Locus 3087

Sequence ID	X_DroMel_CAF1
Location	8,241,814 – 8,241,917
Length	103
Max. P	0.705322

overview

Window 8

Location	8,241,814 – 8,241,917
Length	103
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.54
Mean single sequence MFE	-30.13
Consensus MFE	-18.17
Energy contribution	-18.84
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.99
Structure conservation index	0.60
SVM decision value	-0.04
SVM RNA-class probability	0.515081
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8241814 103 + 22224390
-GUAUGGGUAUGGGUUUUUUUUUUGGUAGGGUUUU--------------CCACACA--GCCAAGCAAAUCCCGUGGCAACUUUUUGCCACGCGAAAACUUUCUCAGGCAAGUUUAUGCAU
-..........(((...(((.((((((..((....--------------)).....--)))))).))).)))(((((((....)))))))(((.((((((.(....).)))))).))).. ( -29.50)
>DroSec_CAF1 142870 93 + 1
-GCAUGGG----------UUUUUCGGUAGGGUUUU--------------CCACACA--GCCAAGCAAAUCCCGUGGCAACUUUUUGCCACGCGAAAACUUUCUCAGGCAAGUUUAUGCAU
-(((((..----------(((.(((..((((((((--------------(......--((...))......((((((((....)))))))).)))))))))..).)).)))..))))).. ( -28.50)
>DroSim_CAF1 106607 91 + 1
---AUGGG----------UUUUUCGGUAGGGUUUU--------------CCACACA--GCCAAGCAAAUCCCGUGGCAACUUUUUGCCACGCGAAAACUUUCUCAGGCAAGUUUAUGCAU
---..(((----------.......((..((((..--------------......)--)))..))....)))(((((((....)))))))(((.((((((.(....).)))))).))).. ( -26.20)
>DroEre_CAF1 131474 91 + 1
-G-UUGGG----G-----U-UUUCGGUUGGGUUUU--------------CCAC-CA--GCCAAGCAAAUACCGUGGCAACUUUUUGCCACGCGAAAACUUUCUCAGGCAAGUUUAUGCAU
-(-..(((----(-----(-((((((((((.....--------------...)-))--)))..........((((((((....)))))))).)))))))))..)..(((......))).. ( -33.10)
>DroYak_CAF1 132432 110 + 1
GG-UUGGG----GG----UUUUUCGGUAGGGUUUUCACUAGGGUUUUCCCCAC-CAUGGCCAAGCAAAUCCCGUGGCAACUUUUUGCCACGCGAAAACUUUCUCAGGCAAGUUUAUGCAU
..-...((----((----(((((.(((..(((........(((.....)))))-)...))).)).)))))))(((((((....)))))))(((.((((((.(....).)))))).))).. ( -35.10)
>DroAna_CAF1 208893 89 + 1
-GUAGGGG----------UUGGGGGGUGGGGAGGU--------------ACA---A--CCCAAGCAAAUCCCAUGGCAACUUUUUGCCACGCGA-AACUUUCUCAGGCAAGUUUAUGCAU
-...((((----------((...(..((((.....--------------...---.--))))..).)))))).((((((....)))))).((((-(((((.(....).)))))).))).. ( -28.40)
>consensus
_G_AUGGG__________UUUUUCGGUAGGGUUUU______________CCAC_CA__GCCAAGCAAAUCCCGUGGCAACUUUUUGCCACGCGAAAACUUUCUCAGGCAAGUUUAUGCAU
.....(((.................((..(((..........................)))..))....)))(((((((....)))))))(((.((((((.(....).)))))).))).. (-18.17 = -18.84 +   0.67)

alignment

secondary structure

dotplot

Window 9

Location	8,241,814 – 8,241,917
Length	103
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.54
Mean single sequence MFE	-27.77
Consensus MFE	-19.70
Energy contribution	-19.73
Covariance contribution	0.03
Combinations/Pair	1.06
Mean z-score	-1.92
Structure conservation index	0.71
SVM decision value	0.36
SVM RNA-class probability	0.705322
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8241814 103 - 22224390
AUGCAUAAACUUGCCUGAGAAAGUUUUCGCGUGGCAAAAAGUUGCCACGGGAUUUGCUUGGC--UGUGUGG--------------AAAACCCUACCAAAAAAAAAACCCAUACCCAUAC-
..(((.((((((........))))))((.((((((((....)))))))).))..))).(((.--.((((((--------------......................)))))))))...- ( -27.55)
>DroSec_CAF1 142870 93 - 1
AUGCAUAAACUUGCCUGAGAAAGUUUUCGCGUGGCAAAAAGUUGCCACGGGAUUUGCUUGGC--UGUGUGG--------------AAAACCCUACCGAAAAA----------CCCAUGC-
..((..((((((........))))))..))(((((((....)))))))(((.(((..((((.--.(.((..--------------...)).)..)))).)))----------)))....- ( -27.00)
>DroSim_CAF1 106607 91 - 1
AUGCAUAAACUUGCCUGAGAAAGUUUUCGCGUGGCAAAAAGUUGCCACGGGAUUUGCUUGGC--UGUGUGG--------------AAAACCCUACCGAAAAA----------CCCAU---
..((..((((((........))))))..))(((((((....)))))))(((.(((..((((.--.(.((..--------------...)).)..)))).)))----------)))..--- ( -27.00)
>DroEre_CAF1 131474 91 - 1
AUGCAUAAACUUGCCUGAGAAAGUUUUCGCGUGGCAAAAAGUUGCCACGGUAUUUGCUUGGC--UG-GUGG--------------AAAACCCAACCGAAA-A-----C----CCCAA-C-
..((..((((((........))))))..))(((((((....)))))))((..(((..((((.--((-(.(.--------------....)))).))))))-)-----.----.))..-.- ( -26.40)
>DroYak_CAF1 132432 110 - 1
AUGCAUAAACUUGCCUGAGAAAGUUUUCGCGUGGCAAAAAGUUGCCACGGGAUUUGCUUGGCCAUG-GUGGGGAAAACCCUAGUGAAAACCCUACCGAAAAA----CC----CCCAA-CC
............(((.....((((..((.((((((((....)))))))).))...)))))))..((-((((((...((....)).....)))))))).....----..----.....-.. ( -33.30)
>DroAna_CAF1 208893 89 - 1
AUGCAUAAACUUGCCUGAGAAAGUU-UCGCGUGGCAAAAAGUUGCCAUGGGAUUUGCUUGGG--U---UGU--------------ACCUCCCCACCCCCCAA----------CCCCUAC-
..(((......)))......((((.-((.((((((((....)))))))).))...))))(((--(---((.--------------..............)))----------)))....- ( -25.36)
>consensus
AUGCAUAAACUUGCCUGAGAAAGUUUUCGCGUGGCAAAAAGUUGCCACGGGAUUUGCUUGGC__UG_GUGG______________AAAACCCUACCGAAAAA__________CCCAU_C_
..(((......)))......((((..((.((((((((....)))))))).))...))))............................................................. (-19.70 = -19.73 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:38 2006