Locus 5415

Sequence ID 3L_DroMel_CAF1
Location 14,836,162 – 14,836,258
Length 96
Max. P 0.977171
window8570 window8571

overview

Window 0

Location 14,836,162 – 14,836,258
Length 96
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 72.97
Mean single sequence MFE -20.46
Consensus MFE -10.65
Energy contribution -11.32
Covariance contribution 0.67
Combinations/Pair 1.22
Mean z-score -1.86
Structure conservation index 0.52
SVM decision value 0.93
SVM RNA-class probability 0.883595
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14836162 96 + 23771897
ACA-AACUUUUCCAGUGCAGAACUAUUCCCCCACUUUGCCUUCCCUGU-------UCGCCCCACCUGUGAGC---UGGCUCGGAAAAGGUUUUU----UCCUCUUU-----UUUUG
...-..(((((((((.(((((.............)))))))..((.((-------((((.......))))))---.))...)))))))......----........-----..... ( -20.22)
>DroSec_CAF1 12863 102 + 1
ACA-AACUUUUCCAGUGCAGAACUAUUCCUCCACUUUGCUUUCUCUGU-------UCGCCGCACCUGUGAGUUGUUGGCUCGGAAAAGUUUUUUUUUUUCCUUUU------UUUUU
..(-(((((((((.((((.((((.......................))-------))...))))....((((.....))))))))))))))..............------..... ( -22.70)
>DroSim_CAF1 13419 102 + 1
ACA-AACUUUUCCAGUGCAGAACUAUUCCUCCACUUUGCUUUCCCUGU-------UCGCCGCACCUGUGAGU---UGGCUCGGAAAAGUUUUUUUU--UCCUUUUUUUUA-UUUUU
..(-(((((((((.((((.((((.......................))-------))...))))....(((.---...))))))))))))).....--............-..... ( -21.80)
>DroEre_CAF1 14810 105 + 1
ACA-AACUUUUCCAGCGCAGAACUAUUCC--AACUUUGCUUUCCCUGUUCCCUGUUUGCCGCACCUGUGAGU---UGGCUCGGAAAAGCUUUCUU----UCCUUUUUAUU-UUUUG
...-..(((((((((((((((........--...)))))..................(((((....))).))---..))).))))))).......----...........-..... ( -17.00)
>DroYak_CAF1 8976 100 + 1
GCAAAACUUUUCCAGUGCAGAACUAUUCC-CCGCUUUGCUCUCCCUGC-------UCGUCGCACCUGUGAGU---UGGCUUGGAAAAGUUUUUUU----CCUCCUUUUUU-UUUUU
..(((((((((((((.(((((.(......-..).))))).)..((.((-------(((.((....)))))))---.))..))))))))))))...----...........-..... ( -23.10)
>DroAna_CAF1 7848 99 + 1
GAA-AACUUUUCGAUGGCAGAACUAUCUCCGGAGUCCGGAUCC------------UUGCAGUACCUGUGACUUCUUGGGAAAAAAAAGUUAUACU----UCGCUUUGAUUUUUUUU
...-...((..(((.((.(((....)))))(((((((((....------------.........))).)))))))))..))((((((((((....----......)))))))))). ( -17.92)
>consensus
ACA_AACUUUUCCAGUGCAGAACUAUUCC_CCACUUUGCUUUCCCUGU_______UCGCCGCACCUGUGAGU___UGGCUCGGAAAAGUUUUUUU____CCUCUUUU_UU_UUUUU
....(((((((((...(((((.............))))).............................((((.....))))))))))))).......................... (-10.65 = -11.32 +   0.67)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,836,162 – 14,836,258
Length 96
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 72.97
Mean single sequence MFE -23.37
Consensus MFE -12.17
Energy contribution -13.48
Covariance contribution 1.31
Combinations/Pair 1.30
Mean z-score -2.21
Structure conservation index 0.52
SVM decision value 1.79
SVM RNA-class probability 0.977171
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14836162 96 - 23771897
CAAAA-----AAAGAGGA----AAAAACCUUUUCCGAGCCA---GCUCACAGGUGGGGCGA-------ACAGGGAAGGCAAAGUGGGGGAAUAGUUCUGCACUGGAAAAGUU-UGU
.....-----........----......(((((((..(((.---.(((....((.......-------)).)))..)))..((((.((((....)))).)))))))))))..-... ( -23.30)
>DroSec_CAF1 12863 102 - 1
AAAAA------AAAAGGAAAAAAAAAAACUUUUCCGAGCCAACAACUCACAGGUGCGGCGA-------ACAGAGAAAGCAAAGUGGAGGAAUAGUUCUGCACUGGAAAAGUU-UGU
.....------..............((((((((((..(((....(((....)))..)))..-------.............((((.((((....)))).)))))))))))))-).. ( -24.50)
>DroSim_CAF1 13419 102 - 1
AAAAA-UAAAAAAAAGGA--AAAAAAAACUUUUCCGAGCCA---ACUCACAGGUGCGGCGA-------ACAGGGAAAGCAAAGUGGAGGAAUAGUUCUGCACUGGAAAAGUU-UGU
.....-............--.....((((((((((..(((.---(((....)))..)))..-------.............((((.((((....)))).)))))))))))))-).. ( -25.70)
>DroEre_CAF1 14810 105 - 1
CAAAA-AAUAAAAAGGA----AAGAAAGCUUUUCCGAGCCA---ACUCACAGGUGCGGCAAACAGGGAACAGGGAAAGCAAAGUU--GGAAUAGUUCUGCGCUGGAAAAGUU-UGU
.....-...........----....(((((((((((((...---.)))...((((((.....)..(((((......(((...)))--......)))))))))))))))))))-).. ( -23.20)
>DroYak_CAF1 8976 100 - 1
AAAAA-AAAAAAGGAGG----AAAAAAACUUUUCCAAGCCA---ACUCACAGGUGCGACGA-------GCAGGGAGAGCAAAGCGG-GGAAUAGUUCUGCACUGGAAAAGUUUUGC
.....-...........----...((((((((((((.((..---.(((.(...(((.....-------))).)))).))...((((-((.....))))))..)))))))))))).. ( -25.70)
>DroAna_CAF1 7848 99 - 1
AAAAAAAAUCAAAGCGA----AGUAUAACUUUUUUUUCCCAAGAAGUCACAGGUACUGCAA------------GGAUCCGGACUCCGGAGAUAGUUCUGCCAUCGAAAAGUU-UUC
....(((((.....(((----.((...(((((((......))))))).)).((((..((..------------...(((((...)))))....))..)))).)))....)))-)). ( -17.80)
>consensus
AAAAA_AA_AAAAAAGG____AAAAAAACUUUUCCGAGCCA___ACUCACAGGUGCGGCGA_______ACAGGGAAAGCAAAGUGG_GGAAUAGUUCUGCACUGGAAAAGUU_UGU
..........................(((((((((..(((....(((....)))..)))......................((((.((((....)))).))))))))))))).... (-12.17 = -13.48 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:49 2006