Locus 7574

Sequence ID	X_DroMel_CAF1
Location	18,844,700 – 18,844,827
Length	127
Max. P	0.955221

overview

Window 1

Location	18,844,700 – 18,844,791
Length	91
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.61
Mean single sequence MFE	-34.35
Consensus MFE	-19.67
Energy contribution	-19.42
Covariance contribution	-0.25
Combinations/Pair	1.14
Mean z-score	-1.55
Structure conservation index	0.57
SVM decision value	0.24
SVM RNA-class probability	0.647810
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18844700 91 + 22224390
--------------GGUGCGGGUCUUGGAGCUGUGCGG------------UGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC--UGCAACC
--------------((((((((...((.((((((((.(------------(((.((.(((((((.(......-..)))))))).)))))).)))...))))..).))..))--))).))) ( -30.00)
>DroPse_CAF1 112549 118 + 1
GCGGCAGGAGGCAGGGAGCAGGGAUA-GGGGUGUGGGAUAGCUCUGGUAAAGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCACCGCAUCGCUGCC
..(((((((.((.((...((.(((((-(((((.((((((((((.......))))....))))))))))))))-)).))........(((((((......))))))).)))).)).))))) ( -42.80)
>DroSec_CAF1 81308 91 + 1
--------------GGUGCGGGUCUUGGAGCUGUGCGG------------UGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC--UGCAACC
--------------((((((((...((.((((((((.(------------(((.((.(((((((.(......-..)))))))).)))))).)))...))))..).))..))--))).))) ( -30.00)
>DroEre_CAF1 78777 91 + 1
-------------GGGUGCGCGUCUUGGAGCUGUGCGG------------UGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC--UGCAUC-
-------------(((((((.(.((.((....((((.(------------(((.((.(((((((.(......-..)))))))).)))))).)))).)))).).))))))).--......- ( -29.30)
>DroYak_CAF1 78956 103 + 1
GAUGCGGAUG--AGGGUGCUGGUCUUGGAGCUGUGCGG------------UGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC--UGCAUCU
((((((((..--..((((((((.((.((....((((.(------------(((.((.(((((((.(......-..)))))))).)))))).)))).))))))).)))))))--)))))). ( -39.20)
>DroPer_CAF1 118500 113 + 1
GGGACAGG------GGGGCAGGGAUA-GGGGUGUGGGAUAGCUCUGGUAAAGCUCAUAAUUCCAGCUUUUAUUUUGUGGGAUUUUGGCAUGGAAUGUCAGUCAUGCACCGCACCGCUGCC
.((.(((.------((....((((((-(((((.((((((((((.......))))....)))))))))))))))))((((.......((((((........)))))).)))).)).))))) ( -34.80)
>consensus
______________GGUGCGGGUCUUGGAGCUGUGCGG____________UGCUCAUAAUUCCAGCUUUUAU_UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC__UGCAACC
..............(((((...................................((.(((((((.(.........)))))))).))(((((((......)))))))........))).)) (-19.67 = -19.42 +  -0.25)

alignment

secondary structure

dotplot

Window 2

Location	18,844,724 – 18,844,827
Length	103
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	75.07
Mean single sequence MFE	-26.56
Consensus MFE	-18.74
Energy contribution	-18.46
Covariance contribution	-0.28
Combinations/Pair	1.05
Mean z-score	-1.80
Structure conservation index	0.71
SVM decision value	1.45
SVM RNA-class probability	0.955221
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18844724 103 + 22224390
----------UGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC--UGCAACCUC-CUUACCCGUCUCCC---UCCGCCUUCGCCUUUGCCUU
----------(((.((.(((((((.(......-..)))))))).))(((((((......))))))).....--.))).....-..............---.................... ( -19.90)
>DroPse_CAF1 112588 112 + 1
GCUCUGGUAAAGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCACCGCAUCGCUGCCCC-AUGCCCCAUGCCCCAUGCCCGCAUGCGC------AUU
((......((((((.........))))))...-.((((((.....(((((((((((.((((.((((...)))).))))...)-)))))..))))).....))))))...))------... ( -38.20)
>DroSec_CAF1 81332 97 + 1
----------UGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC--UGCAACCUC-CUUACCCAUCUCCC---UCCGCCUCCGC------CUU
----------(((.((.(((((((.(......-..)))))))).))(((((((......))))))).....--.))).....-..............---...........------... ( -19.90)
>DroYak_CAF1 78992 90 + 1
----------UGCUCAUAAUUCCAGCUUUUAU-UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC--UGCAUCUUCGCCUCCGCAUCUCC-----------ACGC------CGU
----------.((.((.(((((((.(......-..)))))))).))))(((((.........(((((....--)))))....((....))......-----------..))------))) ( -20.90)
>DroPer_CAF1 118533 113 + 1
GCUCUGGUAAAGCUCAUAAUUCCAGCUUUUAUUUUGUGGGAUUUUGGCAUGGAAUGUCAGUCAUGCACCGCACCGCUGCCCC-AUGCCCCAUGCCCCAUGCCCGCAUGCGC------AUU
((......((((((.........)))))).....((((((.....(((((((.(((.((((..(((...)))..))))...)-))...))))))).....))))))...))------... ( -33.90)
>consensus
__________UGCUCAUAAUUCCAGCUUUUAU_UUGUGGGAUUUUGGCAUGGCAUGUCAGUCAUGCAUCUC__UGCAACCUC_CUUCCCCAUCUCCC___CCCGCAUGCGC______CUU
..........(((.((.(((((((.(.........)))))))).))(((((((......)))))))........)))........................................... (-18.74 = -18.46 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:23 2006