Locus 3482

Sequence ID	2R_DroMel_CAF1
Location	11,691,558 – 11,691,670
Length	112
Max. P	0.765104

overview

Window 9

Location	11,691,558 – 11,691,670
Length	112
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	74.98
Mean single sequence MFE	-27.80
Consensus MFE	-14.84
Energy contribution	-17.23
Covariance contribution	2.39
Combinations/Pair	1.19
Mean z-score	-1.65
Structure conservation index	0.53
SVM decision value	0.22
SVM RNA-class probability	0.641028
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11691558 112 + 20766785
GAUGCGUUAUUAAUUAUUAAUAACAAAUUGUUAUCGGCGGGGAGCUAAUGCAACCGGUUCCUGCGCGGGAUUUUCCGCGAAGCAUUAACCUCGCCCA--AUUGCAAAGCACUUG
..((((((((((.....)))))))...((((....(((((((...((((((..((((.((((....))))....))).)..)))))).)))))))..--...)))).))).... ( -37.60)
>DroSec_CAF1 31695 98 + 1
---GCUUUAUUAAUUAUUAAUAACAAAUGGUUAUCGGCGGGGAGCUAAUGCAACCGGUUCCUGCGCGGGAUUUUCCGCGAAGCAUUAACCUCGCCCA--AUUG-----------
---.......((((((((.......))))))))..(((((((...((((((..((((.((((....))))....))).)..)))))).)))))))..--....----------- ( -30.00)
>DroSim_CAF1 27572 98 + 1
---GCUUUAUUAAUUAUUAAUAACAAAUGGUUAUCGGCGGGGAGCUAAUGCAACCGGUUCCUGCGCGGGAUUUUCCGCGAAGCAUUAACCUCACCCA--AUUG-----------
---(((....((((((((.......))))))))..)))((((((.((((((..((((.((((....))))....))).)..))))))..))).))).--....----------- ( -29.10)
>DroEre_CAF1 27743 109 + 1
---GCGUUAUUAAUUUUUAAUAACAAAUGGUUAUCGGCGUGCAGCUAAAGCAACCGGUUCCCUCUCGUGAUUUUCCGCGAUGCAUUAACCUCGCCCA--AUUGCUAAUCACUGG
---..(((((((.....)))))))....((..(((((..(((.......))).)))))..))....((((((....(((((((.........))...--))))).))))))... ( -25.10)
>DroWil_CAF1 43536 88 + 1
---GUUUUGUUAUUUCGGAA-GUCAUAUGGAUUUAA-CCAAGUUCAAAUGCAACCGGUUUUGG--------UUAUCAAAAAGCAUUCACCUCCCCCG--UUCG-----------
---....((((...((((..-(.(((.(((((((..-..))))))).))))..))))(((((.--------....))))))))).............--....----------- ( -12.90)
>DroYak_CAF1 28132 111 + 1
---GCGUUAUUAAUUAUUAAUAACAAAUGGUUAUCGGCGGGGAGCUAAUGCAACCGGUUCCUUCUCGGAAUUUUCCGCGAAGCAUUAACCUCGCCCAAAAUUGCAAAUCACUUG
---(((((((((.....)))))))...........(((((((...((((((..((((((((.....))))....))).)..)))))).))))))).......)).......... ( -32.10)
>consensus
___GCGUUAUUAAUUAUUAAUAACAAAUGGUUAUCGGCGGGGAGCUAAUGCAACCGGUUCCUGCGCGGGAUUUUCCGCGAAGCAUUAACCUCGCCCA__AUUG___________
...................(((((.....))))).(((((((...((((((..((((.((((....))))....))).)..)))))).)))))))................... (-14.84 = -17.23 +   2.39)

alignment

secondary structure

dotplot

Window 0

Location	11,691,558 – 11,691,670
Length	112
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	74.98
Mean single sequence MFE	-27.95
Consensus MFE	-16.70
Energy contribution	-17.85
Covariance contribution	1.15
Combinations/Pair	1.27
Mean z-score	-1.54
Structure conservation index	0.60
SVM decision value	0.51
SVM RNA-class probability	0.765104
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11691558 112 - 20766785
CAAGUGCUUUGCAAU--UGGGCGAGGUUAAUGCUUCGCGGAAAAUCCCGCGCAGGAACCGGUUGCAUUAGCUCCCCGCCGAUAACAAUUUGUUAUUAAUAAUUAAUAACGCAUC
...((((........--..((((.((((..(((...((((......)))))))..))))((..((....))..))))))...........(((((((.....))))))))))). ( -34.30)
>DroSec_CAF1 31695 98 - 1
-----------CAAU--UGGGCGAGGUUAAUGCUUCGCGGAAAAUCCCGCGCAGGAACCGGUUGCAUUAGCUCCCCGCCGAUAACCAUUUGUUAUUAAUAAUUAAUAAAGC---
-----------.(((--((((((.((((..(((...((((......)))))))..))))((..((....))..))))))((((((.....))))))..)))))........--- ( -29.40)
>DroSim_CAF1 27572 98 - 1
-----------CAAU--UGGGUGAGGUUAAUGCUUCGCGGAAAAUCCCGCGCAGGAACCGGUUGCAUUAGCUCCCCGCCGAUAACCAUUUGUUAUUAAUAAUUAAUAAAGC---
-----------.(((--((((((.((((..(((...((((......)))))))..))))((..((....))..))))))((((((.....))))))..)))))........--- ( -27.50)
>DroEre_CAF1 27743 109 - 1
CCAGUGAUUAGCAAU--UGGGCGAGGUUAAUGCAUCGCGGAAAAUCACGAGAGGGAACCGGUUGCUUUAGCUGCACGCCGAUAACCAUUUGUUAUUAAAAAUUAAUAACGC---
.((((....((((((--(((((((.((....)).))))......((.(....).)).)))))))))...)))).................(((((((.....)))))))..--- ( -29.20)
>DroWil_CAF1 43536 88 - 1
-----------CGAA--CGGGGGAGGUGAAUGCUUUUUGAUAA--------CCAAAACCGGUUGCAUUUGAACUUGG-UUAAAUCCAUAUGAC-UUCCGAAAUAACAAAAC---
-----------....--((((((((((((((((........((--------((......))))))))))..))))((-......))......)-)))))............--- ( -17.30)
>DroYak_CAF1 28132 111 - 1
CAAGUGAUUUGCAAUUUUGGGCGAGGUUAAUGCUUCGCGGAAAAUUCCGAGAAGGAACCGGUUGCAUUAGCUCCCCGCCGAUAACCAUUUGUUAUUAAUAAUUAAUAACGC---
..........((.......((((.(((((((((..(.(((....((((.....))))))))..)))))))))...))))...........(((((((.....)))))))))--- ( -30.00)
>consensus
___________CAAU__UGGGCGAGGUUAAUGCUUCGCGGAAAAUCCCGCGCAGGAACCGGUUGCAUUAGCUCCCCGCCGAUAACCAUUUGUUAUUAAUAAUUAAUAAAGC___
...................((((.(((((((((..(.(((....(((......))).))))..)))))))))...))))((((((.....)))))).................. (-16.70 = -17.85 +   1.15)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:39 2006