Locus 4765

Sequence ID	3L_DroMel_CAF1
Location	13,378,977 – 13,379,071
Length	94
Max. P	0.800823

overview

Window 0

Location	13,378,977 – 13,379,071
Length	94
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.94
Mean single sequence MFE	-28.77
Consensus MFE	-21.07
Energy contribution	-22.27
Covariance contribution	1.19
Combinations/Pair	1.04
Mean z-score	-1.55
Structure conservation index	0.73
SVM decision value	0.43
SVM RNA-class probability	0.732598
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13378977 94 + 23771897
------------ACAGCC----GCAAAACAAAAGACGGACAUUUACAUGCUGCCAACGAGGCUAACAAUGAAAUCAGCGUAGUUUGUUUUGGCCCCC--AUAGGAGGGGUCG--------
------------......----..((((((((..(((...((((.(((...(((.....))).....)))))))...)))..))))))))(((((((--....).)))))).-------- ( -26.70)
>DroSim_CAF1 50436 100 + 1
------ACAGCCACAGCC----GCAAAACAAAAGACGGACAUUUACAUGCUGCCAACGAGGCUAACAAUGAAAUCUGCGUAGUUUGUUUUGGCCCCC--AAAGGAGGGGUCG--------
------...((.......----))((((((((..(((.(.((((.(((...(((.....))).....))))))).).)))..))))))))(((((((--....).)))))).-------- ( -29.00)
>DroEre_CAF1 50734 96 + 1
------------GCAGCC----GCAAAACAAAAGACGGACAUUUACAUGCUGCCAACGAGGCUAACAAUGAAAUCUGCGUAGUUUGUUUUGGCCCCCCAAAAGGAGGGGUCG--------
------------((....----))((((((((..(((.(.((((.(((...(((.....))).....))))))).).)))..))))))))((((((((....)).)))))).-------- ( -33.10)
>DroYak_CAF1 52840 108 + 1
ACAGCCACAUCCACAGCC----ACAAAACAAAAGACGGACAUUUACAUGCUGCCAACGAGGCUAACAAUGAAAUCUGCGUAGUUCGUUUUGGCCCCCCAAAAGGAGGGGUCG--------
..................----.((((((.((..(((.(.((((.(((...(((.....))).....))))))).).)))..)).))))))(((((((....)).)))))..-------- ( -28.20)
>DroAna_CAF1 49869 99 + 1
------ACAUGGUUGCUG----GCCAAACAAAAGACGGACAUUUACAUGCUGCCAUCGAGGCUAACAAUGAAAUCUGCGUAGUUUCUUGUGGCCCCC--AAAG-AGGGGGCG--------
------...((((.....----)))).((((...(((.(.((((.(((...(((.....))).....))))))).).)))......)))).((((((--....-.)))))).-------- ( -28.20)
>DroPer_CAF1 29165 106 + 1
------------GCAGAAGCAAACGAAACAAAAGACGGACAUUUACAUGCUGCCAACGAGGCUAACAAUGAAAUCUGCGUAGUUUGUUUAGGCCCAC--AGAAUAGGCGGUGGGAGAGCG
------------......((...(.(((((((..(((.(.((((.(((...(((.....))).....))))))).).)))..))))))).).(((((--.(......).)))))...)). ( -27.40)
>consensus
____________ACAGCC____GCAAAACAAAAGACGGACAUUUACAUGCUGCCAACGAGGCUAACAAUGAAAUCUGCGUAGUUUGUUUUGGCCCCC__AAAGGAGGGGUCG________
.......................(((((((((..(((.(.((((.(((...(((.....))).....))))))).).)))..)))))))))(.((((........)))).)......... (-21.07 = -22.27 +   1.19)

alignment

secondary structure

dotplot

Window 1

Location	13,378,977 – 13,379,071
Length	94
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.94
Mean single sequence MFE	-30.60
Consensus MFE	-23.23
Energy contribution	-23.73
Covariance contribution	0.50
Combinations/Pair	1.10
Mean z-score	-1.69
Structure conservation index	0.76
SVM decision value	0.62
SVM RNA-class probability	0.800823
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13378977 94 - 23771897
--------CGACCCCUCCUAU--GGGGGCCAAAACAAACUACGCUGAUUUCAUUGUUAGCCUCGUUGGCAGCAUGUAAAUGUCCGUCUUUUGUUUUGC----GGCUGU------------
--------...((((......--))))(((((((((((..(((...(((((((.(((.(((.....))))))))).))))...)))..))))))))..----)))...------------ ( -28.90)
>DroSim_CAF1 50436 100 - 1
--------CGACCCCUCCUUU--GGGGGCCAAAACAAACUACGCAGAUUUCAUUGUUAGCCUCGUUGGCAGCAUGUAAAUGUCCGUCUUUUGUUUUGC----GGCUGUGGCUGU------
--------...((((......--))))..(((((((((..(((.(.(((((((.(((.(((.....))))))))).)))).).)))..)))))))))(----(((....)))).------ ( -33.00)
>DroEre_CAF1 50734 96 - 1
--------CGACCCCUCCUUUUGGGGGGCCAAAACAAACUACGCAGAUUUCAUUGUUAGCCUCGUUGGCAGCAUGUAAAUGUCCGUCUUUUGUUUUGC----GGCUGC------------
--------...((((.......))))((((((((((((..(((.(.(((((((.(((.(((.....))))))))).)))).).)))..))))))))..----))))..------------ ( -31.90)
>DroYak_CAF1 52840 108 - 1
--------CGACCCCUCCUUUUGGGGGGCCAAAACGAACUACGCAGAUUUCAUUGUUAGCCUCGUUGGCAGCAUGUAAAUGUCCGUCUUUUGUUUUGU----GGCUGUGGAUGUGGCUGU
--------....((((((....)))))).(((((((((..(((.(.(((((((.(((.(((.....))))))))).)))).).)))..))))))))).----(((..(....)..))).. ( -35.40)
>DroAna_CAF1 49869 99 - 1
--------CGCCCCCU-CUUU--GGGGGCCACAAGAAACUACGCAGAUUUCAUUGUUAGCCUCGAUGGCAGCAUGUAAAUGUCCGUCUUUUGUUUGGC----CAGCAACCAUGU------
--------.((((((.-....--)))))).(((.((((((....)).)))).(((((.(((.(((.(((.((((....))))..)))..)))...)))----.)))))...)))------ ( -29.90)
>DroPer_CAF1 29165 106 - 1
CGCUCUCCCACCGCCUAUUCU--GUGGGCCUAAACAAACUACGCAGAUUUCAUUGUUAGCCUCGUUGGCAGCAUGUAAAUGUCCGUCUUUUGUUUCGUUUGCUUCUGC------------
.((...(((((.(......).--)))))...(((((((..(((.(.(((((((.(((.(((.....))))))))).)))).).)))..))))))).....))......------------ ( -24.50)
>consensus
________CGACCCCUCCUUU__GGGGGCCAAAACAAACUACGCAGAUUUCAUUGUUAGCCUCGUUGGCAGCAUGUAAAUGUCCGUCUUUUGUUUUGC____GGCUGU____________
.............(((((.....))))).(((((((((..(((.(.(((((((.(((.(((.....))))))))).)))).).)))..)))))))))....................... (-23.23 = -23.73 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:37 2006