Locus 7278

Sequence ID 3R_DroMel_CAF1
Location 19,220,638 – 19,220,735
Length 97
Max. P 0.978278
window11775 window11776

overview

Window 5

Location 19,220,638 – 19,220,735
Length 97
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 77.48
Mean single sequence MFE -22.27
Consensus MFE -17.40
Energy contribution -17.90
Covariance contribution 0.50
Combinations/Pair 1.19
Mean z-score -2.08
Structure conservation index 0.78
SVM decision value 1.63
SVM RNA-class probability 0.968983
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19220638 97 + 27905053
UUUUUUUUUUUUUGUGCU-GAAGAUUCUGCUUUUCCCAUGGCCAAAACCCAGUCUGCCCAGCCCGCCCACUCUUGCCACCGUUUUGGCCAUGAAAGCU-
...............(((-(((((......))))).((((((((((((.......((...))..((........))....))))))))))))..))).- ( -21.90)
>DroSec_CAF1 16729 87 + 1
----------UUCUUGUU-GAAGAUUCCGCUUUUCCCAUGGCCAAAACCCAGUCUGCCCAGCCCGCCCACUAUUGCCACCGUUUUGGCCAUGAAAGCU-
----------.((((...-.))))....(((((...((((((((((((.......((...))..((........))....))))))))))))))))).- ( -22.90)
>DroSim_CAF1 16895 87 + 1
----------UUCUUGUU-GAAGAUUCCGCUUUUCCCAUGGCCAAAACCCAGUCUGCCCAGCCCGCCCACUCUUGCCACCGUUUUGGCCAUGAAAGCU-
----------.((((...-.))))....(((((...((((((((((((.......((...))..((........))....))))))))))))))))).- ( -22.90)
>DroEre_CAF1 17414 97 + 1
UUUUUUUUUCUCUUUGCU-AAAGAUUCCGCUUUUCCCAUGGCCAAAACCCAGUCUGCCCAGCCCGCCCACUCUUGCCACCGUUUUGGCCAUGAAAGCU-
..........((((....-.))))....(((((...((((((((((((.......((...))..((........))....))))))))))))))))).- ( -22.40)
>DroAna_CAF1 17017 82 + 1
---------------GCG-AGAGAUUCCACUUUUCCCAUGGCCAAAACCCAGCC-GACUGGCCCGCCCACUCUUGCCACUGUUUUGGCCACGAAAGCCU
---------------(((-.((((.......)))).).((((((((((...((.-((.(((.....))).))..))....)))))))))).....)).. ( -21.80)
>DroPer_CAF1 29835 78 + 1
-----------AUAGGCGGAGAGAUGCCGCUUUUCCCAUGACUGACACAC---------AGCUCGCCCACUCUGGCCACCGUUUUGGCCAUGAAAGUU-
-----------...(((((.((((.......))))))..(((((.....)---------)).)))))...((((((((......)))))).)).....- ( -21.70)
>consensus
__________UUUUUGCU_AAAGAUUCCGCUUUUCCCAUGGCCAAAACCCAGUCUGCCCAGCCCGCCCACUCUUGCCACCGUUUUGGCCAUGAAAGCU_
............................(((((...((((((((((((...((.......))..((........))....))))))))))))))))).. (-17.40 = -17.90 +   0.50)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,220,638 – 19,220,735
Length 97
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 77.48
Mean single sequence MFE -29.70
Consensus MFE -24.05
Energy contribution -24.33
Covariance contribution 0.28
Combinations/Pair 1.22
Mean z-score -2.49
Structure conservation index 0.81
SVM decision value 1.81
SVM RNA-class probability 0.978278
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19220638 97 - 27905053
-AGCUUUCAUGGCCAAAACGGUGGCAAGAGUGGGCGGGCUGGGCAGACUGGGUUUUGGCCAUGGGAAAAGCAGAAUCUUC-AGCACAAAAAAAAAAAAA
-.((((((((((((((((((.(.((....)).).)...(..(.....)..))))))))))))))...)))).........-.................. ( -29.30)
>DroSec_CAF1 16729 87 - 1
-AGCUUUCAUGGCCAAAACGGUGGCAAUAGUGGGCGGGCUGGGCAGACUGGGUUUUGGCCAUGGGAAAAGCGGAAUCUUC-AACAAGAA----------
-.((((((((((((((((((.(.((....)).).)...(..(.....)..))))))))))))))...))))....((((.-...)))).---------- ( -29.80)
>DroSim_CAF1 16895 87 - 1
-AGCUUUCAUGGCCAAAACGGUGGCAAGAGUGGGCGGGCUGGGCAGACUGGGUUUUGGCCAUGGGAAAAGCGGAAUCUUC-AACAAGAA----------
-.((((((((((((((((((.(.((....)).).)...(..(.....)..))))))))))))))...))))....((((.-...)))).---------- ( -29.80)
>DroEre_CAF1 17414 97 - 1
-AGCUUUCAUGGCCAAAACGGUGGCAAGAGUGGGCGGGCUGGGCAGACUGGGUUUUGGCCAUGGGAAAAGCGGAAUCUUU-AGCAAAGAGAAAAAAAAA
-.((((((((((((((((((.(.((....)).).)...(..(.....)..))))))))))))))...))))....(((((-.....)))))........ ( -31.20)
>DroAna_CAF1 17017 82 - 1
AGGCUUUCGUGGCCAAAACAGUGGCAAGAGUGGGCGGGCCAGUC-GGCUGGGUUUUGGCCAUGGGAAAAGUGGAAUCUCU-CGC---------------
....(..((((((((((((..((((..((.(((.....))).))-.)))).))))))))))))..)...((((......)-)))--------------- ( -32.40)
>DroPer_CAF1 29835 78 - 1
-AACUUUCAUGGCCAAAACGGUGGCCAGAGUGGGCGAGCU---------GUGUGUCAGUCAUGGGAAAAGCGGCAUCUCUCCGCCUAU-----------
-.....((.((((((......))))))))(((((.(((((---------((.(.(((....))).)...))))).)).).))))....----------- ( -25.70)
>consensus
_AGCUUUCAUGGCCAAAACGGUGGCAAGAGUGGGCGGGCUGGGCAGACUGGGUUUUGGCCAUGGGAAAAGCGGAAUCUUC_AGCAAAAA__________
..(((((((((((((((((....((........))...((((.....)))))))))))))))))...))))............................ (-24.05 = -24.33 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:56 2006