Locus 7753

Sequence ID X_DroMel_CAF1
Location 19,293,450 – 19,293,588
Length 138
Max. P 0.999612
window12727 window12728 window12729

overview

Window 7

Location 19,293,450 – 19,293,558
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.42
Mean single sequence MFE -29.81
Consensus MFE -27.03
Energy contribution -27.27
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.92
Structure conservation index 0.91
SVM decision value 2.48
SVM RNA-class probability 0.994500
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19293450 108 - 22224390
ACUGAUGGCGACGAACGAUGCAAGAACACUUU-----CACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUUGCUCUUUCGCCAGCAA-ACUUCUGU------GCACUCCUG
((..((((.(((...(((.((((((((((...-----.........)))))))))).))).....)))))))..))(((((((........)))))-))......------......... ( -29.60)
>DroSec_CAF1 72083 113 - 1
ACUGAUGGCGACGAACGAUGCAAGAACACUUCCAUUACACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUUGCUCUUUCGCCAGCAA-ACUUCUGC------GCACUCCUG
.....((((((.....((.((((((((((.................)))))))))).))(((((...((....))..)))))....))))))(((.-.....)))------......... ( -29.53)
>DroSim_CAF1 76485 113 - 1
ACUGAUGGCGACGAACGAUGCAAGAACACUUCCAUUACACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUUGCUCUUUCGCCAGCAA-ACUUCUGC------GCACUCCUG
.....((((((.....((.((((((((((.................)))))))))).))(((((...((....))..)))))....))))))(((.-.....)))------......... ( -29.53)
>DroEre_CAF1 68152 112 - 1
ACUGAUGGCGACGAACGAUGCAAGAACACUUCU-------UCACAUGUGUUUUUGUUUCGCAA-AGUUCUAUUGGUGUUUGCUCUUUCGCCAGCAAAACUUCUGCACUUCCGCACUCCUG
..((.((((((.....((.((((((((((....-------......)))))))))).))((((-(..((....))..)))))....)))))).)).......(((......)))...... ( -30.00)
>DroYak_CAF1 73235 105 - 1
ACUGAUGGCGACGAACGAUGCAAGAACACUUCU-------UCACAUGUGUUUUUGUUUCGCAA-AGUUCUAUUGGUGUUUGCUCUUUCGCCAGCAA-ACUUCUGC------GCACUCCUG
((..((((.(((...(((.((((((((((....-------......)))))))))).)))...-.)))))))..))(((((((........)))))-))......------......... ( -30.40)
>consensus
ACUGAUGGCGACGAACGAUGCAAGAACACUUCC____CACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUUGCUCUUUCGCCAGCAA_ACUUCUGC______GCACUCCUG
..((.((((((.....((.((((((((((.................)))))))))).))(((((...((....))..)))))....)))))).)).......(((......)))...... (-27.03 = -27.27 +   0.24)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,293,483 – 19,293,588
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.04
Mean single sequence MFE -27.54
Consensus MFE -19.53
Energy contribution -19.93
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.71
SVM decision value 0.28
SVM RNA-class probability 0.666001
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19293483 105 + 22224390
AAACACCAAUAGAACUUUUGCGAAACAAAAACACAUGUGUGUG-----AAAGUGUUCUUGCAUCGUUCGUCGCCAUCAGUGGCGAAAA----------GCGACGAAAAGCUAAUAUGUGU
..((((...(((..(((((((((((((...((((....)))).-----....)))).)))).(((((..((((((....))))))..)----------))))..))))))))....)))) ( -30.30)
>DroSec_CAF1 72116 110 + 1
AAACACCAAUAGAACUUUUGCGAAACAAAAACACAUGUGUGUGUAAUGGAAGUGUUCUUGCAUCGUUCGUCGCCAUCAGUGGCGAAAA----------GCGACGAAAAGCUAAUAUGUGU
..((((...(((..(((((((((((((...(((((....)))))........)))).)))).(((((..((((((....))))))..)----------))))..))))))))....)))) ( -28.30)
>DroSim_CAF1 76518 110 + 1
