CAF1 48588 98 + 1
CAACUAUCUGAACAUGAACUCUGAUUUGAUUUGAUUUCAAUCGUUGUUGCUCGAUUGCUCGACAGCGCCCAAUUUGGGGCGCUGUCUUUUGAAGGGCU
((((.((.((((.((.((.((......)).)).)))))))).))))..((((((....))((((((((((......)))))))))).......)))). ( -31.80)
>consensus
CAGCUAUCUGAACACGAACUCUGAUUUGAUUUGAUU_____CGCUGUUGUUCGAUUGCUCGACAGCUCCCAAUUUGGGGCGCUGUCUUUUGAAGGGAU
.(((.(((.(((((((......((((......))))........)).)))))))).))).((((((.(((......))).))))))............ (-21.98 = -22.22 +   0.24)

alignment

secondary structure

dotplot

Window 5

Location	379,674 – 379,767
Length	93
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	92.64
Mean single sequence MFE	-29.46
Consensus MFE	-25.20
Energy contribution	-24.56
Covariance contribution	-0.64
Combinations/Pair	1.17
Mean z-score	-3.41
Structure conservation index	0.86
SVM decision value	4.04
SVM RNA-class probability	0.999771
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 379674 93 - 22407834
AUCCCUUCAAAAGACAGCGCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG-----AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUG
............((((((..(((.....))).)))))).(((.(((((((....(((-----(((....((......)))))))))))).))).))). ( -28.30)
>DroSec_CAF1 47336 93 - 1
AUCCCUUCAAAAGACAGCGCCCGAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG-----AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUG
............((((((.((((....)))).)))))).(((.(((((((....(((-----(((....((......)))))))))))).))).))). ( -28.90)
>DroSim_CAF1 47993 93 - 1
AUCCCUUCAAAAGACAGCGCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG-----AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUG
............((((((..(((.....))).)))))).(((.(((((((....(((-----(((....((......)))))))))))).))).))). ( -28.30)
>DroEre_CAF1 54297 98 - 1
AGCCCAUCAAAAGACAGCGCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGUGAAUCGAAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUG
(((..(((....((((((..(((.....))).))))))(((((..(((((.....(((......)))..((......)))))))))))).))).))). ( -30.80)
>DroYak_CAF1 48588 98 - 1
AGCCCUUCAAAAGACAGCGCCCCAAAUUGGGCGCUGUCGAGCAAUCGAGCAACAACGAUUGAAAUCAAAUCAAAUCAGAGUUCAUGUUCAGAUAGUUG
.((.(.......((((((((((......))))))))))((....))).))..((((..(((((......((......)).......)))))...)))) ( -31.02)
>consensus
AUCCCUUCAAAAGACAGCGCCCCAAAUUGGGAGCUGUCGAGCAAUCGAACAACAGCG_____AAUCAAAUCAAAUCAGAGUUCGUGUUCAGAUAGCUG
............((((((.(((......))).)))))).(((.((((((((..(((.......................)))..))))).))).))). (-25.20 = -24.56 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:30 2006