Locus 5048

Sequence ID 2L_DroMel_CAF1
Location 14,479,818 – 14,479,935
Length 117
Max. P 0.936024
window8027 window8028

overview

Window 7

Location 14,479,818 – 14,479,935
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.31
Mean single sequence MFE -38.93
Consensus MFE -28.69
Energy contribution -28.63
Covariance contribution -0.05
Combinations/Pair 1.03
Mean z-score -3.15
Structure conservation index 0.74
SVM decision value 1.25
SVM RNA-class probability 0.936024
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14479818 117 + 22407834
UGAACAAA---GAGGGGCGAAGGCGGGGAAUACGAACAAAAGGGCUGGAAAACAAAAGCCAAACAAUAAGCAACAGUGACAGUGGCACUGUUGUCUUCUGCUCCACGUUCCCUUCUGAAU
.......(---((((((((..(((((((..............((((..........)))).........(((((((((.......))))))))).)))))))...))..))))))).... ( -34.60)
>DroSec_CAF1 4389 120 + 1
UGAACGGGGGGGAGUGGCGAAGGCGGGGGAUACGAACAAAAGGGCUGGAAAACAAAAGCCAAACAAUAAGCAACAGUGACAGUGGCACUGUUGUCUUCUGCUCCACGUUCCCUUCUGAAU
....(((((((((((((....((((((((.............((((..........)))).........(((((((((.......)))))))))))))))))))))..)))))))))... ( -45.00)
>DroEre_CAF1 5857 105 + 1
UGAAGGGAG---------------GGGGGAUGUGAACAAAAGGGCUGGAAAACAAAAGCCAAACAAUAAGCAACAGUGACAGUGGCACUGUUGUCUUCUGCUCCACGUUCCCUCCUGAAU
....(((((---------------((((..((.((.((.(((((((..........)))).........(((((((((.......)))))))))))).)).))))..))))))))).... ( -37.20)
>consensus
UGAACGGAG__GAG_GGCGAAGGCGGGGGAUACGAACAAAAGGGCUGGAAAACAAAAGCCAAACAAUAAGCAACAGUGACAGUGGCACUGUUGUCUUCUGCUCCACGUUCCCUUCUGAAU
................((....))(((((((..((.((.(((((((..........)))).........(((((((((.......)))))))))))).)).))...)))))))....... (-28.69 = -28.63 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,479,818 – 14,479,935
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.31
Mean single sequence MFE -33.43
Consensus MFE -29.49
Energy contribution -29.27
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.24
Structure conservation index 0.88
SVM decision value 1.16
SVM RNA-class probability 0.923724
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14479818 117 - 22407834
AUUCAGAAGGGAACGUGGAGCAGAAGACAACAGUGCCACUGUCACUGUUGCUUAUUGUUUGGCUUUUGUUUUCCAGCCCUUUUGUUCGUAUUCCCCGCCUUCGCCCCUC---UUUGUUCA
.....((((((((..((.((((((((.(((((((((....).))))))))..........((((..........))))))))))))))..))))).((....)).....---....))). ( -31.20)
>DroSec_CAF1 4389 120 - 1
AUUCAGAAGGGAACGUGGAGCAGAAGACAACAGUGCCACUGUCACUGUUGCUUAUUGUUUGGCUUUUGUUUUCCAGCCCUUUUGUUCGUAUCCCCCGCCUUCGCCACUCCCCCCCGUUCA
.....((((((...((((((((((((.(((((((((....).))))))))..........((((..........))))))))))))).........((....))))).....))).))). ( -31.50)
>DroEre_CAF1 5857 105 - 1
AUUCAGGAGGGAACGUGGAGCAGAAGACAACAGUGCCACUGUCACUGUUGCUUAUUGUUUGGCUUUUGUUUUCCAGCCCUUUUGUUCACAUCCCCC---------------CUCCCUUCA
.....((((((...((((((((((((.(((((((((....).))))))))..........((((..........))))))))))))).)))...))---------------))))..... ( -37.60)
>consensus
AUUCAGAAGGGAACGUGGAGCAGAAGACAACAGUGCCACUGUCACUGUUGCUUAUUGUUUGGCUUUUGUUUUCCAGCCCUUUUGUUCGUAUCCCCCGCCUUCGCC_CUC__CUCCGUUCA
...((((((((...(..(((((((((.(((((((((....).))))))))((........)))))))))))..)..)))))))).................................... (-29.49 = -29.27 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:33 2006