Locus 6345

Sequence ID	2R_DroMel_CAF1
Location	19,906,698 – 19,906,820
Length	122
Max. P	0.904994

overview

Window 0

Location	19,906,698 – 19,906,797
Length	99
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.60
Mean single sequence MFE	-36.01
Consensus MFE	-31.88
Energy contribution	-31.79
Covariance contribution	-0.08
Combinations/Pair	1.09
Mean z-score	-1.13
Structure conservation index	0.89
SVM decision value	0.03
SVM RNA-class probability	0.549951
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19906698 99 + 20766785
U-------------------AUGCUUACGUUUGUCAAUGUCUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGAGAAAGAU-UAA-
.-------------------...((((.(((((.(.(((...(((((((((......))))))))).)))....).))))).(((((.(((.....))).)))))))))......-...- ( -34.50)
>DroVir_CAF1 184205 102 + 1
----GCU------------UGCACUUACGUUUGUCAAUGUCUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGGCCAAGAA-AAA-
----(((------------((.(((((((((....)))))..(((((((((......)))))))))......))))))))).(((((.(((.....))).)))))..........-...- ( -36.70)
>DroPse_CAF1 146646 106 + 1
UAUGCCU------------UCAACUUACGUUUGUCAAUGUCUUGGCUCCGCAGAGAGGCGGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUAAUGGAAAU-CAA-
....(((------------.((((((.(((............(((((((((......)))))))))...(((((......))))))))..)))))).))).((((....))))..-...- ( -38.00)
>DroGri_CAF1 183461 114 + 1
----ACUCAUCACUCAAGUGCAACUUACGUUUGUCAAUGUCUUGGCUCUGCAGCGAGGCAGAAUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGUGCAAGAA-AGU-
----.......(((....((((....(((((....)))))...(((((((((((..(((.((....)).(((((......)))))..)))..)))))))))))....))))....-)))- ( -33.90)
>DroWil_CAF1 312101 108 + 1
UAUGCUC------------CAUGCUUACGUUUGUCAAUAUCUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGGUUAAAAAAGACA
......(------------((.......(((((.(.......(((((((((......)))))))))........).))))).(((((.(((.....))).))))))))............ ( -34.76)
>DroMoj_CAF1 233944 102 + 1
----CUG------------GACACUUACGUUUGUCAAUGUCUUGACUCUGCAGCGAAACAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUAAGCAAAAG-AAA-
----(((------------(((....(((((....)))))..((((((((........))))))))..)))))).....((((((((.(((.....))).)))))..))).....-...- ( -38.20)
>consensus
____CCU____________GAAACUUACGUUUGUCAAUGUCUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGAGCAAAAA_AAA_
............................(((((.(.......(((((((((......)))))))))........).))))).(((((.(((.....))).)))))............... (-31.88 = -31.79 +  -0.08)

alignment

secondary structure

dotplot

Window 1

Location	19,906,719 – 19,906,820
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.11
Mean single sequence MFE	-33.15
Consensus MFE	-27.00
Energy contribution	-27.20
Covariance contribution	0.20
Combinations/Pair	1.05
Mean z-score	-1.25
Structure conservation index	0.81
SVM decision value	1.04
SVM RNA-class probability	0.904994
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19906719 101 + 20766785
CUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGAGAAAGAU-UAA--------AUACAG-----C--UUAUUAGCAU-A--UUCAU
..(((((((((......))))))))).......((((...(((((((.(((.....))).)))))..))...)))-)..--------.....(-----(--(....)))..-.--..... ( -32.90)
>DroVir_CAF1 184229 102 + 1
CUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGGCCAAGAA-AAA--------AGAUGG-----CUA-CGUUAGUAAAA--UACC-
..(((((((((......)))))))))(((((....((..((((((((.(((.....))).))))).)))...)).-...--------.)))))-----.((-(....)))...--....- ( -35.80)
>DroGri_CAF1 183497 102 + 1
CUUGGCUCUGCAGCGAGGCAGAAUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGUGCAAGAA-AGU--------AAAAUA-----CAAUCAUUAGCAA-A--UACU-
...(((((((((((..(((.((....)).(((((......)))))..)))..)))))))))))....(((((((.-.((--------(...))-----)..)).)).))).-.--....- ( -29.90)
>DroWil_CAF1 312129 108 + 1
CUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGGUUAAAAAAGACAGACAGAGAGACAA-----C--AAAUUAGUAU-----UACU
..(((((((((......)))))))))..(((...(((.(((((((((.(((.....))).))))).))))......))).)))..........-----.--..........-----.... ( -35.70)
>DroMoj_CAF1 233968 103 + 1
CUUGACUCUGCAGCGAAACAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUAAGCAAAAG-AAA-C------ACAACA-----UAA-UGUCAGUAAAA--UACA-
..((((((((........))))))))(((.......)))((((((((.(((.....))).)))))..))).....-...-.------......-----...-...........--....- ( -28.20)
>DroAna_CAF1 135479 105 + 1
CUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCU---AAAGGU-GAG--------AAACGGAAAUCC--UCGUUAGCAC-UUGUUUUU
..(((((((((......)))))))))(((.......)))...(((((.(((.....))).))))).---..((((-(..--------.(((((......--)))))..)))-))...... ( -36.40)
>consensus
CUUGGCUCUGCAGCGAAGCAGAGUCAUCGUCCAGGUCGAGCUGGAGCGCCGAGUUGCGGGGUUCCUGAGCAAGAA_AAA________AAACAA_____C__UCAUUAGCAA_A__UACA_
..(((((((((......)))))))))(((.......)))...(((((.(((.....))).)))))....................................................... (-27.00 = -27.20 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:50 2006