Locus 964

Sequence ID	2R_DroMel_CAF1
Location	4,110,035 – 4,110,144
Length	109
Max. P	0.740831

overview

Window 7

Location	4,110,035 – 4,110,144
Length	109
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	73.22
Mean single sequence MFE	-27.90
Consensus MFE	-14.23
Energy contribution	-15.52
Covariance contribution	1.28
Combinations/Pair	1.33
Mean z-score	-1.61
Structure conservation index	0.51
SVM decision value	0.10
SVM RNA-class probability	0.584876
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4110035 109 + 20766785
GGGUUAAGUACAUUGCAGAAGGCACACCGGAAGGUAGUGUACUCGUACUCCUCCUUCGGCAGCAUUCCUGUAAA-GGAGG--CAUAUUUGUUUAAGAAUAAGCAUAGUACAA
.......((((..(((.((..(((((((....))).))))..))(((..(((((((..((((.....)))).))-)))))--..)))..............)))..)))).. ( -35.10)
>DroGri_CAF1 13690 103 + 1
GGAUUUAGCACACCACAAAAAGCGCAAACAAAAGUUGUAUAUUCAUAUUCCUCCACAGGCAGCAUGCCUACAAA-UGUGA--UAA---UGUUUUACAAA--AGUUAAUACA-
(...(((((....((((...............((..((((....))))..))....((((.....)))).....-)))).--...---((.....))..--.)))))..).- ( -11.90)
>DroSec_CAF1 14107 109 + 1
GGGUUAAGUACAUUGCAGAAGGCACACCGGAAGGUAGUGUACUCGUACUCCUCCUUGGGCAGCAUUCCUGUGAA-GGAGG--CAAAUUUGUUUAACAAUAAACAUAGUACAA
.......((((.((((.((..(((((((....))).))))..))......((((((.(.(((.....)))).))-)))))--)))...((((((....))))))..)))).. ( -35.10)
>DroSim_CAF1 17866 106 + 1
GGGUUAAGUACAUUGCAGAAGGCACACCGGAAGGUAGUGUACUCGUACUCCUCCUUGGGCAGCAUUCCUGUGAA-GGAGG--CAAAUUUGUUUAAUAAUAUACAUAGUA---
..((((((((..((((.((..(((((((....))).))))..))......((((((.(.(((.....)))).))-)))))--)))...)))))))).............--- ( -28.90)
>DroEre_CAF1 539 108 + 1
GGGUUAAGUACAUUGCAGAAGGCACACCUGAAGGUAGUGUACUCGUACUCCUCCUUGGGCAGCAUUCCUGUAAA-GGAGG--CAUAUUCGUUUAACAAUAUACAU-GCACGU
((((..((((((((((...(((....)))....))))))))))...))))((((((..((((.....)))).))-))))(--(((.(..(((....)))..).))-)).... ( -32.50)
>DroWil_CAF1 17845 108 + 1
GGAUUCAACGCAUUGCAAAACGCACACCGAAAUGUGGUAUAUUCAUACUCCUCUUGUGGCAGCAUGCCUAAUAAUUGAGGCGAAAGAAGAAUCCAUAUUC---AU-AUUCAC
((((((...((..(((.....)))..(((....(..((((....))))..).....)))..)).(((((........)))))......))))))......---..-...... ( -23.90)
>consensus
GGGUUAAGUACAUUGCAGAAGGCACACCGGAAGGUAGUGUACUCGUACUCCUCCUUGGGCAGCAUUCCUGUAAA_GGAGG__CAAAUUUGUUUAACAAUA_ACAUAGUACA_
((((..((((((((((....((....)).....))))))))))...))))((((....((((.....))))....))))................................. (-14.23 = -15.52 +   1.28)

alignment

secondary structure

dotplot

Window 8

Location	4,110,035 – 4,110,144
Length	109
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	73.22
Mean single sequence MFE	-27.30
Consensus MFE	-14.89
Energy contribution	-14.37
Covariance contribution	-0.52
Combinations/Pair	1.46
Mean z-score	-1.62
Structure conservation index	0.55
SVM decision value	0.45
SVM RNA-class probability	0.740831
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4110035 109 - 20766785
UUGUACUAUGCUUAUUCUUAAACAAAUAUG--CCUCC-UUUACAGGAAUGCUGCCGAAGGAGGAGUACGAGUACACUACCUUCCGGUGUGCCUUCUGCAAUGUACUUAACCC
..(((((.((.(((....))).))......--(((((-(((.(((.....)))..)))))))))))))(((((((.((((....))))(((.....))).)))))))..... ( -30.10)
>DroGri_CAF1 13690 103 - 1
-UGUAUUAACU--UUUGUAAAACA---UUA--UCACA-UUUGUAGGCAUGCUGCCUGUGGAGGAAUAUGAAUAUACAACUUUUGUUUGCGCUUUUUGUGGUGUGCUAAAUCC
-..........--.(((((...((---(..--((...-((..(((((.....)))))..)).))..)))....))))).........(((((......)))))......... ( -18.90)
>DroSec_CAF1 14107 109 - 1
UUGUACUAUGUUUAUUGUUAAACAAAUUUG--CCUCC-UUCACAGGAAUGCUGCCCAAGGAGGAGUACGAGUACACUACCUUCCGGUGUGCCUUCUGCAAUGUACUUAACCC
..(((((.((((((....))))))......--(((((-((..(((.....)))...))))))))))))(((((((.((((....))))(((.....))).)))))))..... ( -32.50)
>DroSim_CAF1 17866 106 - 1
---UACUAUGUAUAUUAUUAAACAAAUUUG--CCUCC-UUCACAGGAAUGCUGCCCAAGGAGGAGUACGAGUACACUACCUUCCGGUGUGCCUUCUGCAAUGUACUUAACCC
---......(((((((..............--(((((-((..(((.....)))...))))))).(((.(((((((((.......)))))).))).))))))))))....... ( -27.20)
>DroEre_CAF1 539 108 - 1
ACGUGC-AUGUAUAUUGUUAAACGAAUAUG--CCUCC-UUUACAGGAAUGCUGCCCAAGGAGGAGUACGAGUACACUACCUUCAGGUGUGCCUUCUGCAAUGUACUUAACCC
..((..-..(((((((((....((..(((.--(((((-((..(((.....)))...))))))).))))).(((((((.......))))))).....)))))))))...)).. ( -30.50)
>DroWil_CAF1 17845 108 - 1
GUGAAU-AU---GAAUAUGGAUUCUUCUUUCGCCUCAAUUAUUAGGCAUGCUGCCACAAGAGGAGUAUGAAUAUACCACAUUUCGGUGUGCGUUUUGCAAUGCGUUGAAUCC
......-..---......((((((....(((((((........))))(((((.((......)))))))))).(((((.......)))))(((((....)))))...)))))) ( -24.60)
>consensus
_UGUACUAUGU_UAUUGUUAAACAAAUUUG__CCUCC_UUUACAGGAAUGCUGCCCAAGGAGGAGUACGAGUACACUACCUUCCGGUGUGCCUUCUGCAAUGUACUUAACCC
..((((..........................(((((.....(((.....))).....))))).(((.(((((((((.......)))))).))).)))...))))....... (-14.89 = -14.37 +  -0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:54 2006