Locus 5685

Sequence ID 2R_DroMel_CAF1
Location 18,023,257 – 18,023,356
Length 99
Max. P 0.896198
window9104 window9105

overview

Window 4

Location 18,023,257 – 18,023,356
Length 99
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 91.32
Mean single sequence MFE -34.18
Consensus MFE -25.76
Energy contribution -25.80
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -2.30
Structure conservation index 0.75
SVM decision value 0.99
SVM RNA-class probability 0.896198
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18023257 99 + 20766785
-----UUUGAGUGCCGGAACAAAGGCAGCCUUCAUGAUAUCCUCGGAUGAGCAUUUGGCUGGUAUGCAGCUUCAUUCUCAUGGGUUGCUUCUGGU----UCCCGUCCU
-----....((..(.(((((..((((((((..(((((.......((((((......(((((.....))))))))))))))))))))))))...))----))).)..)) ( -33.31)
>DroSec_CAF1 37243 99 + 1
-----UUUGAGUGCCGGAACAAAGGCAGCCUUCAUGAUAUCCUCGGAUGAGCAUUUGGCUGCUAUGCAGCUUCAUUCUCAUGCGCUGCUUCUGGU----UCCCCUCCU
-----...(((.(((((((....(((((((...(((.((((....))))..)))..)))))))..(((((..(((....))).))))))))))))----....))).. ( -35.00)
>DroSim_CAF1 36270 103 + 1
-----UUUGAGUGCCGGAACAAAGGCAGCCUUCAUGAUAUCCUCGGAUGAGCAUUUGGCUGGUAUGCAGCUUCAUUCUCAUGCGCUGCUUCUGGUCUUCUUCCUUCCU
-----...(((.((((((.....((((((......((.....))(.(((((.((..(((((.....)))))..)).))))).))))))))))))).)))......... ( -31.90)
>DroEre_CAF1 38787 98 + 1
-----UUUGAGUGCCGGAACAAAGACAGCCUUCAUGAUAUCCUCGGAUGAGCAUUUGGCUGGUAUGCAGCUUCAUUCUCAUGGGCUGCUUCUGGU----UCCCCUCU-
-----...(((.(((((((......(((((...(((.((((....))))..)))..)))))....((((((.(((....))))))))))))))))----....))).- ( -33.20)
>DroYak_CAF1 36670 103 + 1
GUGCGUUUGAGUGGCGGAACAAAGACAGCCUUCAUGAUAUCCUCGGAUGAGCAUUUGGCUGGUAUGCAGCUUCAUUCUCAUGCGCUGCUUCUGGU----UCCGCUGC-
..........(..(((((((..((((((((...(((.((((....))))..)))..)))))....(((((..(((....))).))))).))).))----)))))..)- ( -37.50)
>consensus
_____UUUGAGUGCCGGAACAAAGGCAGCCUUCAUGAUAUCCUCGGAUGAGCAUUUGGCUGGUAUGCAGCUUCAUUCUCAUGCGCUGCUUCUGGU____UCCCCUCCU
............(((((((......(((((...(((.((((....))))..)))..)))))....(((((.............))))))))))))............. (-25.76 = -25.80 +   0.04)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,023,257 – 18,023,356
Length 99
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 91.32
Mean single sequence MFE -31.86
Consensus MFE -22.90
Energy contribution -22.90
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -2.30
Structure conservation index 0.72
SVM decision value 0.42
SVM RNA-class probability 0.729296
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18023257 99 - 20766785
AGGACGGGA----ACCAGAAGCAACCCAUGAGAAUGAAGCUGCAUACCAGCCAAAUGCUCAUCCGAGGAUAUCAUGAAGGCUGCCUUUGUUCCGGCACUCAAA-----
((..(.(((----((.(((.(((.(((((((.......((((.....))))...((.(((....))).)).)))))..)).))).)))))))).)..))....----- ( -27.10)
>DroSec_CAF1 37243 99 - 1
AGGAGGGGA----ACCAGAAGCAGCGCAUGAGAAUGAAGCUGCAUAGCAGCCAAAUGCUCAUCCGAGGAUAUCAUGAAGGCUGCCUUUGUUCCGGCACUCAAA-----
..(((.(((----((.(((.(((((.(((((.......(((((...)))))...((.(((....))).)).)))))...))))).))))))))....)))...----- ( -34.30)
>DroSim_CAF1 36270 103 - 1
AGGAAGGAAGAAGACCAGAAGCAGCGCAUGAGAAUGAAGCUGCAUACCAGCCAAAUGCUCAUCCGAGGAUAUCAUGAAGGCUGCCUUUGUUCCGGCACUCAAA-----
.((((.((((..........(((((.(((....)))..)))))....(((((..(((...(((....)))..)))...))))).)))).))))..........----- ( -30.90)
>DroEre_CAF1 38787 98 - 1
-AGAGGGGA----ACCAGAAGCAGCCCAUGAGAAUGAAGCUGCAUACCAGCCAAAUGCUCAUCCGAGGAUAUCAUGAAGGCUGUCUUUGUUCCGGCACUCAAA-----
-.(((.(((----((.(((..((((((((((.......((((.....))))...((.(((....))).)).)))))..)))))..))))))))....)))...----- ( -32.90)
>DroYak_CAF1 36670 103 - 1
-GCAGCGGA----ACCAGAAGCAGCGCAUGAGAAUGAAGCUGCAUACCAGCCAAAUGCUCAUCCGAGGAUAUCAUGAAGGCUGUCUUUGUUCCGCCACUCAAACGCAC
-...(((((----((.(((.(((((.(((....)))..)))))....(((((..(((...(((....)))..)))...))))))))..)))))))............. ( -34.10)
>consensus
AGGAGGGGA____ACCAGAAGCAGCGCAUGAGAAUGAAGCUGCAUACCAGCCAAAUGCUCAUCCGAGGAUAUCAUGAAGGCUGCCUUUGUUCCGGCACUCAAA_____
.....((((......((((.(((((.(((((.......((((.....))))...((.(((....))).)).)))))...))))).))))))))............... (-22.90 = -22.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:47 2006