Locus 4764

Sequence ID	3L_DroMel_CAF1
Location	13,378,397 – 13,378,498
Length	101
Max. P	0.823495

overview

Window 8

Location	13,378,397 – 13,378,498
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.00
Mean single sequence MFE	-37.55
Consensus MFE	-22.03
Energy contribution	-22.67
Covariance contribution	0.64
Combinations/Pair	1.13
Mean z-score	-1.73
Structure conservation index	0.59
SVM decision value	-0.06
SVM RNA-class probability	0.505097
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13378397 101 + 23771897
AAUUGUCUUGGCAACAAAUGGGGGCCAAAAC-GAUGCUCACAGCGAGGCGAGGCGACAGUGGCCAUGGCCACCG--AC-------UGGCUACUGGUUAUGAGCACGACCAG---------
.(((((.(((((..(.....)..))))).))-)))(((((.(((.((((.((.((...(((((....)))))))--.)-------).))..)).))).)))))........--------- ( -38.90)
>DroPse_CAF1 28535 93 + 1
AAUUGUCUGGGCCACAAAUGGGGGCCAAAAC-GAUGCCAACUGCGA-----GGCGACAGC---CA--GCAGCCGGUGC-------UGGCUACUGGUUAUGAGCACGACCAG---------
.(((((...((((.(....)..))))...))-)))(((........-----)))...(((---((--(((.....)))-------))))).((((((........))))))--------- ( -34.80)
>DroSec_CAF1 49910 110 + 1
AAUUGUCUUGGCAACAAAUGGGGGCCAAAAC-GAUGCUCACAGCGAGGCGAGGCGACAGUGGCCAUGGCCACCG--AC-------UGGCUACUGGUUAUGAGCACGACCAGGAGGAGUUC
.(((((.(((((..(.....)..))))).))-)))((((..(((.((.((.(....).(((((....)))))))--.)-------).))).((((((........))))))...)))).. ( -40.70)
>DroEre_CAF1 50165 95 + 1
AAUUGUCUUGGCAACAAAUGGGGGCCAAAAC-GAUGCCCACAGCGA-----GGCGACAGCGGCCAUGGCCACCG--AC-------UGGCUACUGGUUAUGAGCACGACCA----------
.(((((.(((((..(.....)..))))).))-)))((.((..((..-----(....).))(((((((((((...--..-------)))))).))))).)).)).......---------- ( -29.80)
>DroYak_CAF1 52224 108 + 1
AAUUGUCUUGGCAACAAAUGGGGGCCAAAAC-GAUGCUCACAGCGA-----GGCGACAGUGGCCAUGGCCACCG--ACUUGCUACUGGCUACUGGUUAUGAGCACGACCAGGAGAG----
.(((((.(((((..(.....)..))))).))-))).(((..(((((-----(.((...(((((....)))))))--.))))))........((((((........)))))))))..---- ( -40.20)
>DroAna_CAF1 49318 92 + 1
AAUUGUCUUGGCAACAAAUGUUGGCCGGAGCGGAUGCCCACGGCGA-----GGCGACUGUGGCCACCGCC-------C-------CGGCUACUGGUUAUGAGCACGACCAG---------
.......(((....)))....(((((((.((((.((.((((((((.-----..)).)))))).)))))).-------)-------))))))((((((........))))))--------- ( -40.90)
>consensus
AAUUGUCUUGGCAACAAAUGGGGGCCAAAAC_GAUGCCCACAGCGA_____GGCGACAGUGGCCAUGGCCACCG__AC_______UGGCUACUGGUUAUGAGCACGACCAG_________
.......(((....))).....(((((.......((((.............))))...(((((....))))).............))))).((((((........))))))......... (-22.03 = -22.67 +   0.64)

alignment

secondary structure

dotplot

Window 9

Location	13,378,397 – 13,378,498
Length	101
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.00
Mean single sequence MFE	-37.30
Consensus MFE	-25.68
Energy contribution	-27.48
Covariance contribution	1.81
Combinations/Pair	1.12
Mean z-score	-1.97
Structure conservation index	0.69
SVM decision value	0.69
SVM RNA-class probability	0.823495
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13378397 101 - 23771897
---------CUGGUCGUGCUCAUAACCAGUAGCCA-------GU--CGGUGGCCAUGGCCACUGUCGCCUCGCCUCGCUGUGAGCAUC-GUUUUGGCCCCCAUUUGUUGCCAAGACAAUU
---------......(((((((((....(..((.(-------(.--(((((((....)))))))....)).))..)..))))))))).-((((((((...........)))))))).... ( -37.00)
>DroPse_CAF1 28535 93 - 1
---------CUGGUCGUGCUCAUAACCAGUAGCCA-------GCACCGGCUGC--UG---GCUGUCGCC-----UCGCAGUUGGCAUC-GUUUUGGCCCCCAUUUGUGGCCCAGACAAUU
---------(((((..(....)..)))))((((((-------(((.....)))--))---))))..(((-----........)))...-((((.(((((......).)))).)))).... ( -35.40)
>DroSec_CAF1 49910 110 - 1
GAACUCCUCCUGGUCGUGCUCAUAACCAGUAGCCA-------GU--CGGUGGCCAUGGCCACUGUCGCCUCGCCUCGCUGUGAGCAUC-GUUUUGGCCCCCAUUUGUUGCCAAGACAAUU
.....((....))..(((((((((....(..((.(-------(.--(((((((....)))))))....)).))..)..))))))))).-((((((((...........)))))))).... ( -37.40)
>DroEre_CAF1 50165 95 - 1
----------UGGUCGUGCUCAUAACCAGUAGCCA-------GU--CGGUGGCCAUGGCCGCUGUCGCC-----UCGCUGUGGGCAUC-GUUUUGGCCCCCAUUUGUUGCCAAGACAAUU
----------.....(((((((....((((((...-------(.--(((((((....))))))).)..)-----).))))))))))).-((((((((...........)))))))).... ( -35.30)
>DroYak_CAF1 52224 108 - 1
----CUCUCCUGGUCGUGCUCAUAACCAGUAGCCAGUAGCAAGU--CGGUGGCCAUGGCCACUGUCGCC-----UCGCUGUGAGCAUC-GUUUUGGCCCCCAUUUGUUGCCAAGACAAUU
----.....(((((..(....)..)))))..((((.((((.((.--(((((((....)))))))....)-----).)))))).))...-((((((((...........)))))))).... ( -37.50)
>DroAna_CAF1 49318 92 - 1
---------CUGGUCGUGCUCAUAACCAGUAGCCG-------G-------GGCGGUGGCCACAGUCGCC-----UCGCCGUGGGCAUCCGCUCCGGCCAACAUUUGUUGCCAAGACAAUU
---------(((((..(....)..)))))..((((-------(-------(((((((.((((.((....-----..)).)))).)).))))))))))((((....))))........... ( -41.20)
>consensus
_________CUGGUCGUGCUCAUAACCAGUAGCCA_______GU__CGGUGGCCAUGGCCACUGUCGCC_____UCGCUGUGAGCAUC_GUUUUGGCCCCCAUUUGUUGCCAAGACAAUU
...............(((((((((......................(((((((....)))))))..((........)))))))))))..((((((((...........)))))))).... (-25.68 = -27.48 +   1.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:35 2006