Locus 8536

Sequence ID	3R_DroMel_CAF1
Location	22,790,292 – 22,790,436
Length	144
Max. P	0.985932

overview

Window 6

Location	22,790,292 – 22,790,397
Length	105
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	72.14
Mean single sequence MFE	-19.87
Consensus MFE	-8.00
Energy contribution	-8.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.53
Structure conservation index	0.40
SVM decision value	2.02
SVM RNA-class probability	0.985932
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22790292 105 - 27905053
AACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAGCGCAAACACA----AACAA-CAUGAAAGGAAAAACAACAACAGUUGUGCAAAGGCAAGAGCAGGAACAACAA
...((((.....))))....(((.((((.((((...........))))----.))))-.)))..................(((((.(....((....))..).))))).. ( -22.60)
>DroPse_CAF1 15222 89 - 1
AAUGCGCUCAUAGCGCUCAACAUUUUGUAUGUGGUAAG--GAAACAGGAA--AACAAACAAAUACAGAA----AACCUCAGU--------GACAAAAACAACAAC-----
...((((.....))))......((((((.((.(((..(--....).(...--..)..............----.))).))..--------.))))))........----- ( -16.40)
>DroGri_CAF1 25367 102 - 1
AACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAG--UAAGCAAGCAGCAACAAAAAA--C-UAAACAACAACAACA---GAAAAAAUAUACAAAUUGCGACAUACA
...((((.....)))).........(((((((.((((.--...((.....)).........--.-..........(....---)..............)))).))))))) ( -17.90)
>DroSec_CAF1 13849 102 - 1
AACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAGCGCAAACACA----AACAA-CAUGAAAGGAA-AACAACAACAGUUGUGCAAAGGCAAAAGCAGCAACAAU--
...((((.....))))....(((.((((.((((...........))))----.))))-.))).......-.(((((....)))))((....((....)).))......-- ( -21.90)
>DroSim_CAF1 14228 105 - 1
AACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAGCGCAAACACA----AACAA-CAUGAAAGGAAAAACAACAACAGUUGUGCAAAGGCAAAAGCAGCAACAACGA
...((((.....))))....(((.((((.((((...........))))----.))))-.)))..................(((((((....((....)).)).))))).. ( -24.00)
>DroPer_CAF1 15265 89 - 1
AAUGCGCUCAUAGCGCUCAACAUUUUGUAUGUGGUAAG--GAAACAGGAA--AACAAACAAAUGCAGAA----AACCUCAGU--------GACAAAAACAACAAC-----
...((((.....))))......((((((.((.(((..(--....).(...--..)..............----.))).))..--------.))))))........----- ( -16.40)
>consensus
AACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAG__CAAACACA____AACAA_CAAGAAAGGAA_AACAACAACAGU_GUGCAAAGACAAAAACAGCAACAA___
...((((.....))))...((((.....)))).............................................................................. ( -8.00 =  -8.00 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	22,790,322 – 22,790,436
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.48
Mean single sequence MFE	-24.25
Consensus MFE	-14.87
Energy contribution	-15.07
Covariance contribution	0.19
Combinations/Pair	1.11
Mean z-score	-2.04
Structure conservation index	0.61
SVM decision value	0.33
SVM RNA-class probability	0.691072
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22790322 114 - 27905053
CAAUC-AUAAAUCAUGUGCGGCGGUUUCACCUGCUCGAAAAACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAGCGCAAACACA----AACAA-CAUGAAAGGAAAAACAACAACA
.....-.....((((((.((((((......)))).))......(((((.((..((..(((....)))..))..)).))))).......----....)-)))))................. ( -27.10)
>DroVir_CAF1 16770 105 - 1
AAAAAACAGCAAAAUGUGUGGUGGUUUUACCUGCUCCAAGAACGCGCUAAUUGCGCUUAACAUUUUGUAUGUGGUAAG--CA-GAA------AACAAAAAA------AAAACCAACAACA
..............(((.((((.(((((..(((((((......((((.....))))...((((.....))))))..))--))-)))------)))......------...))))...))) ( -22.40)
>DroGri_CAF1 25394 111 - 1
----AUCAGCAAAAUGUGUGGUGGUUUUACCUGCUCGAAGAACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAG--UAAGCAAGCAGCAACAAAAAA--C-UAAACAACAACAACA
----..........(((((..(((((((..(((((.(....((((((.....))))...((((.....)))).....)--)...).)))))......))))--)-)).)).)))...... ( -20.50)
>DroSec_CAF1 13877 113 - 1
CAAAC-AUAAAUCAUGUGUGGCGGUUUCACCUGCUCGAAAAACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAGCGCAAACACA----AACAA-CAUGAAAGGAA-AACAACAACA
.....-.....(((((((((((((......)))))........(((((.((..((..(((....)))..))..)).))))).......----.)).)-)))))......-.......... ( -26.30)
>DroSim_CAF1 14258 114 - 1
CAAAC-AUAAAUCAUGUGCGGCGGUUUCACCUGCUCGAAAAACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAGCGCAAACACA----AACAA-CAUGAAAGGAAAAACAACAACA
.....-.....((((((.((((((......)))).))......(((((.((..((..(((....)))..))..)).))))).......----....)-)))))................. ( -27.10)
>DroYak_CAF1 14189 112 - 1
CAAAC-AAAAAUCAUGUGCGGCGGUUUCACCUGCUCGAAAAACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAG--CAAACACA----AACAA-CAUAAGCAGAAAAACAACAACU
.....-.........((...(..((((...(((((........((((.....))))........((((.((((.....--....))))----.))))-....)))))..))))..).)). ( -22.10)
>consensus
CAAAC_AAAAAUCAUGUGCGGCGGUUUCACCUGCUCGAAAAACGCGCUAAUUGCGCUCAACAUUUUGUAUGUGGUAAG__CAAACACA____AACAA_CAUGAAAGGAAAAACAACAACA
..........((((((((((((((......)))))........((((.....))))..........)))))))))............................................. (-14.87 = -15.07 +   0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:31 2006