Locus 7202

Sequence ID	X_DroMel_CAF1
Location	18,031,826 – 18,032,061
Length	235
Max. P	0.730629

overview

Window 6

Location	18,031,826 – 18,031,924
Length	98
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	83.73
Mean single sequence MFE	-26.30
Consensus MFE	-12.98
Energy contribution	-15.78
Covariance contribution	2.80
Combinations/Pair	1.09
Mean z-score	-2.48
Structure conservation index	0.49
SVM decision value	0.05
SVM RNA-class probability	0.558580
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18031826 98 - 22224390
CAGCAAUGGAAAUUGGCCACAGCCUAGGCCCAUAGCAUAUACACGAGCAUAUCUAGAUACAUUUAUUUAUGCCUGUGUAC----------GUGUGUAUCUGAAUAACC
..((.((((.....(((....))).....)))).))(((((((((.(((((..((((((....))))))....))))).)----------)))))))).......... ( -26.30)
>DroSec_CAF1 19811 95 - 1
C---AAUUGAAAUUGGCCACAGCCUAGGUCCAUAGCAUAUACACGAGCAUAUCUAGAUACAUUUAUUUAUGCUUGUGUAC----------GUGUGUAUCUGAAUAAUC
.---..........(((....)))(((((.....(((..((((((((((((..((((....))))..)))))))))))).----------.)))..)))))....... ( -27.20)
>DroSim_CAF1 20140 95 - 1
C---AAUUGAAAUUGGCCACAGCCUAGGCCCAUAGCAUAUACACGAGCAUAUCUAGAUACAUUUAUUUAUGCUUGUGUAC----------GUGUGUAUCUGAAUAACC
.---..........((((........))))....(((..((((((((((((..((((....))))..)))))))))))).----------.))).............. ( -28.70)
>DroEre_CAF1 21751 95 - 1
C---AAUUGAAAUUGGCCGCAGCCUAUGUCCAUGGCAUAUAGACGAGCACAUCUAGAUACACUUGUUUAUGCUUGUGUAC----------GUGUGUAUCUGAAUAACC
.---..(((.....(((....)))(((((.....)))))....))).......(((((((((.(((.(((....))).))----------).)))))))))....... ( -20.00)
>DroYak_CAF1 19627 93 - 1
C---AAUUGAAAUUGGCCGCAGCGUAGGCCCAUGGC------------ACAUCUAGAUACAUUUAUGUACGCUUGUGUACGUGUACGUACGUGUGUAUCUGAAUAACC
.---...((..((.((((........)))).))..)------------)....(((((((((.(((((((((........)))))))))...)))))))))....... ( -29.30)
>consensus
C___AAUUGAAAUUGGCCACAGCCUAGGCCCAUAGCAUAUACACGAGCAUAUCUAGAUACAUUUAUUUAUGCUUGUGUAC__________GUGUGUAUCUGAAUAACC
........(..((.((((........)))).))..)...((((((((((((..((((....))))..))))))))))))............................. (-12.98 = -15.78 +   2.80)

