Locus 7586

Sequence ID	X_DroMel_CAF1
Location	18,876,815 – 18,876,906
Length	91
Max. P	0.908639

overview

Window 1

Location	18,876,815 – 18,876,906
Length	91
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	76.28
Mean single sequence MFE	-10.77
Consensus MFE	-6.02
Energy contribution	-5.88
Covariance contribution	-0.14
Combinations/Pair	1.10
Mean z-score	-1.62
Structure conservation index	0.56
SVM decision value	0.21
SVM RNA-class probability	0.634700
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18876815 91 + 22224390
AAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGAC-UUAAGCGAAAUCAAUUAAAA--GCAAA--A-AAGCUGUGGCGAAAAAAAACCAGC
................(((((((((.(((......))).))-)).................(--((...--.-..))).)))))............. ( -15.80)
>DroSec_CAF1 112955 77 + 1
AAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGAC-UUAAGCGAAAUCAAUUUAAA--GCAAA-----------------AAAAAACCAGC
.....(((((......(((..((((.(((......))).))-))..))).....)))))...--.....-----------------........... ( -10.30)
>DroEre_CAF1 112685 73 + 1
AAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGAC-UUAAGCGAAAUCAAUU-AAG--GCAAAAAA-ACCCC-------------------
................(((..((((.(((......))).))-))..))).........-...--........-.....------------------- ( -10.00)
>DroWil_CAF1 28316 84 + 1
AAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGAC-UUAAGCGAAAUCAAUUAAAA--AGA------AGCGUA----AAUAAAAAGCCAGA
..............(((((..((((.(((......))).))-))..))(....)........--...------......----........)))... ( -12.70)
>DroMoj_CAF1 34239 79 + 1
AAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGACCUUAAGUGAAAUCAAUUAAAAAAGCAAA--AACAACCA-----AA-----------
..............(((((....))))).......((.....((((.((....)).)))).....))..--........-----..----------- (  -5.80)
>DroAna_CAF1 45681 72 + 1
AAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGAC-UUAAGCGAAAUCAAUUAAAA--GGGAG-----------------AGAAAA-----
................(((..((((.(((......))).))-))..))).............--.....-----------------......----- ( -10.00)
>consensus
AAAUCAAAUUAAAAGGCGCCAAAGUGUCACGAUUAUGAGAC_UUAAGCGAAAUCAAUUAAAA__GCAAA____A__C_________AAAAAA_____
................(((..((((.(((......))).)).))..)))................................................ ( -6.02 =  -5.88 +  -0.14)

alignment

secondary structure

dotplot

Window 2

Location	18,876,815 – 18,876,906
Length	91
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	76.28
Mean single sequence MFE	-13.97
Consensus MFE	-7.75
Energy contribution	-7.92
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.02
Structure conservation index	0.55
SVM decision value	1.06
SVM RNA-class probability	0.908639
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18876815 91 - 22224390
GCUGGUUUUUUUUCGCCACAGCUU-U--UUUGC--UUUUAAUUGAUUUCGCUUAA-GUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUU
..((((........)))).(((..-.--...))--)((.((((((...((((.((-((.((((....)))).)))).))))....)))))).))... ( -17.20)
>DroSec_CAF1 112955 77 - 1
GCUGGUUUUUU-----------------UUUGC--UUUAAAUUGAUUUCGCUUAA-GUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUU
((..(......-----------------)..))--.(((((((((...((((.((-((.((((....)))).)))).))))....)))))))))... ( -16.40)
>DroEre_CAF1 112685 73 - 1
-------------------GGGGU-UUUUUUGC--CUU-AAUUGAUUUCGCUUAA-GUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUU
-------------------(((((-......))--)))-((((((...((((.((-((.((((....)))).)))).))))....))))))...... ( -16.60)
>DroWil_CAF1 28316 84 - 1
UCUGGCUUUUUAUU----UACGCU------UCU--UUUUAAUUGAUUUCGCUUAA-GUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUU
...(((........----......------((.--........))....(((.((-((.((((....)))).)))).)))))).............. ( -13.00)
>DroMoj_CAF1 34239 79 - 1
-----------UU-----UGGUUGUU--UUUGCUUUUUUAAUUGAUUUCACUUAAGGUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUU
-----------..-----........--........((.((((((......(((((((.((((....)))).)))))))......)))))).))... (  -7.90)
>DroAna_CAF1 45681 72 - 1
-----UUUUCU-----------------CUCCC--UUUUAAUUGAUUUCGCUUAA-GUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUU
-----......-----------------.....--.((.((((((...((((.((-((.((((....)))).)))).))))....)))))).))... ( -12.70)
>consensus
_____UUUUUU_________G__U____UUUGC__UUUUAAUUGAUUUCGCUUAA_GUCUCAUAAUCGUGACACUUUGGCGCCUUUUAAUUUGAUUU
....................................((.((((((...((((.((.((.((((....)))).)))).))))....)))))).))... ( -7.75 =  -7.92 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:40 2006