Locus 1605

Sequence ID	2L_DroMel_CAF1
Location	4,316,265 – 4,316,379
Length	114
Max. P	0.980685

overview

Window 6

Location	4,316,265 – 4,316,379
Length	114
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	74.39
Mean single sequence MFE	-31.78
Consensus MFE	-28.89
Energy contribution	-27.92
Covariance contribution	-0.97
Combinations/Pair	1.22
Mean z-score	-2.60
Structure conservation index	0.91
SVM decision value	1.87
SVM RNA-class probability	0.980685
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4316265 114 + 22407834
GCUGAUAAUGCUGAUGGU--AGAAAUGCCUUUAUCUACUAACCAUUUACAAGCAUGUUCUUGGCCAAAUCGUCGUUGUUUCUGCCCAGGGCUGAGUUCAUGAUAGAUAAAGGCAUU
((.......)).......--...((((((((((((((...............((((..((..(((.....((.(......).))....)))..))..)))).)))))))))))))) ( -31.59)
>DroVir_CAF1 46241 111 + 1
ACCAGUAUCA-----GGAAAACAAACACCUUUAUCGCAAAAAUAUUACAAUGCAUGUUCUUGGCCAAAUCGUCGUUGUUUCUGCCCAGGGCUGAGUUCAUGUCGGAUAAAGGUGUU
.((.......-----))......(((((((((((((((............)))(((..((..(((.....((.(......).))....)))..))..)))....)))))))))))) ( -30.10)
>DroGri_CAF1 65327 94 + 1
----------------------AAACACCUUUAUCGCAAUAUAAUUGAUACACAUGUUCUUGGCCAAAUCGUCGUUGUUUCUGCCCAGGGCUGAGUUCAUGACGGAUAAAGGUGUU
----------------------.((((((((((((.((((...)))).....((((..((..(((.....((.(......).))....)))..))..))))...)))))))))))) ( -30.90)
>DroWil_CAF1 81454 105 + 1
GCAAACAAC-----------AAAAAUACCUUUAUCUCUAUUGAAAUGUUAUGCAUGUUCUUGGCCAAAUCGUCGUUGUUUCUGCCCAGGGCUGAGUUCAUGUUGGAUAAAGGUAUU
.........-----------...((((((((((((((....))........(((((..((..(((.....((.(......).))....)))..))..)))))..)))))))))))) ( -29.20)
>DroMoj_CAF1 51172 109 + 1
ACCAAGGUCA-----GGC--ACAGACACCUUUAUCAAAAAGUUAUUUAUGUGCAUGUUCUUGGCCAAAUCGUCGUUGUUUCUGCCCAGGGCUGAGUUCAUGUCGGAUAAAGGUGUU
..........-----...--...((((((((((((..(((....)))....(((((..((..(((.....((.(......).))....)))..))..)))))..)))))))))))) ( -30.60)
>DroAna_CAF1 47469 103 + 1
-----------UAAUAGU--AGGAACACCUUUAUCUCCGAAUUAAUGUCAGUCAUGUUCUCGGCCAAAUCGUCGUUGUUUCUGCCCAGGGCUGAGUUCAUGACAGAUAGAGGUGUU
-----------.......--...(((((((((((((..((.......)).((((((..(((((((.....((.(......).))....)))))))..))))))))))))))))))) ( -38.30)
>consensus
_C_AA_A_C______GG___ACAAACACCUUUAUCUCAAAAUUAUUGAUAUGCAUGUUCUUGGCCAAAUCGUCGUUGUUUCUGCCCAGGGCUGAGUUCAUGACGGAUAAAGGUGUU
.......................((((((((((((................(((((..(((((((.....((.(......).))....)))))))..)))))..)))))))))))) (-28.89 = -27.92 +  -0.97)

alignment

secondary structure

dotplot

Window 7

Location	4,316,265 – 4,316,379
Length	114
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	74.39
Mean single sequence MFE	-24.22
Consensus MFE	-19.98
Energy contribution	-19.45
Covariance contribution	-0.53
Combinations/Pair	1.14
Mean z-score	-1.03
Structure conservation index	0.82
SVM decision value	1.03
SVM RNA-class probability	0.903859
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4316265 114 - 22407834
AAUGCCUUUAUCUAUCAUGAACUCAGCCCUGGGCAGAAACAACGACGAUUUGGCCAAGAACAUGCUUGUAAAUGGUUAGUAGAUAAAGGCAUUUCU--ACCAUCAGCAUUAUCAGC
(((((((((((((((..........(((...))).........(((.(((((..((((......))))))))).))).)))))))))))))))...--.................. ( -28.70)
>DroVir_CAF1 46241 111 - 1
AACACCUUUAUCCGACAUGAACUCAGCCCUGGGCAGAAACAACGACGAUUUGGCCAAGAACAUGCAUUGUAAUAUUUUUGCGAUAAAGGUGUUUGUUUUCC-----UGAUACUGGU
((((((((((((.(.((((....((....))(((.(((.(......).))).))).....)))))...((((.....))))))))))))))))......((-----.......)). ( -24.70)
>DroGri_CAF1 65327 94 - 1
AACACCUUUAUCCGUCAUGAACUCAGCCCUGGGCAGAAACAACGACGAUUUGGCCAAGAACAUGUGUAUCAAUUAUAUUGCGAUAAAGGUGUUU----------------------
((((((((((((((((.((....))(((...))).........))))................(((((.....)))))...)))))))))))).---------------------- ( -23.80)
>DroWil_CAF1 81454 105 - 1
AAUACCUUUAUCCAACAUGAACUCAGCCCUGGGCAGAAACAACGACGAUUUGGCCAAGAACAUGCAUAACAUUUCAAUAGAGAUAAAGGUAUUUUU-----------GUUGUUUGC
(((((((((((((................(((.((((...........)))).))).(((.(((.....))))))....).))))))))))))...-----------......... ( -20.50)
>DroMoj_CAF1 51172 109 - 1
AACACCUUUAUCCGACAUGAACUCAGCCCUGGGCAGAAACAACGACGAUUUGGCCAAGAACAUGCACAUAAAUAACUUUUUGAUAAAGGUGUCUGU--GCC-----UGACCUUGGU
.(((((((((((.(.((((....((....))(((.(((.(......).))).))).....)))))....(((......))))))))))))))....--(((-----.......))) ( -21.60)
>DroAna_CAF1 47469 103 - 1
AACACCUCUAUCUGUCAUGAACUCAGCCCUGGGCAGAAACAACGACGAUUUGGCCGAGAACAUGACUGACAUUAAUUCGGAGAUAAAGGUGUUCCU--ACUAUUA-----------
(((((((.(((((.(((((..(((.(((.......................))).)))..)))))((((.......))))))))).)))))))...--.......----------- ( -26.00)
>consensus
AACACCUUUAUCCGACAUGAACUCAGCCCUGGGCAGAAACAACGACGAUUUGGCCAAGAACAUGCAUAUCAAUAAUUUUGAGAUAAAGGUGUUUCU___CC______G_U_UU_G_
((((((((((((.....((....))....(((.((((...........)))).))).........................))))))))))))....................... (-19.98 = -19.45 +  -0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:29 2006