Locus 7314

Sequence ID 2L_DroMel_CAF1
Location 20,464,737 – 20,465,057
Length 320
Max. P 0.960766
window11715 window11716 window11717 window11718

overview

Window 5

Location 20,464,737 – 20,464,857
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.92
Mean single sequence MFE -42.28
Consensus MFE -35.54
Energy contribution -35.50
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -1.58
Structure conservation index 0.84
SVM decision value 0.85
SVM RNA-class probability 0.866422
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20464737 120 + 22407834
UUGUCCGCUAUUUUUAGCUGCCAACGCAGCGAUGUCGUGAGCGAAAGCGACGUUCAACGCGGGAUCGUCUUGUGAUAUUUUUAAACGACCACAUCGCUGCAGCGGCGGAGUCAAGUGCAU
...(((((((....)))).(((...((((((((((.((..((....)).........((((((.....)))))).............)).))))))))))...))))))........... ( -43.00)
>DroSec_CAF1 17735 120 + 1
UUGUCCGCUAUUUUUAGCUGCCAAAGCAGCGAUGUCGUGAGCGAAAGCGACGUUCACCGCGGGAUCGUCUUGUGAUAUUUUUAAACGACCACAUCGCUGCAGCGGCGGAGUCAAGUGCAC
...(((((((....)))).(((...((((((((((.(((((((.......)))))))((((((.....))))))................))))))))))...))))))........... ( -44.60)
>DroSim_CAF1 19657 120 + 1
UUGUCCGCUAUUUUUAGCUGCCAACGCAGCGAUGUCGUGAGCGAAAGCGACGUUCAACGCGGGAUCGUCUUGUGAUAUUUUUAAACGACCACAUCGCUGCAGCGGCGGAGUCAAGUGCAC
...(((((((....)))).(((...((((((((((.((..((....)).........((((((.....)))))).............)).))))))))))...))))))........... ( -43.00)
>DroEre_CAF1 20170 116 + 1
UGUU--GCUAUUUUUAGCUGCCAACGCAGCGAUGUCGUGAGCGCAAACGACGGGCCACGCGGGUUAGACUUG-GAUAUUUUUAAACGACCACAUCGCUGCAGCG-CGGAGUCAAGUGCAA
.((.--((((....)))).))....((((((((((((((.((.(.......).))))))..((((....(((-((....)))))..)))))))))))))).(((-(........)))).. ( -39.50)
>DroYak_CAF1 17352 120 + 1
UGGUUCACUAUUUUUAGCUGCCAACGCAGCGAUGUCGUGAGCGGAAUCGACGGGGAACGCGGGAUCGUCUUGCGAUAUUUUUAAACGACCACAUCGCUGCAGCGGCGGAGUCAAGUGCAC
..((.((((...(((.(((((....((((((((((((..(((((..(((.((.....)))))..))).))..)))((....))........))))))))).))))).)))...)))).)) ( -41.30)
>consensus
UUGUCCGCUAUUUUUAGCUGCCAACGCAGCGAUGUCGUGAGCGAAAGCGACGUUCAACGCGGGAUCGUCUUGUGAUAUUUUUAAACGACCACAUCGCUGCAGCGGCGGAGUCAAGUGCAC
..((.((((...(((.(((((....(((((((((((((..((....)).))).....(((((((...)))))))................)))))))))).))))).)))...)))).)) (-35.54 = -35.50 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,464,737 – 20,464,857
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.92
Mean single sequence MFE -40.47
Consensus MFE -33.34
Energy contribution -33.98
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.96
Structure conservation index 0.82
SVM decision value 1.52
SVM RNA-class probability 0.960766
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20464737 120 - 22407834
AUGCACUUGACUCCGCCGCUGCAGCGAUGUGGUCGUUUAAAAAUAUCACAAGACGAUCCCGCGUUGAACGUCGCUUUCGCUCACGACAUCGCUGCGUUGGCAGCUAAAAAUAGCGGACAA
