Locus 2457

Sequence ID 2R_DroMel_CAF1
Location 8,834,438 – 8,834,568
Length 130
Max. P 0.809492
window4057 window4058

overview

Window 7

Location 8,834,438 – 8,834,536
Length 98
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 79.62
Mean single sequence MFE -20.98
Consensus MFE -13.69
Energy contribution -14.75
Covariance contribution 1.06
Combinations/Pair 1.05
Mean z-score -1.78
Structure conservation index 0.65
SVM decision value 0.64
SVM RNA-class probability 0.809492
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8834438 98 + 20766785
-------CGGGCUG---CAUCAGCGUAAUUGCGGUUAUUUCACCUGUCGAAACAGAAAAUAAAAAAA--AAAACAAAACGCAGCCAGGUGAA-AACAAGUUGCAAUUUGUA------
-------..(((((---(....(((....)))..((((((...((((....)))).)))))).....--..........)))))).......-.((((((....)))))).------ ( -21.20)
>DroPse_CAF1 88325 84 + 1
--------GGGCAG---AAUCAGCGUAAUUGCGGUUAUUUCACCUGUCGAAA---------------AUAAAACAAAAUGCAGCCAGGUGAA-AACAAGUUGCAAUUUGUA------
--------.(((((---.....(((....)))((.....))..)))))....---------------.....(((((.((((((...((...-.))..)))))).))))).------ ( -21.80)
>DroGri_CAF1 92655 95 + 1
------UGAGGCAACGACAUCAGCGUAAUUGCAGUUAUUUCACCUGUCGCAA---------------AUAAAACAAAAUGCAGCCGGGCGCA-AACAAGUUGCAAUUUGUACUCGCU
------.(((....(((((...(((....))).(......)...)))))...---------------.....(((((.((((((..(.....-..)..)))))).))))).)))... ( -21.10)
>DroWil_CAF1 113795 85 + 1
-------AAGGGGG---UAGCCACGUAAUUGCGGUUAUUUCACCUGUCGAAA---------------AUAAAACAAAAUGCAUCGAGGCGAA-AACAAGUUGCAAUUUGUA------
-------...(..(---(((((.((....)).))))))..)...........---------------.....(((((.((((.(..(.....-..)..).)))).))))).------ ( -19.30)
>DroAna_CAF1 79995 93 + 1
UAUUUUUGUGGCAG---CAUCAGCGUAAUUGCGGUUAUUCCACCUGUCGAAA---------------AUAAAACAAAACGCAGCCAGGUGAAAAACAAGUUGCAAUUUGUA------
(((((((..(((((---.....(((....)))((.....))..)))))))))---------------)))..(((((..(((((...((.....))..)))))..))))).------ ( -20.70)
>DroPer_CAF1 91422 84 + 1
--------GGGCAG---AAUCAGCGUAAUUGCGGUUAUUUCACCUGUCGAAA---------------AUAAAACAAAAUGCAGCCAGGUGAA-AACAAGUUGCAAUUUGUA------
--------.(((((---.....(((....)))((.....))..)))))....---------------.....(((((.((((((...((...-.))..)))))).))))).------ ( -21.80)
>consensus
________GGGCAG___CAUCAGCGUAAUUGCGGUUAUUUCACCUGUCGAAA_______________AUAAAACAAAAUGCAGCCAGGUGAA_AACAAGUUGCAAUUUGUA______
.........((((.........(((....)))(((......)))))))........................(((((.((((((..(........)..)))))).)))))....... (-13.69 = -14.75 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,834,468 – 8,834,568
Length 100
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.49
Mean single sequence MFE -17.35
Consensus MFE -9.87
Energy contribution -10.32
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.84
Structure conservation index 0.57
SVM decision value 0.05
SVM RNA-class probability 0.559666
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8834468 100 + 20766785
CACCUGUCGAAACAGAAAAUAAAAAAA--AAAACAAAACGCAGCCAGGUGAA-AACAAGUUGCAAUUUGUA------GUUGCAAACAGUUCAAUUUCA-CUC-GU----UAC--CCA
...((((....))))............--.......((((......((((((-(((...(((((((.....------)))))))...))....)))))-)))-))----)..--... ( -15.90)
>DroPse_CAF1 88354 90 + 1
CACCUGUCGAAA---------------AUAAAACAAAAUGCAGCCAGGUGAA-AACAAGUUGCAAUUUGUA------GCUGCAAACAGUUCAAUUUCA-CUC-ACGUA-CAC--CCA
....(((((...---------------.....(((((.((((((...((...-.))..)))))).)))))(------((((....)))))........-...-.)).)-)).--... ( -18.90)
>DroGri_CAF1 92689 95 + 1
CACCUGUCGCAA---------------AUAAAACAAAAUGCAGCCGGGCGCA-AACAAGUUGCAAUUUGUACUCGCUGUUGCAAACAGUUCAAUUUCUACUUUGU----UCC--ACA
....((..((((---------------(....(((((.((((((..(.....-..)..)))))).)))))....(((((.....)))))...........)))))----..)--).. ( -18.70)
>DroWil_CAF1 113825 90 + 1
CACCUGUCGAAA---------------AUAAAACAAAAUGCAUCGAGGCGAA-AACAAGUUGCAAUUUGUA------GUUGCAAACAGUUCAAUUUCA-CG--ACACACAAC--CCG
....(((((...---------------............((......))(((-......(((((((.....------)))))))....))).......-))--)))......--... ( -15.70)
>DroAna_CAF1 80032 90 + 1
CACCUGUCGAAA---------------AUAAAACAAAACGCAGCCAGGUGAAAAACAAGUUGCAAUUUGUA------GUUGCAAACAGUUCAAUUUCA-CUC-GC----AACUCCCA
............---------------...............((..((((((((((...(((((((.....------)))))))...)))...)))))-)).-))----........ ( -16.00)
>DroPer_CAF1 91451 90 + 1
CACCUGUCGAAA---------------AUAAAACAAAAUGCAGCCAGGUGAA-AACAAGUUGCAAUUUGUA------GCUGCAAACAGUUCAAUUUCA-CUC-ACGUA-CAC--CCA
....(((((...---------------.....(((((.((((((...((...-.))..)))))).)))))(------((((....)))))........-...-.)).)-)).--... ( -18.90)
>consensus
CACCUGUCGAAA_______________AUAAAACAAAAUGCAGCCAGGUGAA_AACAAGUUGCAAUUUGUA______GUUGCAAACAGUUCAAUUUCA_CUC_AC____AAC__CCA
........((((....................(((((.((((((..(........)..)))))).)))))........(((....))).....)))).................... ( -9.87 = -10.32 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:31 2006