Locus 4003

Sequence ID	3L_DroMel_CAF1
Location	11,670,412 – 11,670,510
Length	98
Max. P	0.650648

overview

Window 6

Location	11,670,412 – 11,670,510
Length	98
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	78.23
Mean single sequence MFE	-30.70
Consensus MFE	-20.15
Energy contribution	-19.68
Covariance contribution	-0.47
Combinations/Pair	1.17
Mean z-score	-1.34
Structure conservation index	0.66
SVM decision value	0.24
SVM RNA-class probability	0.650648
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11670412 98 - 23771897
UGUUGCAUG---------GUGUGCGGCCUACGUGACUCAGAAACAGUUAUCAAUGGCGCAACAC------AUACGGA--AAGUUCAGUGACCAAAA-U--UUGUGCAGCAGCCA-AACG
((((((((.---------(((((((.((...((((((.......))))))....))))).))))------.(((.((--....)).))).......-.--..))))))))....-.... ( -25.50)
>DroVir_CAF1 2042 108 - 1
UGUUGCACGUUGCG----CUGUGUGGCCUACGUGACUCAGAAACAGUUAUCAAUGGCGCAACAACAGCUGCUUC-AGCUGAGUUCACUGACCAAUU-U--UCGUGCAACAGCAA---CC
((((((((((((((----(((((((...)))((((((.......))))))..))))))))))..((((((...)-)))))................-.--..))))))))....---.. ( -36.70)
>DroPse_CAF1 4949 102 - 1
UGUUGCACA---------CUGUGUGGCCUACGUGACUCAGAAACAGUUAUCAAUGGCGCAACGUGCGAGUAUAC-GA--AAGUUCAGUGACCAAUUUU--CUGUGCAGCAGC---AGCA
(((((((((---------..((((((((...((((((.......))))))....)))((.....))...)))))-((--(((((........))))))--))))))))))..---.... ( -28.70)
>DroGri_CAF1 3439 110 - 1
UGUUGCACGUUGUUGUGGCCGUGUGGCCUACGUGACUCAGAAACAGUUAUCAAUGGCGCAACAACAGCUGCUUC-AA--AAGUUCACUGACCAAUU-U--UAGUGCAACGGCAA---CC
.(((((.(((((..(..((.((.(((((...((((((.......))))))....))).))...)).))..)...-..--.....((((((......-)--))))))))))))))---). ( -33.40)
>DroMoj_CAF1 4526 108 - 1
UGUUGCACGUUGCU----CUGUGUGGCCUACGUGACUCAGAAACAGUUAUCAAUGGCGCAACAACAGCUGCUUC-AA--AAGUUCACUGACCAAUU-CCGUAGUGCAACUGCAA---CC
.(((((((((((((----(((.((.((....)).)).))))....((((....)))))))))..(((..(((..-..--.)))...))).......-.....))))))).....---.. ( -30.00)
>DroPer_CAF1 4957 105 - 1
UGUUGCACA---------CUGUGUGGCCUACGUGACUCAGAAACAGUUAUCAAUGGCGCAACGUGCGAGUAUAC-GA--AAGUUCAGUGACCAAUUUU--CUGUGCAGCAGCAGCAGCA
(((((((((---------..((((((((...((((((.......))))))....)))((.....))...)))))-((--(((((........))))))--))))))))))((....)). ( -29.90)
>consensus
UGUUGCACG_________CUGUGUGGCCUACGUGACUCAGAAACAGUUAUCAAUGGCGCAACAACAGCUGAUAC_AA__AAGUUCACUGACCAAUU_U__UUGUGCAACAGCAA___CC
((((((((.............((((.((...((((((.......))))))....)))))).....................(((....)))...........))))))))......... (-20.15 = -19.68 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:09 2006