Locus 7347

Sequence ID	2L_DroMel_CAF1
Location	20,487,801 – 20,487,896
Length	95
Max. P	0.789330

overview

Window 9

Location	20,487,801 – 20,487,896
Length	95
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.26
Mean single sequence MFE	-31.37
Consensus MFE	-20.14
Energy contribution	-19.83
Covariance contribution	-0.30
Combinations/Pair	1.28
Mean z-score	-1.60
Structure conservation index	0.64
SVM decision value	0.10
SVM RNA-class probability	0.585164
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20487801 95 + 22407834
ACGGCAAAGCAAA---------UCGGGCAACUGGGGCAAGUGCAAAGUGUAAUUAUGUGGUCACUUGGUCAGCCGUAAACUC--CGAUUUGUUUGCCCGUGUGU--------------GU
((((..(((((((---------(((((....((.(((...(((.....)))......((..(....)..))))).))...))--))))))))))..))))....--------------.. ( -29.90)
>DroPse_CAF1 41705 120 + 1
ACGGAGGGGCGGAGUGGGGGGCACUGGGAACUGGGGCAAGUGCAAAGUGUAAUUAUGUGGUCGCUUGGCCAGCCCUAAACUACCAGAUUUGUUUGCCCGAGUGCUCGAAGAGCUUGUUGU
......(((((((((..(((((.(.(....).)((.(((((((...(((....)))...).)))))).)).)))))..))).))(((....)))))))....((((...))))....... ( -39.30)
>DroSec_CAF1 4881 94 + 1
ACGCCAAAGCAAA---------UCGGGCAACUGGGGCAAGUGCAAAGUGUAAUUAUGUGGUCACUUGGUCAGCCGUAAACUC--CGAUUUGUUUGCC-GUGUGU--------------GU
((((..(((((((---------(((((....((.(((...(((.....)))......((..(....)..))))).))...))--))))))))))...-))))..--------------.. ( -28.00)
>DroSim_CAF1 10000 94 + 1
ACGGCAAAGCAAA---------UCGGGCAACUGGGGCAAGUGCAAAGUGUAAUUAUGUGGUCACUUGGUCAGCCGUAAACUC--CGAUUUGUUUGCC-GUGUGU--------------GU
((((((((.((((---------(((((....((.(((...(((.....)))......((..(....)..))))).))...))--)))))))))))))-))....--------------.. ( -33.40)
>DroEre_CAF1 4565 87 + 1
--GGCAAAGCAAA---------UCGUGCAACUGGGGCAAGUGCAAAGUGUAAUUAUGUGGUCACUUGGUCAGCCGUAAAUUC--CGAUUUGUUUGCC-A-------------------GU
--((((((.((((---------((((((..(((.(.(((((((...(((....)))...).)))))).))))..))).....--)))))))))))))-.-------------------.. ( -27.30)
>DroYak_CAF1 4051 87 + 1
--GGCAAAGCAAA---------UCGGGCAACUGGGGCAAGUGCAAAGUGUAAUUAUGUGGUCACUUGGUCAGCCGUAAACUC--CGAUUUGUUUGCC-A-------------------GU
--((((((.((((---------(((((....((.(((...(((.....)))......((..(....)..))))).))...))--)))))))))))))-.-------------------.. ( -30.30)
>consensus
ACGGCAAAGCAAA_________UCGGGCAACUGGGGCAAGUGCAAAGUGUAAUUAUGUGGUCACUUGGUCAGCCGUAAACUC__CGAUUUGUUUGCC_GUGUGU______________GU
..((((((.((((..........(((....)))((.(((((((...(((....)))...).)))))).)).................))))))))))....................... (-20.14 = -19.83 +  -0.30)

alignment

secondary structure

dotplot

Window 0

Location	20,487,801 – 20,487,896
Length	95
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.26
Mean single sequence MFE	-27.96
Consensus MFE	-14.09
Energy contribution	-15.15
Covariance contribution	1.06
Combinations/Pair	1.05
Mean z-score	-2.81
Structure conservation index	0.50
SVM decision value	0.58
SVM RNA-class probability	0.789330
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20487801 95 - 22407834
AC--------------ACACACGGGCAAACAAAUCG--GAGUUUACGGCUGACCAAGUGACCACAUAAUUACACUUUGCACUUGCCCCAGUUGCCCGA---------UUUGCUUUGCCGU
..--------------.......(((((((((((((--(.((....(((((..((((((...................))))))...)))))))))))---------)))).)))))).. ( -29.61)
>DroPse_CAF1 41705 120 - 1
ACAACAAGCUCUUCGAGCACUCGGGCAAACAAAUCUGGUAGUUUAGGGCUGGCCAAGCGACCACAUAAUUACACUUUGCACUUGCCCCAGUUCCCAGUGCCCCCCACUCCGCCCCUCCGU
.......((((...))))....(((((.......((((....((.((((..((.(((.(............).))).))....)))).))...))))))))).................. ( -25.41)
>DroSec_CAF1 4881 94 - 1
AC--------------ACACAC-GGCAAACAAAUCG--GAGUUUACGGCUGACCAAGUGACCACAUAAUUACACUUUGCACUUGCCCCAGUUGCCCGA---------UUUGCUUUGGCGU
..--------------....((-(.(((((((((((--(.((....(((((..((((((...................))))))...)))))))))))---------)))).)))).))) ( -27.71)
>DroSim_CAF1 10000 94 - 1
AC--------------ACACAC-GGCAAACAAAUCG--GAGUUUACGGCUGACCAAGUGACCACAUAAUUACACUUUGCACUUGCCCCAGUUGCCCGA---------UUUGCUUUGCCGU
..--------------....((-(((((((((((((--(.((....(((((..((((((...................))))))...)))))))))))---------)))).)))))))) ( -32.31)
>DroEre_CAF1 4565 87 - 1
AC-------------------U-GGCAAACAAAUCG--GAAUUUACGGCUGACCAAGUGACCACAUAAUUACACUUUGCACUUGCCCCAGUUGCACGA---------UUUGCUUUGCC--
..-------------------.-(((((((((((((--.......((((((..((((((...................))))))...))))))..)))---------)))).))))))-- ( -24.81)
>DroYak_CAF1 4051 87 - 1
AC-------------------U-GGCAAACAAAUCG--GAGUUUACGGCUGACCAAGUGACCACAUAAUUACACUUUGCACUUGCCCCAGUUGCCCGA---------UUUGCUUUGCC--
..-------------------.-(((((((((((((--(.((....(((((..((((((...................))))))...)))))))))))---------)))).))))))-- ( -27.91)
>consensus
AC______________ACACAC_GGCAAACAAAUCG__GAGUUUACGGCUGACCAAGUGACCACAUAAUUACACUUUGCACUUGCCCCAGUUGCCCGA_________UUUGCUUUGCCGU
.......................((((((((((............((((((..((((((...................))))))...))))))..............)))).)))))).. (-14.09 = -15.15 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:21 2006