...........(((((((.(((((((((((((((((((............))))))))...(((.((.((.......)).)))))))))))))))).)))).((((....)))))))... ( -43.50)
>DroSec_CAF1 17735 120 - 1
GUGCACUUGACUCCGCCGCUGCAGCGAUGUGGUCGUUUAAAAAUAUCACAAGACGAUCCCGCGGUGAACGUCGCUUUCGCUCACGACAUCGCUGCUUUGGCAGCUAAAAAUAGCGGACAA
...........(((((((..((((((((((((((((((............)))))))).....((((.((.......)).)))).))))))))))..)))).((((....)))))))... ( -44.70)
>DroSim_CAF1 19657 120 - 1
GUGCACUUGACUCCGCCGCUGCAGCGAUGUGGUCGUUUAAAAAUAUCACAAGACGAUCCCGCGUUGAACGUCGCUUUCGCUCACGACAUCGCUGCGUUGGCAGCUAAAAAUAGCGGACAA
...........(((((((.(((((((((((((((((((............))))))))...(((.((.((.......)).)))))))))))))))).)))).((((....)))))))... ( -43.50)
>DroEre_CAF1 20170 116 - 1
UUGCACUUGACUCCG-CGCUGCAGCGAUGUGGUCGUUUAAAAAUAUC-CAAGUCUAACCCGCGUGGCCCGUCGUUUGCGCUCACGACAUCGCUGCGUUGGCAGCUAAAAAUAGC--AACA
..(((..((((.(((-(((.(....(((.(((..(((....)))..)-)).)))....).))))))...))))..)))(((.(((.((....))))).))).((((....))))--.... ( -33.00)
>DroYak_CAF1 17352 120 - 1
GUGCACUUGACUCCGCCGCUGCAGCGAUGUGGUCGUUUAAAAAUAUCGCAAGACGAUCCCGCGUUCCCCGUCGAUUCCGCUCACGACAUCGCUGCGUUGGCAGCUAAAAAUAGUGAACCA
((.((((.......((((.(((((((((((((((((((............))))))))..(((.((......))...))).....))))))))))).))))..........)))).)).. ( -37.63)
>consensus
GUGCACUUGACUCCGCCGCUGCAGCGAUGUGGUCGUUUAAAAAUAUCACAAGACGAUCCCGCGUUGAACGUCGCUUUCGCUCACGACAUCGCUGCGUUGGCAGCUAAAAAUAGCGGACAA
..............((((.(((((((((((((((((((............))))))..)))).......((((..........))))))))))))).)))).((((....))))...... (-33.34 = -33.98 +   0.64)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,464,857 – 20,464,977
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.43
Mean single sequence MFE -42.65
Consensus MFE -31.18
Energy contribution -33.24
Covariance contribution 2.06
Combinations/Pair 1.09
Mean z-score -1.53
Structure conservation index 0.73
SVM decision value 0.13
SVM RNA-class probability 0.595852
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20464857 120 + 22407834
CGAGCACACCGAGUGCAUCGAGUGCUCCGCUCUGCAUGGGCAUCAAGUGUCCGGGGGCAGUUGCAGUUGCACUGGCUGUUGCUGUUGCAUUGGCCCAACAUCGGACCAAAUGAAGCCAUU
(((((((.....)))).)))(((((..(((.((((.(((((((...)))))))...))))..)).)..)))))((((..(((....)))((((.((......)).))))....))))... ( -45.80)
>DroSec_CAF1 17855 114 + 1
AGAGCACACCGAGUACACCGAGUGCUCCGCUCUGCAUGGGCAUCAAGUGUCCGGGGGCAGUUGCAGUUGCA------GUUGCUGUUGCAUUGGCCCAGCAUCGGACCAAAUGAAGCCAUU
(((((.....((((((.....)))))).))))).....(((.(((..(((((((((((...(((((..((.------...))..)))))...))))....))))).))..))).)))... ( -44.90)
>DroSim_CAF1 19777 99 + 1
CGAGC---------ACACCGAGUGCUCCGCUCUGCAUGGGCAUCAAGUGUCCGGGGGCAGUUG------CA------GUUGCUGUUGCAUUGGCCCAGCAUCGGACCAAAUGAAGCCAUU
.((((---------((.....))))))...........(((.(((..(((((((((((...((------((------(......)))))...))))....))))).))..))).)))... ( -37.80)