alignment

secondary structure

dotplot

Window 7

Location	18,031,924 – 18,032,031
Length	107
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	77.83
Mean single sequence MFE	-35.10
Consensus MFE	-22.46
Energy contribution	-24.24
Covariance contribution	1.78
Combinations/Pair	1.09
Mean z-score	-1.63
Structure conservation index	0.64
SVM decision value	0.22
SVM RNA-class probability	0.638985
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18031924 107 + 22224390
CGUGAAGCAGCUGAAGCUGUAUUUGGCGCCCAACGUGGGGCACAUUCAACCGGAAUAAAAAGGUUCACCUAUUGGAGGGCCCUUGCCCAAACGCCCCAUCACCAGAC---------
.((((.(((((....)))))..((((...))))..((((((...(((((...((((......)))).....)))))((((....))))....)))))))))).....--------- ( -34.50)
>DroSec_CAF1 19906 107 + 1
CGUGCAGCAGCUGAAGCUGAAUUUGGCGCCCAACAUGGGGCAUAUUCAACCGGAAUAAAAAGGUCUACCUAUUGGAGGGCCCUUGCCCAAACGCCCCAUCAUCAGAC---------
.((((..((((....))))......)))).....(((((((.(((((.....)))))....(((((.((....)).)))))...........)))))))........--------- ( -34.90)
>DroSim_CAF1 20235 107 + 1
CGUGCAGCAGCUGAAGCUGAAUUUGGCGCCCAACGUGGGGCAUAUUCAACCGGAAUAAAAAGGUCUACCUAUUGGAGGGCCUUUGCCCAAACGCCCCAUCAUCAGAC---------
.((((..((((....))))......)))).....(((((((.(((((.....))))).((((((((.((....)).))))))))........)))))))........--------- ( -38.60)
>DroEre_CAF1 21846 106 + 1
CGUGCAGCAGCUGAAGCUGACUUGGGCGC-CAACGUGGGGCACAUUCACCGGGAGUAAAUGGGUCUACCUAUUGGCGGGCUAUUGCCCAAGCGCCCCAUCAUCAGAG---------
.((((((((((....)))).))...))))-....(((((((.(...........((.((((((....)))))).))((((....))))..).)))))))........--------- ( -40.30)
>DroYak_CAF1 19720 96 + 1
CGUGCAGCAGCUGAAGCUGAGUUUU---------GGGGAGCAGACUCAUCCGAAAUAAAUAGGUCUACCUAG--------UAUUGC---AGGACCCCAUCAUCAGACUCCAGUCUC
.........((((.((((((....(---------((((((....))).(((..((((..((((....)))).--------))))..---.))).))))...)))).)).))))... ( -27.20)
>consensus
CGUGCAGCAGCUGAAGCUGAAUUUGGCGCCCAACGUGGGGCACAUUCAACCGGAAUAAAAAGGUCUACCUAUUGGAGGGCCAUUGCCCAAACGCCCCAUCAUCAGAC_________
.((((..((((....))))......)))).....(((((((...................(((....)))......((((....))))....)))))))................. (-22.46 = -24.24 +   1.78)

alignment

secondary structure

dotplot

Window 8

Location	18,031,960 – 18,032,061
Length	101
Sequences	4
Columns	101
Reading direction	forward
Mean pairwise identity	89.44
Mean single sequence MFE	-30.05
Consensus MFE	-22.89
Energy contribution	-23.02
Covariance contribution	0.13
Combinations/Pair	1.18
Mean z-score	-1.81
Structure conservation index	0.76
SVM decision value	0.42
SVM RNA-class probability	0.730629
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18031960 101 + 22224390
GGGGCACAUUCAACCGGAAUAAAAAGGUUCACCUAUUGGAGGGCCCUUGCCCAAACGCCCCAUCACCAGACCUGUUCGUCUCCAUCAUCAUCAGCAGUCCA
(((((...(((((...((((......)))).....)))))((((....))))....))))).......(..(((((.((..........)).)))))..). ( -25.40)
>DroSec_CAF1 19942 101 + 1
GGGGCAUAUUCAACCGGAAUAAAAAGGUCUACCUAUUGGAGGGCCCUUGCCCAAACGCCCCAUCAUCAGACCAGCUCGUCUCCAUCAUCAUCAGCGGUCCA
(((((.(((((.....)))))....(((((.((....)).)))))...........))))).......((((.(((.((..........)).))))))).. ( -29.80)
>DroSim_CAF1 20271 101 + 1
GGGGCAUAUUCAACCGGAAUAAAAAGGUCUACCUAUUGGAGGGCCUUUGCCCAAACGCCCCAUCAUCAGACCAGCUCGUCUCCAUCAUCAUCAGCGCUCCA
(((((.(((((.....))))).((((((((.((....)).))))))))........)))))......((((......)))).................... ( -29.00)
>DroEre_CAF1 21881 101 + 1
GGGGCACAUUCACCGGGAGUAAAUGGGUCUACCUAUUGGCGGGCUAUUGCCCAAGCGCCCCAUCAUCAGAGCUGCUCGGCUCCAUCAUCAUCAGCGGGCCA
(((((.(...........((.((((((....)))))).))((((....))))..).))))).......(((...)))((((((..........).))))). ( -36.00)
>consensus
GGGGCACAUUCAACCGGAAUAAAAAGGUCUACCUAUUGGAGGGCCCUUGCCCAAACGCCCCAUCAUCAGACCAGCUCGUCUCCAUCAUCAUCAGCGGUCCA
(((((..((((.....))))....(((....)))......((((....))))....))))).......(..(((((................)))))..). (-22.89 = -23.02 +   0.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:41 2006