Locus 3319

Sequence ID	X_DroMel_CAF1
Location	8,872,026 – 8,872,207
Length	181
Max. P	0.807682

overview

Window 7

Location	8,872,026 – 8,872,146
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.71
Mean single sequence MFE	-47.06
Consensus MFE	-38.68
Energy contribution	-37.96
Covariance contribution	-0.72
Combinations/Pair	1.20
Mean z-score	-1.44
Structure conservation index	0.82
SVM decision value	0.25
SVM RNA-class probability	0.653100
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8872026 120 + 22224390
UGGCUCUGGCUUUCGGAUCUCCGCAGUGCGGUUUGGAUCUAUCGGGAGACAUCGGGGGCCAUCGCCAGCAUUCCACCCAACCCGCCCCCUGAGCCACUUCCGGUCACGGAGGCGCGCUUC
((((..(((((..(((((((((((...))))...))))).....(....)..))..)))))..)))).......................(((((.((((((....)))))).).)))). ( -45.40)
>DroSec_CAF1 2438 119 + 1
UGGCUCUGGCUUUCGGAUCUCCGUAGU-CGGUUUGGAUCCAUCGGGAGCCAUCGGGGGCCAUCGCCAGCAUUCCACCCAUCCCGCCCCCAGAGCCACUUUCGGUCACGGAGGUGCGCUUC
.((((((((((..((((((((((....-)))...))))))...)..))))...((((((........................))))))))))))(((((((....)))))))....... ( -50.36)
>DroSim_CAF1 2762 119 + 1
UGGCUCUGGCUUUCGGAUCUCCGUAGU-CGGUUUGGAUCCAUCGGGAGCCAUCGGGGGCCAUCGCCAGCAUUCCACCCAUCCCGCCCCCAGAGCCACUUCCGGUCACGGAGGUGCGCCUC
.((((((((((..((((((((((....-)))...))))))...)..))))...((((((........................))))))))))))(((((((....)))))))....... ( -53.26)
>DroEre_CAF1 2122 109 + 1
UGGCUCUGGCUUUCGGAUCUCUGUAGU-CGGUUUGGGUCAAUU----------GGGGGCCAUCGCCAGCAUUCCACCCAACCCGCCCCCUGAGCCACUUCCGGUCACGGAGGUGCGCUUC
.(((...((((..(((....))).)))-)((.((((((....(----------(..(((....)))..))....)))))).)))))....((((((((((((....)))))))).)))). ( -45.30)
>DroYak_CAF1 2610 111 + 1
UGGCUCUGGCUUUCGGAUCUUCGUAGU-CGGUUUGGAUCCAUCCG--------GGGGGCCAUCGCCUGCAUUCCACCCAACCCGCCCCCUGAGCCACUUCCGGUCACGGAGGCGCGCUUC
.(((.((((((...(((((((((....-)))...))))))...((--------((((((........................)))))))))))))((((((....)))))).).))).. ( -40.96)
>consensus
UGGCUCUGGCUUUCGGAUCUCCGUAGU_CGGUUUGGAUCCAUCGGGAG_CAUCGGGGGCCAUCGCCAGCAUUCCACCCAACCCGCCCCCUGAGCCACUUCCGGUCACGGAGGUGCGCUUC
.(((..((((((..(((((((((.....)))...)))))).............((((((........................)))))).))))))((((((....))))))...))).. (-38.68 = -37.96 +  -0.72)

alignment

secondary structure

dotplot

Window 8

Location	8,872,106 – 8,872,207
Length	101
Sequences	4
Columns	103
Reading direction	forward
Mean pairwise identity	92.48
Mean single sequence MFE	-34.17
Consensus MFE	-29.58
Energy contribution	-30.32
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.75
Structure conservation index	0.87
SVM decision value	0.64
SVM RNA-class probability	0.807682
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8872106 101 + 22224390
CCCGCCCCCUGAGCCACUUCCGGUCACGGAGGCGCGCUUCCGGCGUGGGUAAUCAUGUUUUGGAUUGCACAC--ACGAGCAAAAAUUAAUGUUAACUACACAG
.((((.((..(((((.((((((....)))))).).))))..)).))))((((((........))))))....--...((((........)))).......... ( -29.90)
>DroSim_CAF1 2841 101 + 1
CCCGCCCCCAGAGCCACUUCCGGUCACGGAGGUGCGCCUCCGGCGUGGGUAAUCAUGUUUUGGAUUGCACAC--ACGAGCAAAAAUUAGUGUUAACUACACAG
...((..((.((((((((((((....)))))))).).))).))((((.((((((........))))))...)--))).))........((((.....)))).. ( -35.70)
>DroEre_CAF1 2191 103 + 1
CCCGCCCCCUGAGCCACUUCCGGUCACGGAGGUGCGCUUCCGGCGUGGGUAAUCAUGUUUUGGAUUGCACACACACACGCAAAAAUUAGUGUUAACUAAUGUU
.((((.((..((((((((((((....)))))))).))))..)).))))((((((........))))))................((((((....))))))... ( -37.20)
>DroYak_CAF1 2681 101 + 1
CCCGCCCCCUGAGCCACUUCCGGUCACGGAGGCGCGCUUCCGGCGUGGGUAAUCAUGUUUUGGAUUGCACAC--ACUAGCAAAAAUUACUGUUAACUACAGUG
.((((.((..(((((.((((((....)))))).).))))..)).))))((((((........))))))....--............((((((.....)))))) ( -33.90)
>consensus
CCCGCCCCCUGAGCCACUUCCGGUCACGGAGGCGCGCUUCCGGCGUGGGUAAUCAUGUUUUGGAUUGCACAC__ACGAGCAAAAAUUAGUGUUAACUACACAG
.((((.((..((((((((((((....)))))))).))))..)).))))((((((........))))))................................... (-29.58 = -30.32 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:18 2006