Locus 6207

Sequence ID 3L_DroMel_CAF1
Location 16,479,646 – 16,479,752
Length 106
Max. P 0.957878
window9961 window9962

overview

Window 1

Location 16,479,646 – 16,479,752
Length 106
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 76.22
Mean single sequence MFE -32.20
Consensus MFE -23.71
Energy contribution -24.10
Covariance contribution 0.39
Combinations/Pair 1.19
Mean z-score -1.73
Structure conservation index 0.74
SVM decision value 1.48
SVM RNA-class probability 0.957878
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16479646 106 + 23771897
AUUCCUCGGCGGUGCACUGAUCCGAGAGGCUGGUGAAACCGCAGAUGUCCGCAAAAAGGAUGCUGGAAAA-----GGGAAGAGGAAUAGGGGAAUUGUAAGC--UGCAGGACC
(((((((.(((((.((((...((....))..))))..))))).....((((((.......))).)))...-----.....)))))))..((...((((....--.))))..)) ( -32.80)
>DroPse_CAF1 111386 102 + 1
GUUCCUCGGCGGUGCACUGAUCCGAGAGGCUGGUGAAACCGCAAAUGUCCGCAAAGAGGAUGCUGCAAGG-----GAAACGGGGAGGAG----CUUGAGAGACAGGCAGGA--
.((((((((((((.((((...((....))..))))..)))))....((((.......)))).........-----....)))))))..(----((((.....)))))....-- ( -35.20)
>DroEre_CAF1 93551 91 + 1
GUUCCUCGGCGGUGCACUGAUCCGAGAGGCUGGUGAAACCGCAGAUGUCCGCAAAAAGGAUGCUGGAAAU------------GGAAAAGGGGAAUUGUGAGC--U--------
(((((((.(((((.((((...((....))..))))..))))).....((((((.......))).)))...------------......))))))).......--.-------- ( -29.00)
>DroYak_CAF1 96944 91 + 1
GUUCCUCGGCGGUGCACUGAUCCGAGAGGCUGGUGAAACCGCAGAUGUCCGCAAAAAGGAUGCUGGAAGA------------GGAAAAAAGGAAUUGUGAGU--U--------
.((((((.(((((.((((...((....))..))))..))))).....((((((.......))).))).))------------))))................--.-------- ( -29.40)
>DroAna_CAF1 102835 108 + 1
ACUCCUCCGCCGUGCACUGAUCCGAGAGGCUGGUGAAGCCGCAAAUGUCCGCAAACAGAAUGCUGGAAAACACACAGAAAGGGGAGAAGGUGGAAGGCGAGA--UGAAAG---
..((.((((((.(.((((..(((..(.((((.....)))).).....((((((.......))).)))...............)))...)))).).)))).))--.))...--- ( -31.60)
>DroPer_CAF1 114557 102 + 1
GUUCCUCGGCGGUGCACUGAUCCGAGAGGCUGGUGAAACCGCAAAUGUCCGCAAAGAGGAUGCUGCAAGG-----GAAACGGGGAGGAG----CUUGAGAGACAGGCAGGA--
.((((((((((((.((((...((....))..))))..)))))....((((.......)))).........-----....)))))))..(----((((.....)))))....-- ( -35.20)
>consensus
GUUCCUCGGCGGUGCACUGAUCCGAGAGGCUGGUGAAACCGCAAAUGUCCGCAAAAAGGAUGCUGGAAAA_____G_AA_GGGGAAAAGGGGAAUUGUGAGA__UGCAGG___
.((((((.(((((.((((...((....))..))))..)))))....((((.......))))...................))))))........................... (-23.71 = -24.10 +   0.39)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,479,646 – 16,479,752
Length 106
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 76.22
Mean single sequence MFE -25.08
Consensus MFE -15.78
Energy contribution -16.20
Covariance contribution 0.42
Combinations/Pair 1.10
Mean z-score -1.49
Structure conservation index 0.63
SVM decision value 0.54
SVM RNA-class probability 0.773415
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16479646 106 - 23771897
GGUCCUGCA--GCUUACAAUUCCCCUAUUCCUCUUCCC-----UUUUCCAGCAUCCUUUUUGCGGACAUCUGCGGUUUCACCAGCCUCUCGGAUCAGUGCACCGCCGAGGAAU
.........--...............(((((((.....-----...(((.(((.......)))))).....(((((..(((...((....))....))).))))).))))))) ( -24.90)
>DroPse_CAF1 111386 102 - 1
--UCCUGCCUGUCUCUCAAG----CUCCUCCCCGUUUC-----CCUUGCAGCAUCCUCUUUGCGGACAUUUGCGGUUUCACCAGCCUCUCGGAUCAGUGCACCGCCGAGGAAC
--....((.((.....)).)----)(((((.((((...-----....)).(((.......)))))......(((((..(((...((....))....))).))))).))))).. ( -23.60)
>DroEre_CAF1 93551 91 - 1
--------A--GCUCACAAUUCCCCUUUUCC------------AUUUCCAGCAUCCUUUUUGCGGACAUCUGCGGUUUCACCAGCCUCUCGGAUCAGUGCACCGCCGAGGAAC
--------.--................((((------------...(((.(((.......))))))..((.(((((..(((...((....))....))).))))).)))))). ( -22.00)
>DroYak_CAF1 96944 91 - 1
--------A--ACUCACAAUUCCUUUUUUCC------------UCUUCCAGCAUCCUUUUUGCGGACAUCUGCGGUUUCACCAGCCUCUCGGAUCAGUGCACCGCCGAGGAAC
--------.--................((((------------((.(((.(((.......)))))).....(((((..(((...((....))....))).))))).)))))). ( -24.30)
>DroAna_CAF1 102835 108 - 1
---CUUUCA--UCUCGCCUUCCACCUUCUCCCCUUUCUGUGUGUUUUCCAGCAUUCUGUUUGCGGACAUUUGCGGCUUCACCAGCCUCUCGGAUCAGUGCACGGCGGAGGAGU
---......--.............(((((((.....(((((..((.(((.(((.((((....))))....)))((((.....))))....)))..))..))))).))))))). ( -32.10)
>DroPer_CAF1 114557 102 - 1
--UCCUGCCUGUCUCUCAAG----CUCCUCCCCGUUUC-----CCUUGCAGCAUCCUCUUUGCGGACAUUUGCGGUUUCACCAGCCUCUCGGAUCAGUGCACCGCCGAGGAAC
--....((.((.....)).)----)(((((.((((...-----....)).(((.......)))))......(((((..(((...((....))....))).))))).))))).. ( -23.60)
>consensus
___CCUGCA__UCUCACAAUUCCCCUUCUCCCC_UU_C_____UCUUCCAGCAUCCUUUUUGCGGACAUCUGCGGUUUCACCAGCCUCUCGGAUCAGUGCACCGCCGAGGAAC
.........................(((((................(((.(((.......)))))).....(((((..(((...((....))....))).))))).))))).. (-15.78 = -16.20 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:44 2006