Locus 4455

Sequence ID	2R_DroMel_CAF1
Location	14,649,376 – 14,649,519
Length	143
Max. P	0.965901

overview

Window 6

Location	14,649,376 – 14,649,485
Length	109
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	76.30
Mean single sequence MFE	-34.52
Consensus MFE	-24.28
Energy contribution	-24.17
Covariance contribution	-0.11
Combinations/Pair	1.17
Mean z-score	-1.91
Structure conservation index	0.70
SVM decision value	1.59
SVM RNA-class probability	0.965901
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14649376 109 - 20766785
UCCAACUGGAGCCGCAGACUCGUGGGCGCUCAGCCUCGGCUGGUGCGCAGUUCAAAAACGAUUUGGGCUACAUGAAGAAGAUCUUCAAGUAGCG----CUUAA---AAGACACUCU
.....((.((((..((((.((((..(((((((((....))))).)))).........)))))))).(((((.(((((.....))))).))))))----)))..---.))....... ( -38.30)
>DroPse_CAF1 7631 108 - 1
--CUCCUAGAGCCGCAGCCCCGUGGCCGCUCUGCUUCGGCGGGGGCUCAGUUCAAGAACGACCUCAGCUACAUGAAGAAGAUCUUCAAAUAGUC----CUCCCCCACA-CCCUUU-
--......(((((((.(((....))).))(((((....)))))))))).(((....))).......((((..(((((.....)))))..)))).----..........-......- ( -32.50)
>DroEre_CAF1 4151 108 - 1
UCCAACUGGAGCCGCAGACACGUGGACGAUCAGCCUCGGCUGGUGCGCAGUUCAAAAACGAUUUGGGCUACAUGAAGAAGAUCUUCAAGUAGCG----CUAAG---AAGCCACUC-
(((....)))...........((((.(.((((((....))))))((((.(((((((.....)))))))(((.(((((.....))))).))))))----)....---..)))))..- ( -35.60)
>DroWil_CAF1 306 109 - 1
AUAAUCUUGAGCCGCUUCCACGCGGACGCUCUGCCUCGGCGGGAGCUCAAUUCAAAAAUGACCUUAGCUACAUGAAGAAAAUCUUCAAGUAGUUUCCUCUCAA---U--AUAUU--
......((((((.((.(((....))).))(((((....))))).))))))........(((....((((((.(((((.....))))).)))))).....))).---.--.....-- ( -32.10)
>DroYak_CAF1 4138 108 - 1
UCCAACUGGAGCCGCAGACACGUGGGCGAUCCGCCUCGGCUGGUGCGCAGUUCAAAAACGAUUUGGGCUACAUGAAGAAGAUCUUCAAGUAGCG----CUGAA---UAGCCAUUU-
(((....)))..(((......)))((((...))))..(((((..((((.(((((((.....)))))))(((.(((((.....))))).))))))----)....---)))))....- ( -36.10)
>DroPer_CAF1 7837 108 - 1
--CUCCUAGAGCCGCAGCCCCGUGGCCGCUCUGCUUCGGCGGGGGCUCAGUUCAAGAACGACCUCAGCUACAUGAAGAAGAUCUUCAAAUAGUC----CUCCCCCACA-CCCUUU-
--......(((((((.(((....))).))(((((....)))))))))).(((....))).......((((..(((((.....)))))..)))).----..........-......- ( -32.50)
>consensus
UCCAACUGGAGCCGCAGACACGUGGACGCUCUGCCUCGGCGGGUGCGCAGUUCAAAAACGACCUGAGCUACAUGAAGAAGAUCUUCAAGUAGCG____CUCAA___AA_CCAUUU_
........(((((((......)))).).((((((....)))))).......)).............(((((.(((((.....))))).)))))....................... (-24.28 = -24.17 +  -0.11)

alignment

secondary structure

dotplot

Window 7

Location	14,649,408 – 14,649,519
Length	111
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	81.80
Mean single sequence MFE	-47.12
Consensus MFE	-33.99
Energy contribution	-34.50
Covariance contribution	0.51
Combinations/Pair	1.44
Mean z-score	-2.16
Structure conservation index	0.72
SVM decision value	0.73
SVM RNA-class probability	0.835292
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14649408 111 + 20766785
CUUCAUGUAGCCCAAAUCGUUUUUGAACUGCGCACCAGCCGAGGCUGAGCGCCCACGAGUCUGCGGCUCCAGUUGGAGUUGCGAGUGGGGAAAGGACUGGGGUUGGUGUUU
......((((..((((.....))))..))))(((((((((..((((...(.(((((.....(((((((((....))))))))).))))))...)).))..))))))))).. ( -46.90)
>DroSec_CAF1 4180 111 + 1
CUUCAUGUAGCCCAAAUCGUUUUUGAACUGCGCACCAGCCGAGGCUGAUCGCCCACGAGUUUGCGGCUCCAGUUGGAGUUGCGAGUGGGGAAAGGACUGGGGUUGGUGCUU
......((((..((((.....))))..))))(((((((((..((((..((.(((((....((((((((((....)))))))))))))))))..)).))..))))))))).. ( -51.40)
>DroEre_CAF1 4182 111 + 1
CUUCAUGUAGCCCAAAUCGUUUUUGAACUGCGCACCAGCCGAGGCUGAUCGUCCACGUGUCUGCGGCUCCAGUUGGAGUUGCGAGUGGGGAAAGGACUGGGGUUGGUGCUU
......((((..((((.....))))..))))(((((((((..((((..((.(((((.....(((((((((....))))))))).)))))))..)).))..))))))))).. ( -47.60)
>DroYak_CAF1 4169 111 + 1
CUUCAUGUAGCCCAAAUCGUUUUUGAACUGCGCACCAGCCGAGGCGGAUCGCCCACGUGUCUGCGGCUCCAGUUGGAGCUGCGAGUGGGGAAAGGACUGAGGUUGGUGCUU
......((((..((((.....))))..))))(((((((((..(((...((.(((((.....(((((((((....))))))))).)))))))...).))..))))))))).. ( -50.70)
>DroMoj_CAF1 339 108 + 1
CUUCAUAUAGCUAAGAUCGUUUUUGAGCUGCGCCCCCGCCGAGGCAGAGCGACUGCGCUGCUGCGGCUCAAAGGC-GGGCGCGGGCGGUGCCAGG--UGCGAACUGUGCCC
..................(((((((((((((((....))...(((((.((....)).))))))))))))))))))-((((((((....(((....--.)))..)))))))) ( -46.60)
>DroAna_CAF1 7532 111 + 1
UUUCAUGUAGCUUAUGUCGUUUUUGAACUGCGCCCCAGCUGAAGCGGAACGUCCACGCGCUUCUGGCUCCAGUUGGAGCUGAGAGUGUGGAAAGGAUUGGGGAUGGUGCUU
..((((((((.(((.........))).)))).(((((((....)).....((((.(((((((..((((((....))))))..)))))))....)))))))))))))..... ( -39.50)
>consensus
CUUCAUGUAGCCCAAAUCGUUUUUGAACUGCGCACCAGCCGAGGCUGAUCGCCCACGAGUCUGCGGCUCCAGUUGGAGUUGCGAGUGGGGAAAGGACUGGGGUUGGUGCUU
......((((..((((.....))))..))))(((((((((..(((...((.(((((.....(((((((((....))))))))).)))))))...).))..))))))))).. (-33.99 = -34.50 +   0.51)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:02 2006