Locus 1997

Sequence ID	2L_DroMel_CAF1
Location	5,414,116 – 5,414,227
Length	111
Max. P	0.615998

overview

Window 8

Location	5,414,116 – 5,414,227
Length	111
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.39
Mean single sequence MFE	-28.65
Consensus MFE	-20.93
Energy contribution	-21.43
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.81
Structure conservation index	0.73
SVM decision value	0.17
SVM RNA-class probability	0.615998
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5414116 111 + 22407834
CUAUCAGAAUCAAUUGAUUACGAAACUGAAAAUCGAUUCGAAUCCGUUUGCGAAGGGAUUUCGCGAUUCGUCGCGUCUCAGUGACUUUGAUAGGUAAGUUUUUCUCC--CUUC-------
((((((((((((((.((((.((((.(........).)))))))).))).((((((...)))))))))))(((((......)))))..))))))..............--....------- ( -28.80)
>DroVir_CAF1 50898 106 + 1
CUAUCAGAAUCAAUUGAUUACAAAAUUGAAAAUCGAUUCGAAUCCGUUCGCCAAAGGAUUUCGCGAUUCGUCGCGUCUGACUGAUUUUGAUAGGUAAGCAAAAAAA--------------
(((((((((((((((((((...........)))))))((((((((..........))))))(((((....)))))...)).)))))))))))).............-------------- ( -27.10)
>DroPse_CAF1 40820 118 + 1
CUAUCAGAAUCAAUUGAUUACGAAACUGAAAAUCGAUUCGAAUCCGUUUGCAAAAGGAUUUCGCGAUUCGUCGCGUCUCACUGACUUUGAUAGGUGAGUGUCUCUUC--CUUUGGAAUUG
.........((((((((((...........)))))))).)).((((....).((((((...(((((....)))))...((((.((((....)))).)))).....))--))))))).... ( -26.00)
>DroGri_CAF1 56076 111 + 1
CUAUCAGAAUCAAUUGAUUACAAAAUUGAAAAUCGAUUCGAAUCCGUUCGCAAAAGGAUUUCGCGAUUCGUCUCGUCUGACUGAUUUUGAUAGGUGAGUUUUUUAUUUCU--A-------
((((((((((((.(..(((....)))..)....(((..((((((((.((.......))...)).))))))..)))......)))))))))))).................--.------- ( -26.80)
>DroWil_CAF1 49143 114 + 1
AUAUCAGAAUCAAUUGAUUACCAAAUUGAAAAUCGAUUCGAAUCCGUUUGCCAAAGGAUUUCGCGAUUCGUCGCGACUGACUGACUUUGAUAGGUGAGUUUUUAGUG--CUCG----CCG
.(((((((.((((((........))))))...(((...((((((((....((...))....)).))))))...))).........)))))))(((((((.......)--))))----)). ( -33.10)
>DroMoj_CAF1 57136 113 + 1
CUAUCAGAAUCAAUUGAUUACAAAAUUGAAAAUCGACUCGAAUCCGUUCGCAAAAGGAUUUCGCGAUUCGUCGCGUCUGACUGAUUUUGAUAGGUGAGUUGUUUUCAUCAUCA-------
.(((((((((((.(..(((....)))..).....(((..((((((..........)))))).((((....)))))))....)))))))))))((((((.....))))))....------- ( -30.10)
>consensus
CUAUCAGAAUCAAUUGAUUACAAAAUUGAAAAUCGAUUCGAAUCCGUUCGCAAAAGGAUUUCGCGAUUCGUCGCGUCUGACUGACUUUGAUAGGUGAGUUUUUAUUC__CU_A_______
((((((((.((((((((((...........)))))))..((((((..........))))))(((((....)))))......))).))))))))........................... (-20.93 = -21.43 +   0.50)

alignment

secondary structure

dotplot

Window 9

Location	5,414,116 – 5,414,227
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.39
Mean single sequence MFE	-25.72
Consensus MFE	-19.54
Energy contribution	-19.65
Covariance contribution	0.11
Combinations/Pair	1.12
Mean z-score	-1.48
Structure conservation index	0.76
SVM decision value	-0.03
SVM RNA-class probability	0.520462
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5414116 111 - 22407834
-------GAAG--GGAGAAAAACUUACCUAUCAAAGUCACUGAGACGCGACGAAUCGCGAAAUCCCUUCGCAAACGGAUUCGAAUCGAUUUUCAGUUUCGUAAUCAAUUGAUUCUGAUAG
-------....--..............((((((.(((((((((((..((((((((((((((.....))))).....))))))..)))..)))))))...(....)....)))).)))))) ( -26.90)
>DroVir_CAF1 50898 106 - 1
--------------UUUUUUUGCUUACCUAUCAAAAUCAGUCAGACGCGACGAAUCGCGAAAUCCUUUGGCGAACGGAUUCGAAUCGAUUUUCAAUUUUGUAAUCAAUUGAUUCUGAUAG
--------------.............((((((.((((((((((((((((....)))))......))))))(((((((...(((......)))...)))))..))...))))).)))))) ( -23.10)
>DroPse_CAF1 40820 118 - 1
CAAUUCCAAAG--GAAGAGACACUCACCUAUCAAAGUCAGUGAGACGCGACGAAUCGCGAAAUCCUUUUGCAAACGGAUUCGAAUCGAUUUUCAGUUUCGUAAUCAAUUGAUUCUGAUAG
...((((...)--)))(((...)))..((((((.(((((((((.(((.(((((((((((((.(((..........)))))))...))))))...))).)))..)).))))))).)))))) ( -27.60)
>DroGri_CAF1 56076 111 - 1
-------U--AGAAAUAAAAAACUCACCUAUCAAAAUCAGUCAGACGAGACGAAUCGCGAAAUCCUUUUGCGAACGGAUUCGAAUCGAUUUUCAAUUUUGUAAUCAAUUGAUUCUGAUAG
-------.--.................((((((.(((((((...((((((((..(((((((.....))))))).)).....(((......)))..)))))).....))))))).)))))) ( -23.50)
>DroWil_CAF1 49143 114 - 1
CGG----CGAG--CACUAAAAACUCACCUAUCAAAGUCAGUCAGUCGCGACGAAUCGCGAAAUCCUUUGGCAAACGGAUUCGAAUCGAUUUUCAAUUUGGUAAUCAAUUGAUUCUGAUAU
.((----.(((--.........))).))(((((.((((((((((((((((....))))))......)))))...((((((.(((......))))))))).........))))).))))). ( -27.20)
>DroMoj_CAF1 57136 113 - 1
-------UGAUGAUGAAAACAACUCACCUAUCAAAAUCAGUCAGACGCGACGAAUCGCGAAAUCCUUUUGCGAACGGAUUCGAGUCGAUUUUCAAUUUUGUAAUCAAUUGAUUCUGAUAG
-------....................((((((.(((((((..(((.(((((..(((((((.....))))))).))...))).)))((((..((....)).)))).))))))).)))))) ( -26.00)
>consensus
_______U_AG__GAAAAAAAACUCACCUAUCAAAAUCAGUCAGACGCGACGAAUCGCGAAAUCCUUUUGCAAACGGAUUCGAAUCGAUUUUCAAUUUUGUAAUCAAUUGAUUCUGAUAG
...........................((((((.(((((((....(((((....)))))..............(((((...(((......)))...))))).....))))))).)))))) (-19.54 = -19.65 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:47 2006