Locus 3927

Sequence ID	2L_DroMel_CAF1
Location	11,465,534 – 11,465,644
Length	110
Max. P	0.620452

overview

Window 2

Location	11,465,534 – 11,465,644
Length	110
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	80.80
Mean single sequence MFE	-27.86
Consensus MFE	-22.21
Energy contribution	-23.10
Covariance contribution	0.89
Combinations/Pair	1.04
Mean z-score	-1.24
Structure conservation index	0.80
SVM decision value	0.18
SVM RNA-class probability	0.620452
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11465534 110 + 22407834
-AUCGCAUCGCGACUCAUAUUUUUGUGGCCUUUAUGGCGAUUGGCAAAUCGAAGGCCAUAAUUCACAAUUUAAUUAAGAGCCGCAAAUAAAGCGAGCUGCAUUCUUGGCCC-------
-.((((...(((.(((..(((.((((((...(((((((..((((....))))..))))))).))))))...)))...))).))).......))))(((........)))..------- ( -27.20)
>DroVir_CAF1 76686 106 + 1
GA-GC---AGCGAGUCAUAUUUUUGUGGCCUUUAUGGCGUUUGGCAAAUCGAAGGCCAUAAUUCACAAUUUAAUUAAGAGGCGUAAAUAAAGCGAACUAUAUGUUUCCAU--------
((-((---(...((((......((((((...(((((((.(((((....))))).))))))).))))))............((.........))).)))...)))))....-------- ( -24.50)
>DroGri_CAF1 107202 116 + 1
GG-GCAAUAGCGACUCAUAUUUUUGUGGCCU-UAUGGCGUUUGCCAGAUCGAAGGCCAUAAUUCACAAUUUAAUUAAGAGUCGCCAAUAAAGUGAAGUGCACUUUUGCUGUCUCACAG
.(-(((...(((((((..(((.((((((..(-((((((.((((......)))).))))))).))))))...)))...)))))))....((((((.....))))))))))......... ( -37.60)
>DroEre_CAF1 29599 103 + 1
G--------GCGACUCAUAUUUUUGUGGCCUUUAUGGCGAUUGGCAAAUCGAGGGCCAUAAUUCACAAUUUAAUUAGGAGCCGCAAAUAAAGCGAGCUGCAUUCUUGGAAC-------
.--------(((.(((.....(((((((((((((((((..((((....))))..)))))))...............)).))))))))......))).)))...........------- ( -26.86)
>DroMoj_CAF1 60145 111 + 1
CA-GC--UAUCGACUCAUAUUUUCGUGGCCUUUAUGGCGUUUGGCAAAUCGAAGGCCAUAAUUCACAAUUUAAUUAAGAGCCGUAUAUAAAGCGAAGUACAUGUUUUCAUCAUC----
..-((--(((((.(((..(((...((((...(((((((.(((((....))))).))))))).)))).....)))...))).)).))....)))((((.......))))......---- ( -21.60)
>DroAna_CAF1 28151 110 + 1
-GUCACUGAGCGACUCAUAUUUUUGUGGCCUUUAUGGCGUUUGGCAAAUCGAAGGCCAUAAUUCACAAUUUAAUUAAGAGCCGCAAAUAAAGCGAACUGCAUUCUUGGGGG-------
-........(((.(((..(((.((((((...(((((((.(((((....))))).))))))).))))))...)))...))).)))............((.((....)).)).------- ( -29.40)
>consensus
GA_GC__UAGCGACUCAUAUUUUUGUGGCCUUUAUGGCGUUUGGCAAAUCGAAGGCCAUAAUUCACAAUUUAAUUAAGAGCCGCAAAUAAAGCGAACUGCAUUCUUGCAGC_______
.........(((.(((..(((.((((((...(((((((.((((......)))).))))))).))))))...)))...))).))).................................. (-22.21 = -23.10 +   0.89)

alignment

secondary structure

dotplot

Window 3

Location	11,465,534 – 11,465,644
Length	110
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	80.80
Mean single sequence MFE	-25.92
Consensus MFE	-18.10
Energy contribution	-18.68
Covariance contribution	0.58
Combinations/Pair	1.09
Mean z-score	-1.25
Structure conservation index	0.70
SVM decision value	0.02
SVM RNA-class probability	0.544802
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11465534 110 - 22407834
-------GGGCCAAGAAUGCAGCUCGCUUUAUUUGCGGCUCUUAAUUAAAUUGUGAAUUAUGGCCUUCGAUUUGCCAAUCGCCAUAAAGGCCACAAAAAUAUGAGUCGCGAUGCGAU-
-------((((..........))))((.....(((((((((.(((((........)))))((((((((((((....))))).....))))))).........))))))))).))...- ( -30.60)
>DroVir_CAF1 76686 106 - 1
--------AUGGAAACAUAUAGUUCGCUUUAUUUACGCCUCUUAAUUAAAUUGUGAAUUAUGGCCUUCGAUUUGCCAAACGCCAUAAAGGCCACAAAAAUAUGACUCGCU---GC-UC
--------(((....)))(((((((((...(((((...........))))).)))))))))((((((......((.....))....))))))..................---..-.. ( -20.20)
>DroGri_CAF1 107202 116 - 1
CUGUGAGACAGCAAAAGUGCACUUCACUUUAUUGGCGACUCUUAAUUAAAUUGUGAAUUAUGGCCUUCGAUCUGGCAAACGCCAUA-AGGCCACAAAAAUAUGAGUCGCUAUUGC-CC
..........(((((((((.....))))))..(((((((((.(((((........)))))(((((((.....((((....)))).)-)))))).........))))))))).)))-.. ( -35.10)
>DroEre_CAF1 29599 103 - 1
-------GUUCCAAGAAUGCAGCUCGCUUUAUUUGCGGCUCCUAAUUAAAUUGUGAAUUAUGGCCCUCGAUUUGCCAAUCGCCAUAAAGGCCACAAAAAUAUGAGUCGC--------C
-------.......(((((.((....)).)))))(((((((.((.((...(((((.....((((.........))))...(((.....)))))))))).)).)))))))--------. ( -23.90)
>DroMoj_CAF1 60145 111 - 1
----GAUGAUGAAAACAUGUACUUCGCUUUAUAUACGGCUCUUAAUUAAAUUGUGAAUUAUGGCCUUCGAUUUGCCAAACGCCAUAAAGGCCACGAAAAUAUGAGUCGAUA--GC-UG
----.....................(((....((.((((((...(((...(((((.....((((.........))))...(((.....)))))))).)))..)))))))))--))-.. ( -19.90)
>DroAna_CAF1 28151 110 - 1
-------CCCCCAAGAAUGCAGUUCGCUUUAUUUGCGGCUCUUAAUUAAAUUGUGAAUUAUGGCCUUCGAUUUGCCAAACGCCAUAAAGGCCACAAAAAUAUGAGUCGCUCAGUGAC-
-------................(((((......(((((((...(((...(((((.....((((.........))))...(((.....)))))))).)))..)))))))..))))).- ( -25.80)
>consensus
_______GAUCCAAAAAUGCAGUUCGCUUUAUUUGCGGCUCUUAAUUAAAUUGUGAAUUAUGGCCUUCGAUUUGCCAAACGCCAUAAAGGCCACAAAAAUAUGAGUCGCUA__GC_UC
..................................(((((((...(((...(((((.....((((.........))))...(((.....)))))))).)))..)))))))......... (-18.10 = -18.68 +   0.58)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:59 2006