Locus 1631

Sequence ID	2R_DroMel_CAF1
Location	6,126,308 – 6,126,435
Length	127
Max. P	0.819966

overview

Window 0

Location	6,126,308 – 6,126,398
Length	90
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	83.63
Mean single sequence MFE	-25.95
Consensus MFE	-23.16
Energy contribution	-23.38
Covariance contribution	0.22
Combinations/Pair	1.09
Mean z-score	-1.34
Structure conservation index	0.89
SVM decision value	0.08
SVM RNA-class probability	0.573904
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6126308 90 - 20766785
GUUGGCGGAUGCGGCGACGGACUAUACGGGAACUGUUGCUGUAACAUAUGCAACU-UUGCAUAAAUAAAUU-GA-------------UUAUCUCGGUUAGUCAAA-
.(((((...(((((((((((.((....))...)))))))))))...((((((...-.))))))....((((-((-------------.....)))))).))))).- ( -26.10)
>DroVir_CAF1 161721 88 - 1
GUCGGCGGAUGCGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACU-UUGCAUAAAUAAAUU-UG-------------UUAU--CGGUUAGUCAAA-
((((.((....)).)))).(((((..((..((((((((...)))))((((((...-.))))))........-.)-------------))..--))..)))))...- ( -26.70)
>DroPse_CAF1 129030 105 - 1
GUUGGCGGAUGCGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACUGUUGCAUAAAUAAAUCAGAUUGUUUUUAAUUGUUCUAUCGGUUAGUCAAA-
.(((((.(((((((((((((.((....))...))))))))))....((((((.....)))))).....)))..........((((((......))))))))))).- ( -29.80)
>DroGri_CAF1 153111 89 - 1
GUCGGCGGAUGUGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACU-UUGCAUAAAUAAAUU-UG-------------UUAU--UGGUUAGUCAAGC
...(((...((..(((((((.((....))...)))))))..))...((((((...-.))))))........-..-------------....--......))).... ( -23.60)
>DroMoj_CAF1 161469 88 - 1
GUCUGCGCAUGCGGCGACGGACUGUACGGGAACUGAUGCUGCAACAUAUGCAACU-ACGCAUAAAUAAAUU-UG-------------UUAA--CGGUUAGUCAAA-
((((((((.....))).)))))((.((...(((((((((((((.....))))...-..)))).((((....-))-------------))..--))))).))))..- ( -19.70)
>DroPer_CAF1 128872 105 - 1
GUUGGCGGAUGCGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACUGUUGCAUAAAUAAAUCAGAUUGUUUUUAAUUGUUCUAUCGGUUAGUCAAA-
.(((((.(((((((((((((.((....))...))))))))))....((((((.....)))))).....)))..........((((((......))))))))))).- ( -29.80)
>consensus
GUCGGCGGAUGCGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACU_UUGCAUAAAUAAAUU_GA_____________UUAU__CGGUUAGUCAAA_
...(((...(((((((((((.((....))...)))))))))))...((((((.....))))))....................................))).... (-23.16 = -23.38 +   0.22)

alignment

secondary structure

dotplot

Window 1

Location	6,126,326 – 6,126,435
Length	109
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.04
Mean single sequence MFE	-40.80
Consensus MFE	-29.20
Energy contribution	-28.32
Covariance contribution	-0.88
Combinations/Pair	1.31
Mean z-score	-2.18
Structure conservation index	0.72
SVM decision value	0.68
SVM RNA-class probability	0.819966
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6126326 109 - 20766785
CGAGCUGUGGUGCU---GCGGCGUGCUGUGAUGCUGCGGCGUUGGCGGAUGCGGCGACGGACUAUACGGGAACUGUUGCUGUAACAUAUGCAACU-UUG---CAUAAAUAAAUU-GA---
....((((..((((---(((((((......)))))))))))..).))).(((((((((((.((....))...)))))))))))...((((((...-.))---))))........-..--- ( -41.30)
>DroVir_CAF1 161737 109 - 1
CGCGCCAUGGUGCU---GCGGCGUGCCGUGGUGCUGCGGCGUCGGCGGAUGCGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACU-UUG---CAUAAAUAAAUU-UG---
((((((..((..(.---.(((....)))..)..))..)))).)).....(((((((((((.((....))...)))))))))))...((((((...-.))---))))........-..--- ( -48.30)
>DroGri_CAF1 153128 100 - 1
---------AUGCU---GCGGCGUACUAUGAUGCUGUGGCGUCGGCGGAUGUGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACU-UUG---CAUAAAUAAAUU-UG---
---------((((.---.((((((......))))))..)))).......((..(((((((.((....))...)))))))..))...((((((...-.))---))))........-..--- ( -35.40)
>DroWil_CAF1 149385 119 - 1
GCUGCUGUGAUGCUGUUGCGGUGUACUAUGAUGCUGUGGCGUUGGUGGAUGCGGUGACGGACUGUAUGGAAACUGUUGCUGCAACAUAUGCAACU-UUGGGGUGUAAAUAAAGAAAAAAA
(((.(...(.(((.((..((((((......))))))..))....(((..(((((..((((.((....))...))))..))))).)))..))).).-..).)))................. ( -32.00)
>DroMoj_CAF1 161485 109 - 1
CGUGCCAUGAUGCU---GCGGCGUUCCGUGAUGCUGCGGCGUCUGCGCAUGCGGCGACGGACUGUACGGGAACUGAUGCUGCAACAUAUGCAACU-ACG---CAUAAAUAAAUU-UG---
.((((...((((((---((((((((....)))))))))))))).)))).(((((((.(((.((....))...))).)))))))...(((((....-..)---))))........-..--- ( -45.70)
>DroPer_CAF1 128902 112 - 1
CGAGCUGUGAUGCU---GCGGCGUGCUAUGAUGCUGGGGCGUUGGCGGAUGCGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACUGUUG---CAUAAAUAAAUCAGAU--
...(((..((((((---.((((((......)))))).))))))))).(((((((((((((.((....))...))))))))))....((((((.....))---)))).....)))....-- ( -42.10)
>consensus
CGAGCUGUGAUGCU___GCGGCGUGCUAUGAUGCUGCGGCGUCGGCGGAUGCGGCGACGGACUGUACGGGAACUGUUGCUGCAACAUAUGCAACU_UUG___CAUAAAUAAAUU_UA___
........((((((...(((((((......))))))))))))).(((..(((((((((((.((....))...))))))))))).....)))............................. (-29.20 = -28.32 +  -0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:19 2006