AAACACCAAUAGAACUUUUGCGAAACAAAAACACAUGUGUGUGUAAUGGAAGUGUUCUUGCAUCGUUCGUCGCCAUCAGUGGCGAAAA----------GCGACGAAAAGCUAAUAUGUGU
..((((...(((..(((((((((((((...(((((....)))))........)))).)))).(((((..((((((....))))))..)----------))))..))))))))....)))) ( -28.30)
>DroEre_CAF1 68192 112 + 1
AAACACCAAUAGAACU-UUGCGAAACAAAAACACAUGUGA-------AGAAGUGUUCUUGCAUCGUUCGUCGCCAUCAGUGGCGAAAAGCGAGGAAAAGCGACGAAAAGCUAAUAUGUAU
..(((((.........-.(((((((((....((....)).-------.....)))).)))))(((((..((((((....))))))..)))))))...(((........)))....))).. ( -27.00)
>DroYak_CAF1 73268 102 + 1
AAACACCAAUAGAACU-UUGCGAAACAAAAACACAUGUGA-------AGAAGUGUUCUUGCAUCGUUCGUCGCCAUCAGUGGCGAAAA----------GCGACGAAAAGCUAAUAUGUAU
..(((....(((..((-((.((...(((.(((((......-------....))))).)))..(((((..((((((....))))))..)----------)))))).)))))))...))).. ( -23.80)
>consensus
AAACACCAAUAGAACUUUUGCGAAACAAAAACACAUGUGUGUG____AGAAGUGUUCUUGCAUCGUUCGUCGCCAUCAGUGGCGAAAA__________GCGACGAAAAGCUAAUAUGUGU
..((((...(((.....((((((..(((.(((((.................))))).)))..)).((((((((.....))))))))............)))).......)))....)))) (-19.53 = -19.93 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,293,483 – 19,293,588
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.04
Mean single sequence MFE -32.60
Consensus MFE -26.99
Energy contribution -27.15
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -3.82
Structure conservation index 0.83
SVM decision value 3.78
SVM RNA-class probability 0.999612
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19293483 105 - 22224390
ACACAUAUUAGCUUUUCGUCGC----------UUUUCGCCACUGAUGGCGACGAACGAUGCAAGAACACUUU-----CACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUU
((((.....(((((((((((((----------(..(((....))).)))))))).(((.((((((((((...-----.........)))))))))).)))..))))))......)))).. ( -33.30)
>DroSec_CAF1 72116 110 - 1
ACACAUAUUAGCUUUUCGUCGC----------UUUUCGCCACUGAUGGCGACGAACGAUGCAAGAACACUUCCAUUACACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUU
((((.....(((((((((((((----------(..(((....))).)))))))).(((.((((((((((.................)))))))))).)))..))))))......)))).. ( -32.93)
>DroSim_CAF1 76518 110 - 1
ACACAUAUUAGCUUUUCGUCGC----------UUUUCGCCACUGAUGGCGACGAACGAUGCAAGAACACUUCCAUUACACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUU
((((.....(((((((((((((----------(..(((....))).)))))))).(((.((((((((((.................)))))))))).)))..))))))......)))).. ( -32.93)
>DroEre_CAF1 68192 112 - 1
AUACAUAUUAGCUUUUCGUCGCUUUUCCUCGCUUUUCGCCACUGAUGGCGACGAACGAUGCAAGAACACUUCU-------UCACAUGUGUUUUUGUUUCGCAA-AGUUCUAUUGGUGUUU
((((.....((((((((((((((.......((.....)).......)))))))).(((.((((((((((....-------......)))))))))).))).))-))))......)))).. ( -32.24)
>DroYak_CAF1 73268 102 - 1
AUACAUAUUAGCUUUUCGUCGC----------UUUUCGCCACUGAUGGCGACGAACGAUGCAAGAACACUUCU-------UCACAUGUGUUUUUGUUUCGCAA-AGUUCUAUUGGUGUUU
((((.....(((((((((((((----------(..(((....))).)))))))).(((.((((((((((....-------......)))))))))).))).))-))))......)))).. ( -31.60)
>consensus
ACACAUAUUAGCUUUUCGUCGC__________UUUUCGCCACUGAUGGCGACGAACGAUGCAAGAACACUUCC____CACACACAUGUGUUUUUGUUUCGCAAAAGUUCUAUUGGUGUUU
((((.....(((((((...................((((((....))))))....(((.((((((((((.................)))))))))).))).)))))))......)))).. (-26.99 = -27.15 +   0.16)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:49 2006