Locus 3129

Sequence ID	X_DroMel_CAF1
Location	8,338,626 – 8,338,746
Length	120
Max. P	0.960302

overview

Window 7

Location	8,338,626 – 8,338,746
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.58
Mean single sequence MFE	-28.02
Consensus MFE	-23.44
Energy contribution	-23.20
Covariance contribution	-0.24
Combinations/Pair	1.23
Mean z-score	-1.73
Structure conservation index	0.84
SVM decision value	1.12
SVM RNA-class probability	0.917669
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8338626 120 + 22224390
UGUAUUCAUAUAAUUUUUUAAAAGGCAGCGGCGCAUAACGGUUUUUUGAGUGCCCAGCGCAUGAGCGUUUAAUCAUUUUCGAUUUAUCUUGCUUUUUCGCUGCCUUUGUUUACCCUUUUU
....................((((((((((((((.....(((.........)))..))))..(((((...((((......)))).....)))))...))))))))))............. ( -30.50)
>DroSec_CAF1 3482 120 + 1
UUUAUUCAUACGUUUUUUUAAGGGGCAGUAGCGCAUAACGGUUUUCUGAGUGCCCAGCGCAUGAGCGUUUAAUCAUUUUCGAUUUAUCUGGCUUUUUCGCUGCCUUUGUUUACCCUUUUC
...................(((((((((..((((((..(((....))).))))..((((...((((....((((......))))......))))...))))))..))))...)))))... ( -25.00)
>DroSim_CAF1 3568 120 + 1
UUUAUUCAUACAUUUUUUUAAGGGGCAGCAGCGCAUAACGGUUUUCUGAGUGCCCAGCGCAUGAGCGUUUAAUCAUUUUCGAUUUAUCUGGCUUUUUCGCUGCCUUUGUUUACCCUUUUC
....................(((((((((.((((....(((....))).))))(((((((....)))...((((......))))...)))).......)))))))))............. ( -26.70)
>DroEre_CAF1 1627 114 + 1
------CAUAUAUUUUUUUAAGGGGCAGCGGCGCAUAACGGGUUUUUGAGUGCCCAGCGCAUGAGCGUUUAAUCAUUUUCAAUUUAUCUUGGUUUUUCGCUGCCUUUGUUUACCCUUUUU
------..............((((((((((((((.....((((........)))).))))((((........)))).....................))))))))))............. ( -29.40)
>DroYak_CAF1 2226 119 + 1
UGUUUUAAUACAUU-UUUUAAGGGGCAGCGGCGCAUAACGGGUUUUUGAGUGCCCAGCGCAUGAGCGUUUAAUCAUUUUCGAUUUAUCUUGGUUUUUCGCUGCUAUUGUUUACCCUUUUC
..............-....((((((((((((((...(((((((........))))(((((....)))))......................)))...))))))...)))...)))))... ( -28.50)
>consensus
UGUAUUCAUACAUUUUUUUAAGGGGCAGCGGCGCAUAACGGUUUUUUGAGUGCCCAGCGCAUGAGCGUUUAAUCAUUUUCGAUUUAUCUUGCUUUUUCGCUGCCUUUGUUUACCCUUUUC
....................((((((((((((((....(((....))).))))).(((((....))))).............................)))))))))............. (-23.44 = -23.20 +  -0.24)

alignment

secondary structure

dotplot

Window 8

Location	8,338,626 – 8,338,746
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.58
Mean single sequence MFE	-24.76
Consensus MFE	-20.46
Energy contribution	-20.10
Covariance contribution	-0.36
Combinations/Pair	1.14
Mean z-score	-1.96
Structure conservation index	0.83
SVM decision value	1.51
SVM RNA-class probability	0.960302
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8338626 120 - 22224390
AAAAAGGGUAAACAAAGGCAGCGAAAAAGCAAGAUAAAUCGAAAAUGAUUAAACGCUCAUGCGCUGGGCACUCAAAAAACCGUUAUGCGCCGCUGCCUUUUAAAAAAUUAUAUGAAUACA
.............((((((((((.....(((.(((.((((......))))....(((((.....)))))............))).)))..)))))))))).................... ( -26.70)
>DroSec_CAF1 3482 120 - 1
GAAAAGGGUAAACAAAGGCAGCGAAAAAGCCAGAUAAAUCGAAAAUGAUUAAACGCUCAUGCGCUGGGCACUCAGAAAACCGUUAUGCGCUACUGCCCCUUAAAAAAACGUAUGAAUAAA
...(((((....)...(((((........((((...((((......))))...(((....)))))))(((....(.....)....)))....)))))))))................... ( -20.60)
>DroSim_CAF1 3568 120 - 1
GAAAAGGGUAAACAAAGGCAGCGAAAAAGCCAGAUAAAUCGAAAAUGAUUAAACGCUCAUGCGCUGGGCACUCAGAAAACCGUUAUGCGCUGCUGCCCCUUAAAAAAAUGUAUGAAUAAA
...(((((........((((((.......((((...((((......))))...(((....)))))))(((....(.....)....)))))))))..)))))................... ( -26.10)
>DroEre_CAF1 1627 114 - 1
AAAAAGGGUAAACAAAGGCAGCGAAAAACCAAGAUAAAUUGAAAAUGAUUAAACGCUCAUGCGCUGGGCACUCAAAAACCCGUUAUGCGCCGCUGCCCCUUAAAAAAAUAUAUG------
...(((((....)...(((((((.....................((((........))))((((((((..........))))....))))))))))))))).............------ ( -25.60)
>DroYak_CAF1 2226 119 - 1
GAAAAGGGUAAACAAUAGCAGCGAAAAACCAAGAUAAAUCGAAAAUGAUUAAACGCUCAUGCGCUGGGCACUCAAAAACCCGUUAUGCGCCGCUGCCCCUUAAAA-AAUGUAUUAAAACA
...(((((.........((((((.....................((((........))))((((((((..........))))....)))))))))))))))....-.............. ( -24.80)
>consensus
GAAAAGGGUAAACAAAGGCAGCGAAAAAGCAAGAUAAAUCGAAAAUGAUUAAACGCUCAUGCGCUGGGCACUCAAAAAACCGUUAUGCGCCGCUGCCCCUUAAAAAAAUGUAUGAAUAAA
...(((((.........((((((.....................((((........))))(((((((............)))....)))))))))))))))................... (-20.46 = -20.10 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:39 2006