Locus 7815

Sequence ID	X_DroMel_CAF1
Location	19,481,338 – 19,481,458
Length	120
Max. P	0.863200

overview

Window 9

Location	19,481,338 – 19,481,458
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.32
Mean single sequence MFE	-54.62
Consensus MFE	-48.68
Energy contribution	-49.44
Covariance contribution	0.76
Combinations/Pair	1.03
Mean z-score	-1.39
Structure conservation index	0.89
SVM decision value	0.84
SVM RNA-class probability	0.863200
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19481338 120 + 22224390
AGUUUGGCAGCUGAGGUGGCCGUGGUCUCGACAUGCUCCUGAUCCCGGUCCUCGACCAGGACAGAGGUGGUGUCACUGGUGGCGCCGCCUCCGCUGCGACGCCUCCUCCUGCUUCUCCUA
.....(((((..((((.(((.((.((..((.........((.(((.((((...)))).)))))((((((((((((....))))))))))))))..)).))))).)))))))))....... ( -53.70)
>DroSec_CAF1 3321 120 + 1
AGUUUGGCAGCUGAGGUGGCCGUGGUCUCGACGUGCUCCUGAUCCCGGUCCUCGACCAGGACCGAGGUGGUGUCACUGGUGGCGCCGCCUCCGCUGCGACGCCUCCUCCUGCUUCUCGUA
.(...(((((..((((.(((.((.((..((................((((((.....))))))((((((((((((....))))))))))))))..)).))))).)))))))))...)... ( -56.00)
>DroSim_CAF1 3385 120 + 1
AGUUUGGCAGCUGAGGUGGCCGUGGUCUCGACGUGCUCCUGAUCCCGGUCCUCGACCAGGACCGAGGUGGUGUCACUGGUGGCGCCGCCUCCGCUGCGACGCCUCCUCCUGCUUCUCGUA
.(...(((((..((((.(((.((.((..((................((((((.....))))))((((((((((((....))))))))))))))..)).))))).)))))))))...)... ( -56.00)
>DroEre_CAF1 3010 118 + 1
AGUUUGGCAGCUGAGGUGGCCGUGGUCUCGACGUGCUCCUGACCCUGGUCCUCGACCAGGAUCGAGGUGGGGUCGCUGAUGGCGCCGCCCCCGCUGCGACGCCUCCUCCUGCUUCUCU--
......(((((.(.((((((.((.(((.((((.(.(.(((((.(((((((...))))))).)).))).).)))))..))).)))))))).).)))))((.((........)).))...-- ( -52.40)
>DroYak_CAF1 2565 118 + 1
AGUUUGGCAGCUGAGGUGGCCGUGGUCUCGACGUGCUCCUGAUCCUGGUCCUCGACCAGGAACGAGGUGUGGUCGCUGGUGGCGCCGCCUCCGCUGCGACGCCUCCUCCUGCUUCUCG--
......(((((.((((((((.((..((.((((.(((.((((.((((((((...)))))))).).))).)))))))..))..)))))))))).)))))((.((........)).))...-- ( -55.00)
>consensus
AGUUUGGCAGCUGAGGUGGCCGUGGUCUCGACGUGCUCCUGAUCCCGGUCCUCGACCAGGACCGAGGUGGUGUCACUGGUGGCGCCGCCUCCGCUGCGACGCCUCCUCCUGCUUCUCGUA
.(...(((((..((((.(((.((.((..((............(((.((((...)))).)))..((((((((((((....))))))))))))))..)).))))).)))))))))...)... (-48.68 = -49.44 +   0.76)

alignment

secondary structure

dotplot

Window 0

Location	19,481,338 – 19,481,458
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.32
Mean single sequence MFE	-50.68
Consensus MFE	-48.76
Energy contribution	-48.40
Covariance contribution	-0.36
Combinations/Pair	1.12
Mean z-score	-1.17
Structure conservation index	0.96
SVM decision value	0.60
SVM RNA-class probability	0.796962
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19481338 120 - 22224390
UAGGAGAAGCAGGAGGAGGCGUCGCAGCGGAGGCGGCGCCACCAGUGACACCACCUCUGUCCUGGUCGAGGACCGGGAUCAGGAGCAUGUCGAGACCACGGCCACCUCAGCUGCCAAACU
..((...(((..((((.((((((((.......)))))))).....(((((...(..(((((((((((...)))))))).)))..)..)))))............)))).))).))..... ( -50.10)
>DroSec_CAF1 3321 120 - 1
UACGAGAAGCAGGAGGAGGCGUCGCAGCGGAGGCGGCGCCACCAGUGACACCACCUCGGUCCUGGUCGAGGACCGGGAUCAGGAGCACGUCGAGACCACGGCCACCUCAGCUGCCAAACU
........((((((((.((((((((.......))))))))....(((......(((.((((((((((...)))))))))))))..)))((((......))))..))))..))))...... ( -50.70)
>DroSim_CAF1 3385 120 - 1
UACGAGAAGCAGGAGGAGGCGUCGCAGCGGAGGCGGCGCCACCAGUGACACCACCUCGGUCCUGGUCGAGGACCGGGAUCAGGAGCACGUCGAGACCACGGCCACCUCAGCUGCCAAACU
........((((((((.((((((((.......))))))))....(((......(((.((((((((((...)))))))))))))..)))((((......))))..))))..))))...... ( -50.70)
>DroEre_CAF1 3010 118 - 1
--AGAGAAGCAGGAGGAGGCGUCGCAGCGGGGGCGGCGCCAUCAGCGACCCCACCUCGAUCCUGGUCGAGGACCAGGGUCAGGAGCACGUCGAGACCACGGCCACCUCAGCUGCCAAACU
--......((((((((.((((((.(.(((((((...(((.....))).)))).(((.((((((((((...)))))))))))))....))).).)))....))).))))..))))...... ( -53.50)
>DroYak_CAF1 2565 118 - 1
--CGAGAAGCAGGAGGAGGCGUCGCAGCGGAGGCGGCGCCACCAGCGACCACACCUCGUUCCUGGUCGAGGACCAGGAUCAGGAGCACGUCGAGACCACGGCCACCUCAGCUGCCAAACU
--......((((((((.((((((.(.(((((((.(((((.....))).))...))))((((((((((.........)))))))))).))).).)))....))).))))..))))...... ( -48.40)
>consensus
UACGAGAAGCAGGAGGAGGCGUCGCAGCGGAGGCGGCGCCACCAGUGACACCACCUCGGUCCUGGUCGAGGACCGGGAUCAGGAGCACGUCGAGACCACGGCCACCUCAGCUGCCAAACU
........((((((((.((((((((.......)))))))).....((((..(.(((.((((((((((...))))))))))))).)...))))............))))..))))...... (-48.76 = -48.40 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:11 2006