Locus 5057

Sequence ID	2R_DroMel_CAF1
Location	16,431,619 – 16,431,714
Length	95
Max. P	0.902302

overview

Window 1

Location	16,431,619 – 16,431,714
Length	95
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	76.43
Mean single sequence MFE	-19.54
Consensus MFE	-12.77
Energy contribution	-13.43
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.68
Structure conservation index	0.65
SVM decision value	1.02
SVM RNA-class probability	0.902302
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16431619 95 + 20766785
-----CC--AGCCAGGCUCCGGAAAUUAAACAAUUUCCGUUUGCUAUUUAUUUUAACGAAAUUAAGUUGUACCCGCUCUU----UAUCAUCCCCUUGCAUUUAAAA
-----..--.((.(((...((((((((....))))))))..(((.(((((.(((....))).))))).))).........----........))).))........ ( -15.60)
>DroPse_CAF1 136583 89 + 1
-----ACGGAGCCAGGCUCCGGAAAUUAAAUAAUUUCCGUUUGCAAUUUAUUUUAACGAAAUUAAGCUGUGCCAGCUAUU----CAG----ACCUUCCAUCC----
-----..(((((...)))))((((......(((((((.(((.............))))))))))(((((...)))))...----...----...))))....---- ( -20.22)
>DroSec_CAF1 107229 95 + 1
-----CC--AGCCAGGCUCCGGAAAUUAAACAAUUUCCGCUUGCUAUUUAUUUUAACGAAAUUAAGUUGUGCCCGCUCUU----AAUCAACCCCUUGCAUCUAAAA
-----..--.((.(((....(((((((....)))))))((..((.(((((.(((....))).)))))...))..))....----........))).))........ ( -16.60)
>DroMoj_CAF1 179975 91 + 1
-----CC--AGCCAGGCGCCGGAAAUUAAAUAAUUUCCGUUUGCAAUUUAUUUUAACGAAAUUAAGCUGUGCCAACUAAAGCAGCGCCCCCUCC-G-------CCG
-----..--.....(((((((((((((....))))))))...)).....................(((((..........))))).........-)-------)). ( -21.30)
>DroAna_CAF1 102552 97 + 1
CUCAGCC--AGCCAGGCUCCGGAAAUUAAAUAAUUUCCGUUUGCAAUUUAUUUUAACGAAAUUAAGCUGUGCCAGCUGUU----UAUCGUGUAACUGCAUGGA---
.....((--(..(((((..((((((((....))))))))...))...........((((.....(((((...)))))...----..))))....)))..))).--- ( -25.50)
>DroPer_CAF1 137679 89 + 1
-----ACGGAGCCAGGCCCCGGAAAUUAAAUAAUUUCCGUUUGCAAUUUAUUUUAACGAAAUUAAGCUGUGCCAGCUAUU----CAG----ACCUUCCAUCC----
-----..((((....((..((((((((....))))))))...)).............(((....(((((...))))).))----)..----...))))....---- ( -18.00)
>consensus
_____CC__AGCCAGGCUCCGGAAAUUAAAUAAUUUCCGUUUGCAAUUUAUUUUAACGAAAUUAAGCUGUGCCAGCUAUU____CAUC__CACCUUGCAUCC____
.........(((..(((..((((((((....))))))))...(((.((((.(((....))).)))).)))))).)))............................. (-12.77 = -13.43 +   0.67)

alignment

secondary structure

dotplot

Window 2

Location	16,431,619 – 16,431,714
Length	95
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	76.43
Mean single sequence MFE	-23.05
Consensus MFE	-15.05
Energy contribution	-14.88
Covariance contribution	-0.16
Combinations/Pair	1.17
Mean z-score	-1.20
Structure conservation index	0.65
SVM decision value	0.11
SVM RNA-class probability	0.589242
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16431619 95 - 20766785
UUUUAAAUGCAAGGGGAUGAUA----AAGAGCGGGUACAACUUAAUUUCGUUAAAAUAAAUAGCAAACGGAAAUUGUUUAAUUUCCGGAGCCUGGCU--GG-----
........((.(((........----...((((((...........))))))...............((((((((....))))))))...))).)).--..----- ( -16.70)
>DroPse_CAF1 136583 89 - 1
----GGAUGGAAGGU----CUG----AAUAGCUGGCACAGCUUAAUUUCGUUAAAAUAAAUUGCAAACGGAAAUUAUUUAAUUUCCGGAGCCUGGCUCCGU-----
----(((.(..((((----..(----((.(((((...)))))....)))..................((((((((....))))))))..))))..))))..----- ( -22.50)
>DroSec_CAF1 107229 95 - 1
UUUUAGAUGCAAGGGGUUGAUU----AAGAGCGGGCACAACUUAAUUUCGUUAAAAUAAAUAGCAAGCGGAAAUUGUUUAAUUUCCGGAGCCUGGCU--GG-----
......................----...(((((((.............((((.......))))...((((((((....))))))))..)))).)))--..----- ( -18.60)
>DroMoj_CAF1 179975 91 - 1
CGG-------C-GGAGGGGGCGCUGCUUUAGUUGGCACAGCUUAAUUUCGUUAAAAUAAAUUGCAAACGGAAAUUAUUUAAUUUCCGGCGCCUGGCU--GG-----
(((-------(-...(((.((((((((......)))..)))..........................((((((((....)))))))))).))).)))--).----- ( -26.70)
>DroAna_CAF1 102552 97 - 1
---UCCAUGCAGUUACACGAUA----AACAGCUGGCACAGCUUAAUUUCGUUAAAAUAAAUUGCAAACGGAAAUUAUUUAAUUUCCGGAGCCUGGCU--GGCUGAG
---....(((((((..((((..----...(((((...))))).....)))).......)))))))..((((((((....)))))))).((((.....--))))... ( -27.00)
>DroPer_CAF1 137679 89 - 1
----GGAUGGAAGGU----CUG----AAUAGCUGGCACAGCUUAAUUUCGUUAAAAUAAAUUGCAAACGGAAAUUAUUUAAUUUCCGGGGCCUGGCUCCGU-----
----(((.(..((((----(((----((.(((((...)))))....)))..................((((((((....))))))))))))))..))))..----- ( -26.80)
>consensus
____AGAUGCAAGGAG__GAUG____AAUAGCUGGCACAGCUUAAUUUCGUUAAAAUAAAUUGCAAACGGAAAUUAUUUAAUUUCCGGAGCCUGGCU__GG_____
.............................(((((((..(((........)))...............((((((((....))))))))..))).))))......... (-15.05 = -14.88 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:23 2006