Locus 8454

Sequence ID	X_DroMel_CAF1
Location	21,013,424 – 21,013,624
Length	200
Max. P	0.981217

overview

Window 7

Location	21,013,424 – 21,013,544
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.39
Mean single sequence MFE	-49.90
Consensus MFE	-48.32
Energy contribution	-48.10
Covariance contribution	-0.22
Combinations/Pair	1.09
Mean z-score	-2.28
Structure conservation index	0.97
SVM decision value	1.35
SVM RNA-class probability	0.944763
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21013424 120 - 22224390
CGCCAUCAUUGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUUCGCAAUUCUGAUCCGCAGAACGAUCUAGGCAGAGCAGGCGC
((((....(((((((((....((((((.......))))))(((((...........)))))..)))))))))...(((..((..(((((.....)))))(......)))..))).)))). ( -46.90)
>DroSec_CAF1 435 120 - 1
CGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUCCGCAAUUCUGAUCCGCAGAGCGAUCUGGAAAGAGCAGGCGC
((((....(((((((((....((((((.......))))))(((((...........)))))..)))))))))((.....(((...((((.....))))))).(((....))))).)))). ( -51.80)
>DroSim_CAF1 95 120 - 1
CGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUCCGCAAUUCUGAUCCGCAGAUCGAUCUGGAAAGAGCAGGCGC
((((....(((((((((....((((((.......))))))(((((...........)))))..)))))))))((..(((((....((.((((....))))))..)))))...)).)))). ( -51.00)
>consensus
CGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUCCGCAAUUCUGAUCCGCAGAACGAUCUGGAAAGAGCAGGCGC
((((....(((((((((....((((((.......))))))(((((...........)))))..)))))))))((.((((.((...........)).))))..(((....))))).)))). (-48.32 = -48.10 +  -0.22)

alignment

secondary structure

dotplot

Window 8

Location	21,013,464 – 21,013,584
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-46.60
Consensus MFE	-47.26
Energy contribution	-46.60
Covariance contribution	-0.66
Combinations/Pair	1.06
Mean z-score	-1.46
Structure conservation index	1.01
SVM decision value	0.28
SVM RNA-class probability	0.665592
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21013464 120 - 22224390
UUCUGUCCUCCCGAAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUUGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUUC
............(((((((.....))....(((((((....((((....))))((((....((((((.......))))))(((((...........)))))..)))).)))))))))))) ( -43.60)
>DroSec_CAF1 475 120 - 1
UUCUGUCCUCCCGGAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUCC
............(((((((.((..(((.......)))..)).))....(((((((((....((((((.......))))))(((((...........)))))..)))))))))...))))) ( -48.10)
>DroSim_CAF1 135 120 - 1
UUCUGUCCUCCCGGAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUCC
............(((((((.((..(((.......)))..)).))....(((((((((....((((((.......))))))(((((...........)))))..)))))))))...))))) ( -48.10)
>consensus
UUCUGUCCUCCCGGAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGCGUGGGCAUUCUGUUCACCCGCAUCUCCGCCGAGCAGUUCC
............(((((((.((..(((.......)))..)).))....(((((((((....((((((.......))))))(((((...........)))))..)))))))))...))))) (-47.26 = -46.60 +  -0.66)

alignment

secondary structure

dotplot

Window 9

Location	21,013,504 – 21,013,624
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-57.00
Consensus MFE	-56.51
Energy contribution	-56.40
Covariance contribution	-0.11
Combinations/Pair	1.05
Mean z-score	-2.61
Structure conservation index	0.99
SVM decision value	1.88
SVM RNA-class probability	0.981217
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21013504 120 - 22224390
CCGUGGAACUCGAUCAUGAGCGGAGCGAUCGCCGGUGGGAUUCUGUCCUCCCGAAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUUGGCGGAGUUCUGCUCUCAAUGAUCGAGGGC
.....(..((((((((((((((((((..((((((((((.(((((((.........)))))))..)))))..((.(....).)).......))))).)))))))))...)))))))))..) ( -53.60)
>DroSec_CAF1 515 120 - 1
CCGUGGAACUCGAUCAUGAGCGGGGCGAUCGCCGGCGGGAUUCUGUCCUCCCGGAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGC
.....(..((((((((((((((((((..((((((((((.(((((((((....)).)))))))..)))))..((.(....).)).......))))).)))))))))...)))))))))..) ( -58.70)
>DroSim_CAF1 175 120 - 1
CCGUGGAACUCGAUCAUGAGCGGGGCGAUCGCCGGCGGGAUUCUGUCCUCCCGGAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGC
.....(..((((((((((((((((((..((((((((((.(((((((((....)).)))))))..)))))..((.(....).)).......))))).)))))))))...)))))))))..) ( -58.70)
>consensus
CCGUGGAACUCGAUCAUGAGCGGGGCGAUCGCCGGCGGGAUUCUGUCCUCCCGGAACGGAGUAGCCGCCAUGUUCGGAAGCGCCAUCAUCGGCGGAGUUCUGCUCUCAAUGAUCGAGGGC
.....(..((((((((((((((((((..((((((((((.(((((((((....)).)))))))..)))))..((.(....).)).......))))).)))))))))...)))))))))..) (-56.51 = -56.40 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:25 2006