Locus 5269

Sequence ID	X_DroMel_CAF1
Location	13,785,644 – 13,785,786
Length	142
Max. P	0.893018

overview

Window 3

Location	13,785,644 – 13,785,757
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.69
Mean single sequence MFE	-27.12
Consensus MFE	-17.28
Energy contribution	-18.12
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.64
SVM decision value	0.97
SVM RNA-class probability	0.893018
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13785644 113 + 22224390
CU---CCCGCACCACUCAUCCCCCUUC----GGGCCACACCAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAAAGCCAAAA
..---...((((..........((...----.))..............................(((((...((((((((......))))))))...))))))))).((....))..... ( -27.20)
>DroPse_CAF1 107026 104 + 1
CUUGCCCCGCG---C------CGCUCCGCGGUGGCCACACCAACACAAUUGAAAUUCCUCUGGCGCAGAAAUUGCAUUUCACGCUGAAAAUGCGUGCUCUGCGUGCAGCA-------AAA
...((((((((---.------.....))))).)))........................((((((((((...((((((((.....).)))))))...))))))).)))..-------... ( -33.00)
>DroEre_CAF1 94561 110 + 1
CU---CCCGCA---CUCAUCCCCCUUC----GGGCCACACCAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAAAGCCAAAA
..---...(((---(.......((...----.))..............................(((((...((((((((......))))))))...))))))))).((....))..... ( -27.60)
>DroWil_CAF1 103968 85 + 1
-------------------------UC----GUCUCACACCAACACAAUUGAAAUUCCUUUCGCGCAGAAAUUGCAUUUCACGCUGAAAAUGCGUGCUCCGCGUGCAGG------CAACA
-------------------------..----(((((((............((((....))))(((.((....((((((((.....).)))))))..)).)))))).)))------).... ( -20.50)
>DroYak_CAF1 103230 110 + 1
CU---CCCGCA---CUCAUCCCCCUGC----GGGCCACACCAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAGAGCCAAAA
..---((((((---..........)))----))).......................((((.(((((((...((((((((......))))))))...)))))))......))))...... ( -31.40)
>DroMoj_CAF1 123664 90 + 1
-------GGCA-----------CUCUU----GGCACACACCAACACAAUUGAAAUUCCUUUGGCGCAGAAAUUGCAUUUCACGCUGAAAAUGCGUGCUCUGCGUGCAGCA---GC-----
-------.(((-----------(.(..----(((((.((.(((.....))).......((..(((..(((((...))))).)))..))..)).)))))..).))))....---..----- ( -23.00)
>consensus
CU___CCCGCA___C______CCCUUC____GGGCCACACCAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGAAAAUGCGUGCUCUGCGUGCAGCA___GCCAAAA
........((.....................((......)).....................(((((((...(((((((........)))))))...)))))))...))........... (-17.28 = -18.12 +   0.83)

alignment

secondary structure

dotplot

Window 4

Location	13,785,677 – 13,785,786
Length	109
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	86.97
Mean single sequence MFE	-23.82
Consensus MFE	-20.50
Energy contribution	-21.17
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.86
SVM decision value	0.37
SVM RNA-class probability	0.709939
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13785677 109 + 22224390
CAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAAAGCCAAAACCAAAGUGCAAUA---GCAACAAAAAAAAAAC
...(((................(((((((...((((((((......))))))))...)))))))...((....))..........))).....---................ ( -23.70)
>DroPse_CAF1 107057 95 + 1
CAACACAAUUGAAAUUCCUCUGGCGCAGAAAUUGCAUUUCACGCUGAAAAUGCGUGCUCUGCGUGCAGCA-------AAACCAAAGUGCAACG---ACGAUAGG-------C
.....(.((((...........(((((((...((((((((.....).)))))))...)))))))...(((-------.........)))....---.)))).).-------. ( -20.20)
>DroSec_CAF1 93011 101 + 1
CAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAGAGCCAAAACCAAAGUGCAACA---GCAACAAA--------
........(((......((((.(((((((...((((((((......))))))))...)))))))......))))............(((....---))).))).-------- ( -25.20)
>DroSim_CAF1 99372 101 + 1
CAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAGAGCCAAAACCAAAGUGCAACA---GCAACAAA--------
........(((......((((.(((((((...((((((((......))))))))...)))))))......))))............(((....---))).))).-------- ( -25.20)
>DroYak_CAF1 103260 101 + 1
CAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAGAGCCAAAACCAAAGUGCAACA---GCAACAAA--------
........(((......((((.(((((((...((((((((......))))))))...)))))))......))))............(((....---))).))).-------- ( -25.20)
>DroMoj_CAF1 123682 97 + 1
CAACACAAUUGAAAUUCCUUUGGCGCAGAAAUUGCAUUUCACGCUGAAAAUGCGUGCUCUGCGUGCAGCA---GC-----CUAAAGUGCAACGAUAGCAGCAGCA-------
.....(((..(.....)..)))((((.....((((((((...((((....(((((((...))))))).))---))-----...)))))))).....)).))....------- ( -23.40)
>consensus
CAACACAAUUGAAAUUCCUCUAGCGCAGAAAUUGCAUUUCACGCUGGAAAUGCGUGCUCUGCGUGCAGCAAGAGCCAAAACCAAAGUGCAACA___GCAACAAA________
...(((................(((((((...((((((((......))))))))...)))))))...((....))..........)))........................ (-20.50 = -21.17 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:40 2006