Locus 2320

Sequence ID	2L_DroMel_CAF1
Location	6,289,316 – 6,289,472
Length	156
Max. P	0.956800

overview

Window 8

Location	6,289,316 – 6,289,410
Length	94
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	89.55
Mean single sequence MFE	-34.82
Consensus MFE	-27.22
Energy contribution	-27.54
Covariance contribution	0.32
Combinations/Pair	1.11
Mean z-score	-2.28
Structure conservation index	0.78
SVM decision value	1.47
SVM RNA-class probability	0.956800
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6289316 94 + 22407834
UUUUGACUU-----UUUACGUAGAGGGGAGAUCCUUUCGGGCGUUUGGUUACGAAUUC----GCCCUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUU
.........-----....(((.((((((....))))))(((((((((....))))..)----))))(((((((((((.....)))))))))))....)))... ( -33.60)
>DroSec_CAF1 125304 94 + 1
UUUGGACUU-----UUUACGUAGAGGGGAGAUCCUCUCGGGCGUUUCGUUACGAAUUC----GCCCUAUGGUGUCCUGACUUGGGGCGCUGUAAGGCGCGAUU
(((((((..-----...((((.((((((....))))))..))))...))).)))).((----(((((((((((((((.....)))))))))).))).)))).. ( -37.90)
>DroSim_CAF1 140272 94 + 1
UUUGGACUU-----UUUACGUAGAGGGGAGAUCCUCUCGGGCGUUUCGUUACGAAUUC----GCCCUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUU
.........-----....(((.((((((....))))))(((((.((((...))))..)----))))(((((((((((.....)))))))))))....)))... ( -37.00)
>DroEre_CAF1 125031 98 + 1
UUUGGAUUU-----UUUACGUGGAGGGGAGAUCCUCUCGGGGUUUUCGCUACGAAUUGGUGUGUCCUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUU
.........-----....(((((((.((((((((.....)))))))).))................(((((((((((.....)))))))))))..)))))... ( -32.70)
>DroYak_CAF1 139446 98 + 1
UUUGGGUUUUUUUUUUUACGUAGCGAGGAGAUCCUCUCGGGGU-UUCGUUACGAAUUC----GCCCUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUU
..................((((((((((...(((....))).)-)))))))))...((----((..(((((((((((.....)))))))))))....)))).. ( -32.90)
>consensus
UUUGGACUU_____UUUACGUAGAGGGGAGAUCCUCUCGGGCGUUUCGUUACGAAUUC____GCCCUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUU
..................(((.((((((....))))))((((..((((...)))).......))))(((((((((((.....)))))))))))....)))... (-27.22 = -27.54 +   0.32)

alignment

secondary structure

dotplot

Window 9

Location	6,289,372 – 6,289,472
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	83.86
Mean single sequence MFE	-31.93
Consensus MFE	-24.36
Energy contribution	-25.75
Covariance contribution	1.39
Combinations/Pair	1.21
Mean z-score	-2.60
Structure conservation index	0.76
SVM decision value	0.73
SVM RNA-class probability	0.834115
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6289372 100 + 22407834
CUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUUAACGUAAAAUAGCGUAUGAAGAGCGGCCAACAGUGGCUGCAAAAAAAUAUGCCACACGAAGC
.(((((((((((.....))))))))))).(((((..((.((((......))))...))..))))).....(((((.............)))))....... ( -35.22)
>DroVir_CAF1 161809 93 + 1
CU-CAGCCUGCUGUCUC---GUGUUGUAAACCGCGAUUAACGUAA-AUAGCGGAAAA--AAUGGCGCACAGUACCAGCAAAAAAAUAUGCCACAGAUAGA
..-.......((((((.---(((..(((..((((.(((......)-)).))))....--..(((..(...)..))).........)))..))))))))). ( -20.10)
>DroSec_CAF1 125360 100 + 1
CUAUGGUGUCCUGACUUGGGGCGCUGUAAGGCGCGAUUAACGUAAAAUAGCGUAUGAAGAGCGGCCAACAGUGGCUGCAAAAAAAUAUGCCACACAAAGC
.(((((((((((.....))))))))))).((((......((((......)))).......(((((((....))))))).........))))......... ( -34.00)
>DroSim_CAF1 140328 100 + 1
CUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUUAACGUAAAAUAGCGUAUGAAGAGCGGCCAACAGUGGCUGCAAAAAAAUAUGCCACACGAAGC
.(((((((((((.....))))))))))).(((((..((.((((......))))...))..))))).....(((((.............)))))....... ( -35.22)
>DroEre_CAF1 125091 93 + 1
CUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUUAACGUAA-AUAGCGUAUAAAGAGCGGCCAGCAGUGGCUGAAAGAA------CCAAGUGAGCC
..........((.(((((((.((((((..(((((..(((((((..-...)))).)))...)))))..)))))).)(....)..------)))))).)).. ( -32.50)
>DroYak_CAF1 139506 100 + 1
CUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUUAACGUAAAAUAGCGUAUAAAGAGCGGCCAACAGUGGCUGCAAAAAAAUAUGCCACACGAACC
.(((((((((((.....))))))))))).(((((..(((((((......)))).)))...))))).....(((((.............)))))....... ( -34.52)
>consensus
CUAUGGUGUCCUGACUUGGGGCGCUGUAAGCCGCGAUUAACGUAAAAUAGCGUAUAAAGAGCGGCCAACAGUGGCUGCAAAAAAAUAUGCCACACGAAGC
.(((((((((((.....))))))))))).(((((..(((((((......)))).)))...))))).....(((((.............)))))....... (-24.36 = -25.75 +   1.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:09 2006