Locus 2870

Sequence ID	X_DroMel_CAF1
Location	7,679,498 – 7,679,636
Length	138
Max. P	0.986361

overview

Window 6

Location	7,679,498 – 7,679,596
Length	98
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	90.09
Mean single sequence MFE	-18.73
Consensus MFE	-17.88
Energy contribution	-17.88
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.95
SVM decision value	2.04
SVM RNA-class probability	0.986361
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7679498 98 + 22224390
-GAAGAAAAAAAAAUAGAAAAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACU
-.............(((................((((((((((....)))))...)))))..((((((((.......))).)))))))).......... ( -18.30)
>DroGri_CAF1 190673 93 + 1
-GCAGA-----AAAAAAAAAAAAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACU
-.(((.-----......................((((((((((....)))))...)))))..((((((((.......))).)))))))).......... ( -20.10)
>DroSec_CAF1 93591 93 + 1
-GA-----AAAAAAUAGAAAAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACU
-..-----......(((................((((((((((....)))))...)))))..((((((((.......))).)))))))).......... ( -18.30)
>DroEre_CAF1 92546 99 + 1
AAAAAAAAAAGAAGGGGAAAAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACU
.......................((........((((((((((....)))))...)))))..((((((((.......))).)))))....))....... ( -17.90)
>DroWil_CAF1 117147 96 + 1
-AGAGA--AGAAGUAAAAAAAUUGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACU
-.....--.............(((((.......((((((((((....)))))...)))))..((((((((.......))).))))).....)))))... ( -19.90)
>DroYak_CAF1 94586 99 + 1
AAAAAAAAAUGGAAAAGAAAAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACU
.......................((........((((((((((....)))))...)))))..((((((((.......))).)))))....))....... ( -17.90)
>consensus
_AAAGA__AAAAAAAAGAAAAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACU
.......................((........((((((((((....)))))...)))))..((((((((.......))).)))))....))....... (-17.88 = -17.88 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	7,679,498 – 7,679,596
Length	98
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	90.09
Mean single sequence MFE	-15.00
Consensus MFE	-14.90
Energy contribution	-14.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.00
Structure conservation index	0.99
SVM decision value	0.59
SVM RNA-class probability	0.791429
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7679498 98 - 22224390
AGUUUACACUCAGUUGCCACAUUUCGUUUAUGGGCAAGUUCUGCUUCCGCUUUAUCAAGCGACAGACAAUUUUCGCUAUUUUCUAUUUUUUUUUCUUC-
.((((.....((((((((.(((.......))))))))...)))....(((((....)))))..))))...............................- ( -14.90)
>DroGri_CAF1 190673 93 - 1
AGUUUACACUCAGUUGCCACAUUUCGUUUAUGGGCAAGUUCUGCUUCCGCUUUAUCAAGCGACAGACAAUUUUCGCUUUUUUUUUUUU-----UCUGC-
..........((((((((.(((.......))))))))((.(((....(((((....))))).))))).....................-----.))).- ( -15.50)
>DroSec_CAF1 93591 93 - 1
AGUUUACACUCAGUUGCCACAUUUCGUUUAUGGGCAAGUUCUGCUUCCGCUUUAUCAAGCGACAGACAAUUUUCGCUAUUUUCUAUUUUUU-----UC-
.((((.....((((((((.(((.......))))))))...)))....(((((....)))))..))))........................-----..- ( -14.90)
>DroEre_CAF1 92546 99 - 1
AGUUUACACUCAGUUGCCACAUUUCGUUUAUGGGCAAGUUCUGCUUCCGCUUUAUCAAGCGACAGACAAUUUUCGCUAUUUUCCCCUUCUUUUUUUUUU
