Locus 6619

Sequence ID 3L_DroMel_CAF1
Location 17,606,265 – 17,606,411
Length 146
Max. P 0.999894
window10771 window10772

overview

Window 1

Location 17,606,265 – 17,606,371
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.47
Mean single sequence MFE -19.30
Consensus MFE -18.06
Energy contribution -17.70
Covariance contribution -0.36
Combinations/Pair 1.10
Mean z-score -1.46
Structure conservation index 0.94
SVM decision value 0.63
SVM RNA-class probability 0.806695
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17606265 106 - 23771897
UUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACCAAAAUAAAAAGAAGGAACCCACUCCUGGCGAAAAGAAAAUCGAGAGGUAAGACUUACAAC-----AACU-------U--
((((((((.((((.........(((((.......)))))..............((((......))))))))....))...))))))...............-----....-------.-- ( -18.30)
>DroVir_CAF1 38822 114 - 1
UUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACACUAAUAAAAAGAAGGAAAUUACUCCUGGCGAAAAGAAAAUCGAGAGGUAAGAGU-ACAAC-----UACUAUAAAAAAUC
((((((((.((((.........(((((.......)))))..............((((......))))))))....))...))))))......(((-(....-----)))).......... ( -19.10)
>DroGri_CAF1 25347 111 - 1
UUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACACUAAUAAAAAGAAGGAAAUUACUCCUGGCGAAAAGAAAAUUGAGAGGUAAGAGU-ACAAC-----CACUACUAC-UA--
(((..(((.((((.........(((((.......)))))..............((((......))))))))....))...)..)))((((..(((-.....-----.)))..)))-).-- ( -19.80)
>DroWil_CAF1 33235 111 - 1
UUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACCAAAAUAAAAAGAAGGAACCUACUCCUGGCGAAAAGAAAAUCGAGAGGUAAGAGUAAUUACAAAAAAACU-------A--
((((((((.((((.........(((((.......)))))..............((((......))))))))....))...)))))).((((......)))).........-------.-- ( -20.10)
>DroMoj_CAF1 24330 113 - 1
UUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACACUAAUAAAAAGAAGGAAAUUACUCCUGGCGAAAAGAAAAUUGAGAGGUAAGAGU-ACAAC-----UACUAUAAA-AAUC
(((..(((.((((.........(((((.......)))))..............((((......))))))))....))...)..)))......(((-(....-----)))).....-.... ( -16.90)
>DroAna_CAF1 20218 103 - 1
UUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACCAAAAUAAAAAGAAGGAAACUACUCCUGGCGAAAAGAAAACCGAGAGGUAAGACUUA---C-----UACU-------U--
((((.....(((((.((.....(((((.......)))))..............((....))..)).)))))....))))(((....)))........---.-----....-------.-- ( -21.60)
>consensus
UUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACAAAAAUAAAAAGAAGGAAACUACUCCUGGCGAAAAGAAAAUCGAGAGGUAAGAGU_ACAAC_____UACU_______A__
((((.....((((.........(((((.......)))))..............((((......))))))))....))))(((....)))............................... (-18.06 = -17.70 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 2

Location 17,606,291 – 17,606,411
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.89
Mean single sequence MFE -31.75
Consensus MFE -30.47
Energy contribution -30.38
Covariance contribution -0.08
Combinations/Pair 1.04
Mean z-score -2.56
Structure conservation index 0.96
SVM decision value 4.42
SVM RNA-class probability 0.999894
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17606291 120 - 23771897
CGCCAAAGCAGGGCGGCGGCGGUAUUCGCAAGCAAAAUGCUUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACCAAAAUAAAAAGAAGGAACCCACUCCUGGCGAAAAGAAAA
((((......((..((((((((...(((.((((.....)))).)))))))(((((((...)))))))......))))..))............((((......))))))))......... ( -34.00)
>DroVir_CAF1 38856 120 - 1
CACAAAAGCAGGGCGCCGGCGGCAUUCGUAAGCAGAAUGCUUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACACUAAUAAAAAGAAGGAAAUUACUCCUGGCGAAAAGAAAA
.............((((((((((((((.......))))))).........(((((((...))))))).......)))................((((......))))))))......... ( -31.50)
>DroPse_CAF1 33232 120 - 1
CGCAAAAGCAGGGCGGCGGCGGUAUUCGCAAGCAAAAUGCUUUUGAUCGUGCCAAGAAACUUUUGGCCAAAAAUGCCAACCAAAAUAAAAAGAAGGAACCUACUCCUGGCGAAAAGAAAA
..((((((((..((....(((.....)))..))....)))))))).((.((((.........(((((.......)))))..............((((......))))))))....))... ( -30.80)
>DroGri_CAF1 25378 120 - 1
CUCAAAAGCAGGGCGCCGGCGGCAUUCGUAAGCAGAAUGCUUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACACUAAUAAAAAGAAGGAAAUUACUCCUGGCGAAAAGAAAA
.(((((((((....((..(((.....)))..))....)))))))))((.((((.........(((((.......)))))..............((((......))))))))....))... ( -31.90)
>DroMoj_CAF1 24363 120 - 1
CACAAAAGCAGGGCGCCGGCGGCAUUCGUAAGCAGAAUGCUUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACACUAAUAAAAAGAAGGAAAUUACUCCUGGCGAAAAGAAAA
.............((((((((((((((.......))))))).........(((((((...))))))).......)))................((((......))))))))......... ( -31.50)
>DroPer_CAF1 21742 120 - 1
CGCAAAAGCAGGGCGGCGGCGGUAUUCGCAAGCAAAAUGCUUUUGAUCGUGCCAAGAAACUUUUGGCCAAAAAUGCCAACCAAAAUAAAAAGAAGGAACCUACUCCUGGCGAAAAGAAAA
..((((((((..((....(((.....)))..))....)))))))).((.((((.........(((((.......)))))..............((((......))))))))....))... ( -30.80)
>consensus
CGCAAAAGCAGGGCGCCGGCGGCAUUCGCAAGCAAAAUGCUUUUGAUCGUGCCAAGAAACUUUUGGCUAAAAAUGCCAACAAAAAUAAAAAGAAGGAAACUACUCCUGGCGAAAAGAAAA
..((((((((..((....(((.....)))..))....)))))))).((.((((.........(((((.......)))))..............((((......))))))))....))... (-30.47 = -30.38 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:50 2006