>DroYak_CAF1 17472 105 + 1
CGAGU---------ACACCGAGUGCUCCGCGCUGCAUGGGCAUCAAGUGUCCGGGGGCAGUUGCGAUUGCA------GUUGGUGUUGCAGUGGCCCAACAUCGGACCAAAUGAAGCCAUU
...((---------(((((((.(((..((((((((.(((((((...)))))))...)))).))))...)))------.)))))).)))((((((....(((........)))..)))))) ( -42.10)
>consensus
CGAGC_________ACACCGAGUGCUCCGCUCUGCAUGGGCAUCAAGUGUCCGGGGGCAGUUGCAGUUGCA______GUUGCUGUUGCAUUGGCCCAACAUCGGACCAAAUGAAGCCAUU
.((((((..............))))))...........(((.(((..(((((((((((...((((((.(((........))).))))))...))))....))))).))..))).)))... (-31.18 = -33.24 +   2.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,464,937 – 20,465,057
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.17
Mean single sequence MFE -50.10
Consensus MFE -36.22
Energy contribution -38.26
Covariance contribution 2.04
Combinations/Pair 1.03
Mean z-score -2.62
Structure conservation index 0.72
SVM decision value 1.09
SVM RNA-class probability 0.914252
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20464937 120 - 22407834
AAUCGGGAGUGAGCAGUCCGGCGCGAGAUGCCAACUCCCGGCAAGUGUGCCUAUAUUUGGGCCACAACUCCGCGCCGACUAAUGGCUUCAUUUGGUCCGAUGUUGGGCCAAUGCAACAGC
.....(((((.(..((((.((((((((.((((.......)))).(((.(((((....))))))))..)).))))))))))..).)))))..((((((((....))))))))......... ( -51.90)
>DroSec_CAF1 17929 120 - 1
AAUCCGGAGUGAGGAGUCCGGCGCGAGAAGCCAACUCCCGGCGAGUGUGCCUAUAUUUGGGCCACAACUCCGCGCCGGCUAAUGGCUUCAUUUGGUCCGAUGCUGGGCCAAUGCAACAGC
.....(((((.(..((.((((((((((..(((.......)))..(((.(((((....))))))))..)).))))))))))..).)))))..((((((((....))))))))......... ( -54.70)
>DroSim_CAF1 19836 120 - 1
AAUCCGGAGUGAGGAGUCCGGCGCGAGAAGCCAACUCCCGGCGAGUGUGCCUAUAUUUGGGCCACAACUCCGCGACGGCUAAUGGCUUCAUUUGGUCCGAUGCUGGGCCAAUGCAACAGC
...(((((.(....).))))).(((.(((((((....((((((((((((((((....)))).))).))).)))..)))....)))))))..((((((((....)))))))))))...... ( -49.20)
>DroEre_CAF1 20351 103 - 1
AAUCCGGAGCGAGGAGUCCGCCGCGAG-AGACAACUCCCGGCGAGUGUGCCUAUAUUUGGGCCACAACUCCGCGCCGGCUAAUGGCUUCAUUUGGUCCGA----------------CAAC
....((((.((((((((.(((((.(((-......))).))))).(((.(((((....)))))))).)))))..((((.....)))).....))).)))).----------------.... ( -44.80)
>DroYak_CAF1 17537 120 - 1
AGUCCGGAGUGAGGAGUCCGCCGCGAGAAGACAACUCCCGGCGAGUGUGCCUAUAUUUGGGCCACAACUCCGCGCCAGCUAAUGGCUUCAUUUGGUCCGAUGUUGGGCCACUGCAACACC
........(((.(((((.(((((.(((.......))).))))).(((.(((((....)))))))).)))))((((((.....))))......(((((((....)))))))..))..))). ( -49.90)
>consensus
AAUCCGGAGUGAGGAGUCCGGCGCGAGAAGCCAACUCCCGGCGAGUGUGCCUAUAUUUGGGCCACAACUCCGCGCCGGCUAAUGGCUUCAUUUGGUCCGAUGCUGGGCCAAUGCAACAGC
.....(((((.(..((.(((.((((((..(((.......)))..(((.(((((....))))))))..)).)))).)))))..).)))))...(((((((....))))))).......... (-36.22 = -38.26 +   2.04)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:14 2006