Locus 267

Sequence ID	2R_DroMel_CAF1
Location	1,660,853 – 1,660,967
Length	114
Max. P	0.927514

overview

Window 0

Location	1,660,853 – 1,660,967
Length	114
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.85
Mean single sequence MFE	-32.05
Consensus MFE	-29.60
Energy contribution	-29.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.91
Structure conservation index	0.92
SVM decision value	1.18
SVM RNA-class probability	0.927514
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1660853 114 + 20766785
GCAAAAAAC--AAAGAGAUUCCA----CAGGUAAAAUAGAAAUAUUCGCCCCCGGGUGGACUCGAACCACCAACCUUUCGGUUAACAGCCGAACGCGCUAACCAAUUGCGCCACGGAGGC
.........--............----.......((((....)))).(((.((((((((.......))))).....((((((.....)))))).((((.........))))..))).))) ( -30.30)
>DroPse_CAF1 75909 105 + 1
---UUUGGA--AAAGAGAAUAC----------AAAAAAAGUUGUUCCGCCCCCGGGUGGACUCGAACCACCAACCUUUCGGUUAACAGCCGAACGCGCUAACCAAUUGCGCCACGGAGGC
---...(((--.........((----------((......)))))))(((.((((((((.......))))).....((((((.....)))))).((((.........))))..))).))) ( -31.30)
>DroSec_CAF1 46436 113 + 1
GCAAAAUAC--AAAGAGAUU-CA----CAGGUAAAAUAGAAAUAUCCGCCCCCGGGUGGACUCGAACCACCAACCUUUCGGUUAACAGCCGAACGCGCUAACCAAUUGCGCCACGGAGGC
.........--.........-..----..((....(((....)))))(((.((((((((.......))))).....((((((.....)))))).((((.........))))..))).))) ( -30.60)
>DroSim_CAF1 43648 113 + 1
GCAAAAAAC--AAAGAGAUU-CA----CAGGUAAAAUAGAAAUAUUCGCCCCCGGGUGGACUCGAACCACCAACCUUUCGGUUAACAGCCGAACGCGCUAACCAAUUGCGCCACGGAGGC
.........--.........-..----.......((((....)))).(((.((((((((.......))))).....((((((.....)))))).((((.........))))..))).))) ( -30.30)
>DroEre_CAF1 50933 119 + 1
GCGAAAAAAGUAUAUAUAUU-AAAGGGCGGCCAAACUAAAAAAUGCCGCCCCCGGGUGGACUCGAACCACCAACCUUUCGGUUAACAGCCGAACGCGCUAACCAAUUGCGCCACGGAGGC
((..................-...(((((((.............)))))))((((((((.......))))).....((((((.....)))))).((((.........))))..)))..)) ( -38.92)
>DroPer_CAF1 69880 105 + 1
---AUGAGA--AAAGAGAAUAC----------AAAAAAGGUUGUUCCGCCCCCGGGUGGACUCGAACCACCAACCUUUCGGUUAACAGCCGAACGCGCUAACCAAUUGCGCCACGGAGGC
---.((((.--.........((----------((......))))((((((....))))))))))..((.((.....((((((.....)))))).((((.........))))...)).)). ( -30.90)
>consensus
GCAAAAAAA__AAAGAGAUU_CA____CAGGUAAAAUAGAAAUAUCCGCCCCCGGGUGGACUCGAACCACCAACCUUUCGGUUAACAGCCGAACGCGCUAACCAAUUGCGCCACGGAGGC
...............................................(((.((((((((.......))))).....((((((.....)))))).((((.........))))..))).))) (-29.60 = -29.60 +  -0.00)

alignment

secondary structure

dotplot

Window 1

Location	1,660,853 – 1,660,967
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.85
Mean single sequence MFE	-39.24
Consensus MFE	-36.90
Energy contribution	-36.90
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.79
Structure conservation index	0.94
SVM decision value	1.11
SVM RNA-class probability	0.917349
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1660853 114 - 20766785
GCCUCCGUGGCGCAAUUGGUUAGCGCGUUCGGCUGUUAACCGAAAGGUUGGUGGUUCGAGUCCACCCGGGGGCGAAUAUUUCUAUUUUACCUG----UGGAAUCUCUUU--GUUUUUUGC
(((((((.(((((.........)))).((((((..((((((....))))))..).)))))....).)))))))......((((((.......)----))))).......--......... ( -39.90)
>DroPse_CAF1 75909 105 - 1
GCCUCCGUGGCGCAAUUGGUUAGCGCGUUCGGCUGUUAACCGAAAGGUUGGUGGUUCGAGUCCACCCGGGGGCGGAACAACUUUUUUU----------GUAUUCUCUUU--UCCAAA---
(((((((.(((((.........)))).((((((..((((((....))))))..).)))))....).)))))))(((((((......))----------)).........--)))...--- ( -38.80)
>DroSec_CAF1 46436 113 - 1
GCCUCCGUGGCGCAAUUGGUUAGCGCGUUCGGCUGUUAACCGAAAGGUUGGUGGUUCGAGUCCACCCGGGGGCGGAUAUUUCUAUUUUACCUG----UG-AAUCUCUUU--GUAUUUUGC
(((((((.(((((.........)))).((((((..((((((....))))))..).)))))....).)))))))((((((......((((....----))-)).......--))))))... ( -38.22)
>DroSim_CAF1 43648 113 - 1
GCCUCCGUGGCGCAAUUGGUUAGCGCGUUCGGCUGUUAACCGAAAGGUUGGUGGUUCGAGUCCACCCGGGGGCGAAUAUUUCUAUUUUACCUG----UG-AAUCUCUUU--GUUUUUUGC
(((((((.(((((.........)))).((((((..((((((....))))))..).)))))....).)))))))(((((.......((((....----))-))......)--))))..... ( -37.22)
>DroEre_CAF1 50933 119 - 1
GCCUCCGUGGCGCAAUUGGUUAGCGCGUUCGGCUGUUAACCGAAAGGUUGGUGGUUCGAGUCCACCCGGGGGCGGCAUUUUUUAGUUUGGCCGCCCUUU-AAUAUAUAUACUUUUUUCGC
(((.....)))((....(((((((((.....)).)))))))(((((((.(((((.......))))).(((((((((.............))))))))).-.........)))))))..)) ( -43.02)
>DroPer_CAF1 69880 105 - 1
GCCUCCGUGGCGCAAUUGGUUAGCGCGUUCGGCUGUUAACCGAAAGGUUGGUGGUUCGAGUCCACCCGGGGGCGGAACAACCUUUUUU----------GUAUUCUCUUU--UCUCAU---
(((((((.(((((.........)))).((((((..((((((....))))))..).)))))....).)))))))(((((((......))----------)).))).....--......--- ( -38.30)
>consensus
GCCUCCGUGGCGCAAUUGGUUAGCGCGUUCGGCUGUUAACCGAAAGGUUGGUGGUUCGAGUCCACCCGGGGGCGGAAAUUUCUAUUUUACCUG____UG_AAUCUCUUU__GUUUUUUGC
(((((((.(((((.........)))).((((((..((((((....))))))..).)))))....).)))))))............................................... (-36.90 = -36.90 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:07 2006