.((((.....((((((((.(((.......))))))))...)))....(((((....)))))..))))................................ ( -14.90)
>DroWil_CAF1 117147 96 - 1
AGUUUACACUCAGUUGCCACAUUUCGUUUAUGGGCAAGUUCUGCUUCCGCUUUAUCAAGCGACAGACAAUUUUCGCAAUUUUUUUACUUCU--UCUCU-
.((((.....((((((((.(((.......))))))))...)))....(((((....)))))..))))........................--.....- ( -14.90)
>DroYak_CAF1 94586 99 - 1
AGUUUACACUCAGUUGCCACAUUUCGUUUAUGGGCAAGUUCUGCUUCCGCUUUAUCAAGCGACAGACAAUUUUCGCUAUUUUCUUUUCCAUUUUUUUUU
.((((.....((((((((.(((.......))))))))...)))....(((((....)))))..))))................................ ( -14.90)
>consensus
AGUUUACACUCAGUUGCCACAUUUCGUUUAUGGGCAAGUUCUGCUUCCGCUUUAUCAAGCGACAGACAAUUUUCGCUAUUUUCUUUUUUUU__UCUUC_
.((((.....((((((((.(((.......))))))))...)))....(((((....)))))..))))................................ (-14.90 = -14.90 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	7,679,516 – 7,679,636
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	94.00
Mean single sequence MFE	-36.28
Consensus MFE	-31.98
Energy contribution	-33.23
Covariance contribution	1.25
Combinations/Pair	1.08
Mean z-score	-1.62
Structure conservation index	0.88
SVM decision value	0.83
SVM RNA-class probability	0.862616
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7679516 120 + 22224390
AAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACUUUAUUGGCGCCAGACUGCCUGGCGACAUCGCUGUUGUCAU
((((((((......((((((((((....)))))...)))))..((((((((.......))).)))))..((((....))))...((.((((((.....)))))).))))))))))..... ( -39.00)
>DroVir_CAF1 182606 118 + 1
AAUAGCGAAAAUUGUCUGUCGCUUGAUAAAACGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACUUUAUUGGCGCCCGACCGACUGGCGACAACGUUU--GCCAG
....(((((...(((.(((((((........(((..((.....((((((((.......))).)))))..((((....)))).....))..))).......)))))))))))))--))... ( -29.46)
>DroGri_CAF1 190686 120 + 1
AAAAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACUUUAUUGGCGCCCGACCGACUGGCGACGUCGCUGUCGCUGU
...(((((.....(((.(((((((....))))((..((.....((((((((.......))).)))))..((((....)))).....))..))))).))).((((....)))).))))).. ( -36.50)
>DroEre_CAF1 92565 120 + 1
AAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACUUUAUUGGCGCCAGACUGCCUGGCGACAUCGCUGUUGUCGU
((((((((......((((((((((....)))))...)))))..((((((((.......))).)))))..((((....))))...((.((((((.....)))))).))))))))))..... ( -39.00)
>DroWil_CAF1 117163 120 + 1
AAUUGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACUUUAUUGGCGCCAGACUGGCUGGCGACAUUGCUGUUGUCGU
....((((...(((.((..(((((....)))))..)))))...))))......((((...(..((((..((((....))))...((.((((((.....)))))).))))))..)..)))) ( -34.70)
>DroYak_CAF1 94605 120 + 1
AAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACUUUAUUGGCGCCAGACUGCCUGGCGACAUCGCUGUUGUCAU
((((((((......((((((((((....)))))...)))))..((((((((.......))).)))))..((((....))))...((.((((((.....)))))).))))))))))..... ( -39.00)
>consensus
AAUAGCGAAAAUUGUCUGUCGCUUGAUAAAGCGGAAGCAGAACUUGCCCAUAAACGAAAUGUGGCAACUGAGUGUAAACUUUAUUGGCGCCAGACUGCCUGGCGACAUCGCUGUUGUCAU
((((((((......((((((((((....)))))...)))))..((((((((.......))).)))))..((((....))))...((.((((((.....)))))).))))))))))..... (-31.98 = -33.23 +   1.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:31 2006