Locus 2927

Sequence ID 3L_DroMel_CAF1
Location 8,370,944 – 8,371,045
Length 101
Max. P 0.583004
window4568 window4569

overview

Window 8

Location 8,370,944 – 8,371,045
Length 101
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.78
Mean single sequence MFE -23.88
Consensus MFE -13.02
Energy contribution -13.58
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -2.37
Structure conservation index 0.55
SVM decision value 0.10
SVM RNA-class probability 0.583004
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8370944 101 + 23771897
CACUUAUCAUUGUUUGAAAUAGAGGCAAAACUGGCUUUAUUUAACACAAUUCCCAUAUCUGUAAACCCAC-------------------AUAUGCGUAGUGCCCUUUAAAUUCUAACAAU
((((...((((((...((((((((.((....)).))))))))...)))))...(((((.((......)).-------------------))))).).))))................... ( -15.70)
>DroSec_CAF1 2628 116 + 1
CACUUAUCAUGGUUUGAAAUAGGGGCAAAACUGGCUUUAUUUAACACAGAACCCAUAUCUGCAAACCCACACUAUUUGGAACUUGCUACAUAUGCGUAGUGCCCUUA----UCUCAGAAC
............(((((.(((((((((...(((.............))).((.(((((..((((..(((.......)))...))))...))))).))..))))))))----).))))).. ( -28.32)
>DroSim_CAF1 2664 113 + 1
CACUUAUCAUGGUUUGAAAUAGGGGCAAAACUGGCUUUAUUUAACACAGAACCCAUAUCUGCAAACCCACACUAUUUGGAACUUGCUACAUAUG---AGUGCCCUUA----UCUCAGAAC
............(((((.((((((((....(((.............))).((.(((((..((((..(((.......)))...))))...)))))---.)))))))))----).))))).. ( -27.62)
>consensus
CACUUAUCAUGGUUUGAAAUAGGGGCAAAACUGGCUUUAUUUAACACAGAACCCAUAUCUGCAAACCCACACUAUUUGGAACUUGCUACAUAUGCGUAGUGCCCUUA____UCUCAGAAC
((((...(((((((((((((((((.((....)).))))))))....((((.......))))))))))........................)))...))))................... (-13.02 = -13.58 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 8,370,944 – 8,371,045
Length 101
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.78
Mean single sequence MFE -31.50
Consensus MFE -16.67
Energy contribution -17.90
Covariance contribution 1.23
Combinations/Pair 1.07
Mean z-score -2.48
Structure conservation index 0.53
SVM decision value -0.02
SVM RNA-class probability 0.524748
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8370944 101 - 23771897
AUUGUUAGAAUUUAAAGGGCACUACGCAUAU-------------------GUGGGUUUACAGAUAUGGGAAUUGUGUUAAAUAAAGCCAGUUUUGCCUCUAUUUCAAACAAUGAUAAGUG
((((((.(((......(((((..((.(((((-------------------.((......)).)))))((..((((.....))))..)).))..)))))....))).))))))........ ( -24.20)
>DroSec_CAF1 2628 116 - 1
GUUCUGAGA----UAAGGGCACUACGCAUAUGUAGCAAGUUCCAAAUAGUGUGGGUUUGCAGAUAUGGGUUCUGUGUUAAAUAAAGCCAGUUUUGCCCCUAUUUCAAACCAUGAUAAGUG
(((.(((((----((.(((((..((.(((((.(.(((((..(((.....)).)..)))))).)))))((((.(((.....))).)))).))..))))).))))))))))........... ( -35.50)
>DroSim_CAF1 2664 113 - 1
GUUCUGAGA----UAAGGGCACU---CAUAUGUAGCAAGUUCCAAAUAGUGUGGGUUUGCAGAUAUGGGUUCUGUGUUAAAUAAAGCCAGUUUUGCCCCUAUUUCAAACCAUGAUAAGUG
(((.(((((----((.(((((((---(((((.(.(((((..(((.....)).)..)))))).)))))))).(((.(((......))))))....)))).))))))))))........... ( -34.80)
>consensus
GUUCUGAGA____UAAGGGCACUACGCAUAUGUAGCAAGUUCCAAAUAGUGUGGGUUUGCAGAUAUGGGUUCUGUGUUAAAUAAAGCCAGUUUUGCCCCUAUUUCAAACCAUGAUAAGUG
...................((((...(((((.................)))))((((((.(((((.((((.(((.(((......))))))....)))).)))))))))))......)))) (-16.67 = -17.90 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:13 2006