Locus 2447

Sequence ID	2L_DroMel_CAF1
Location	6,698,399 – 6,698,495
Length	96
Max. P	0.990175

overview

Window 6

Location	6,698,399 – 6,698,495
Length	96
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	87.64
Mean single sequence MFE	-30.16
Consensus MFE	-21.76
Energy contribution	-21.88
Covariance contribution	0.12
Combinations/Pair	1.11
Mean z-score	-2.58
Structure conservation index	0.72
SVM decision value	1.20
SVM RNA-class probability	0.929329
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6698399 96 + 22407834
----G--CGUUCGUUGGCGGCGUGGCCACGUAAUUCAUUCAUUACGAUUUGCCGUUUUCGUUGGCUUUGCCUUUGCCGAUUUAUAUAUGCCGCCCCGUACUC
----.--.((.((..(((((((((((..((((((......))))))....)))......((((((.........))))))......)))))))).)).)).. ( -31.50)
>DroSec_CAF1 11403 92 + 1
----G----UUCGUUGGCGGCGUGGCCACGUAAUUCAUUCAUUACGAUUUGCCGUUUUUGUUGGCUUUGCCUUUGCCGAUUUA--UAUGCCGCACCGUACUC
----(----(.((...((((((((((..((((((......))))))....)))......((((((.........))))))...--.)))))))..)).)).. ( -28.80)
>DroEre_CAF1 11568 91 + 1
----G----UUCGUUGGCGGCGUGGCCACGUAAUUCAUUCAUUACGAUUCGCCGUUUUCGUUGGCUUUGCCUUUGC-GAUUUA--UAUGCCGCCCCGUACUC
----(----(.((..(((((((((((..((((((......))))))....)))....((((.(((...)))...))-))....--.)))))))).)).)).. ( -31.50)
>DroYak_CAF1 11663 91 + 1
----G----UUCGUUGGCGGCGUGGCCACGUAAUUCAUUCAUUACGAUUCGCCGUUUUCGUUGGCUUUGCCUUUGC-GAUUUA--UAUGCCGCCCCGUACUC
----(----(.((..(((((((((((..((((((......))))))....)))....((((.(((...)))...))-))....--.)))))))).)).)).. ( -31.50)
>DroAna_CAF1 15799 99 + 1
UCUGGUAGGUCGGUCGUCGGCGUAGCCACGUAAUUCAUUCAUUACGUUUUGGCGUUGCUAUUACCAUUGCCUUUGC-GAUUUA--UAUGCCGCCCCGUACUC
.......((((((..(.(((((((((((((((((......)))))))...)))(((((................))-)))...--)))))))).))).))). ( -27.49)
>consensus
____G____UUCGUUGGCGGCGUGGCCACGUAAUUCAUUCAUUACGAUUUGCCGUUUUCGUUGGCUUUGCCUUUGC_GAUUUA__UAUGCCGCCCCGUACUC
...............(((((((((....((((((......))))))....((((.......))))....................)))))))))........ (-21.76 = -21.88 +   0.12)

alignment

secondary structure

dotplot

Window 7

Location	6,698,399 – 6,698,495
Length	96
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	87.64
Mean single sequence MFE	-28.82
Consensus MFE	-22.44
Energy contribution	-22.92
Covariance contribution	0.48
Combinations/Pair	1.11
Mean z-score	-2.82
Structure conservation index	0.78
SVM decision value	2.20
SVM RNA-class probability	0.990175
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6698399 96 - 22407834
GAGUACGGGGCGGCAUAUAUAAAUCGGCAAAGGCAAAGCCAACGAAAACGGCAAAUCGUAAUGAAUGAAUUACGUGGCCACGCCGCCAACGAACG--C----
..((.((.((((((...........(((.........))).........(((....((((((......))))))..)))..))))))..)).)).--.---- ( -32.10)
>DroSec_CAF1 11403 92 - 1
GAGUACGGUGCGGCAUA--UAAAUCGGCAAAGGCAAAGCCAACAAAAACGGCAAAUCGUAAUGAAUGAAUUACGUGGCCACGCCGCCAACGAA----C----
.....((..(((((...--......(((.........))).........(((....((((((......))))))..)))..)))))...))..----.---- ( -27.90)
>DroEre_CAF1 11568 91 - 1
GAGUACGGGGCGGCAUA--UAAAUC-GCAAAGGCAAAGCCAACGAAAACGGCGAAUCGUAAUGAAUGAAUUACGUGGCCACGCCGCCAACGAA----C----
.....((.((((((...--....((-(....(((...)))..)))....(((.(..((((((......))))))).)))..))))))..))..----.---- ( -29.20)
>DroYak_CAF1 11663 91 - 1
GAGUACGGGGCGGCAUA--UAAAUC-GCAAAGGCAAAGCCAACGAAAACGGCGAAUCGUAAUGAAUGAAUUACGUGGCCACGCCGCCAACGAA----C----
.....((.((((((...--....((-(....(((...)))..)))....(((.(..((((((......))))))).)))..))))))..))..----.---- ( -29.20)
>DroAna_CAF1 15799 99 - 1
GAGUACGGGGCGGCAUA--UAAAUC-GCAAAGGCAAUGGUAAUAGCAACGCCAAAACGUAAUGAAUGAAUUACGUGGCUACGCCGACGACCGACCUACCAGA
.((..(((..((((...--......-((....((....))....))...(((...(((((((......))))))))))...))))....)))..))...... ( -25.70)
>consensus
GAGUACGGGGCGGCAUA__UAAAUC_GCAAAGGCAAAGCCAACGAAAACGGCAAAUCGUAAUGAAUGAAUUACGUGGCCACGCCGCCAACGAA____C____
........((((((.................(((...))).........(((....((((((......))))))..)))..))))))............... (-22.44 = -22.92 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:09 2006