Locus 3254

Sequence ID 2R_DroMel_CAF1
Location 11,113,558 – 11,113,649
Length 91
Max. P 0.610662
window5339

overview

Window 9

Location 11,113,558 – 11,113,649
Length 91
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 77.07
Mean single sequence MFE -18.24
Consensus MFE -10.72
Energy contribution -11.33
Covariance contribution 0.61
Combinations/Pair 1.16
Mean z-score -1.52
Structure conservation index 0.59
SVM decision value 0.16
SVM RNA-class probability 0.610662
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11113558 91 - 20766785
GUUGGCGG-CUGCAGUUCAUAUGUCAAAUUU-UUGGCACAUGUCCAA-CAACCCCACAAAAGGGGGUACAGAAAA-UAC----A-AAAAAAAAAAAGAAC
(((((.((-(....)))(((.((((((....-)))))).))).))))-).(((((.......)))))........-...----.-............... ( -19.20)
>DroVir_CAF1 39852 80 - 1
GUUGGCGGCCUGCAGUUCAUAUGUCAAAUUU-UUGGCACAUGUCCAAAAAUAAAAAUAC-AUGAGGCCCAA------------------ACGAAGCGAAG
(((.(.(((((..........((((((....-))))))(((((..............))-))))))))).)------------------))......... ( -17.64)
>DroSec_CAF1 25482 93 - 1
GUUGGCGG-CUGCAGUUCAUAUGUCAAAUUU-UUGGCACAUGUCCAA-CAACCCGACAAAAGGGGGUACAGAAAAAUAA----ACAAAAACAAAAAGAAC
(((((.((-(....)))(((.((((((....-)))))).))).))))-)..(((.......)))...............----................. ( -15.80)
>DroEre_CAF1 26067 96 - 1
GUUGGCGG-CUGCAGUUCAUAUGUCAAAUUU-UUGGCACAUGUCCAA-CAACCCCACAA-AGGGGGUACAAAAAAUAAUACAAAAAAAAAAAAAGAGAAC
(((((.((-(....)))(((.((((((....-)))))).))).))))-).(((((....-..)))))................................. ( -19.70)
>DroYak_CAF1 27691 92 - 1
GUUGGCGG-CUGCAGUUCAUAUGUCAAAUUU-UUGGCACAUGUCCAA-CAACCCCACAA-AGGGGGUACACAAAACCAU----AAAAAAAAAAGGAAAAC
(((((.((-(....)))(((.((((((....-)))))).))).))))-).(((((....-..)))))............----................. ( -19.70)
>DroMoj_CAF1 42253 83 - 1
GUUGGCGGCCUGCAGUUCAUAUGUCAAAUUUGUUGGCACAUGUCCAA-AAUAAAAAUAC-AUGAGGCCCAAA---------------AAACGAAGCGAAC
(((.(((((((..........((((((.....))))))(((((....-.........))-))))))))(...---------------....)..)).))) ( -17.42)
>consensus
GUUGGCGG_CUGCAGUUCAUAUGUCAAAUUU_UUGGCACAUGUCCAA_CAACCCCACAA_AGGGGGUACAAAAAA__A_____A_AAAAAAAAAGAGAAC
.(((((........(..(((.((((((.....)))))).)))..)......((((......)))))).)))............................. (-10.72 = -11.33 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:07 2006