Locus 8270

Sequence ID	3R_DroMel_CAF1
Location	22,133,159 – 22,133,249
Length	90
Max. P	0.947903

overview

Window 5

Location	22,133,159 – 22,133,249
Length	90
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	75.39
Mean single sequence MFE	-31.53
Consensus MFE	-17.08
Energy contribution	-16.83
Covariance contribution	-0.25
Combinations/Pair	1.13
Mean z-score	-2.14
Structure conservation index	0.54
SVM decision value	1.38
SVM RNA-class probability	0.947903
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22133159 90 + 27905053
-AAUGCAUGAAGCAAAACAAAAACUGGGCUUCAUGAAUUAAAGAUGACUUUGCCACGCGUAGUG-------------------CCAUGAAAGGGGGCGUGGCAUUCGGCA
-....((((((((....((.....)).)))))))).......(.(((...((((((((.(....-------------------((......))).)))))))).))).). ( -27.70)
>DroPse_CAF1 89392 104 + 1
GAAUGCAUGCGGCAA-----AAACUU-GCCUCAUGAAUUAAAGAUGACUUUGCCACGCGUUUGGCUGCUCCGCAGCUGCCAAGCCGUGACAGUGGGCGUGGCCGGCAACA
.(((.((((.(((((-----....))-))).)))).)))............((((((((((((((.(((....))).)))))))((......)).))))))).(....). ( -38.90)
>DroSec_CAF1 63536 90 + 1
-AAUGCAUGAAGCAAAACAAAAACUGGGCUUCAUGAAUUAAAGAUGACUUUGCCACGCGUAGUG-------------------CCAUGAAAGGGGGCGUGGCAUUCGGCA
-....((((((((....((.....)).)))))))).......(.(((...((((((((.(....-------------------((......))).)))))))).))).). ( -27.70)
>DroSim_CAF1 56491 90 + 1
-AAUGCAUGAAGCAAAACAAAAACUGGGCUUCAUGAAUUAAAGAUGACUUUGCCACGCGUAGUG-------------------CCAUGAAAGGGGGCGUGGCAUUCGGCA
-....((((((((....((.....)).)))))))).......(.(((...((((((((.(....-------------------((......))).)))))))).))).). ( -27.70)
>DroAna_CAF1 103882 98 + 1
-AAUGCAUGCACGAGACAAAAAACUUGGCUUUAUGAAUUAAAGAUGACUUCGCCACGCGUUCUG-----------CUGCCAAGCCCUGACAGGGGGCGUGGCAUCCAGCA
-..(((..((.((((........))))))......................(((((((.(((((-----------(.((...))...).))))).))))))).....))) ( -28.30)
>DroPer_CAF1 90066 104 + 1
GAAUGCAUGCGGCAA-----AAACUU-GCCUCAUGAAUUAAAGAUGACUUUGCCACGCGUUUGGCUGCUCCGCAGCUGCCAAGCCGUGACAGUGGGCGUGGCCGGCAACA
.(((.((((.(((((-----....))-))).)))).)))............((((((((((((((.(((....))).)))))))((......)).))))))).(....). ( -38.90)
>consensus
_AAUGCAUGAAGCAAAACAAAAACUGGGCUUCAUGAAUUAAAGAUGACUUUGCCACGCGUAGUG___________________CCAUGAAAGGGGGCGUGGCAUUCAGCA
.....((((.(((..............))).))))................(((((((.(.................................).)))))))........ (-17.08 = -16.83 +  -0.25)

alignment

secondary structure

dotplot

Window 6

Location	22,133,159 – 22,133,249
Length	90
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	75.39
Mean single sequence MFE	-29.34
Consensus MFE	-15.45
Energy contribution	-15.37
Covariance contribution	-0.08
Combinations/Pair	1.09
Mean z-score	-1.94
Structure conservation index	0.53
SVM decision value	0.82
SVM RNA-class probability	0.859176
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22133159 90 - 27905053
UGCCGAAUGCCACGCCCCCUUUCAUGG-------------------CACUACGCGUGGCAAAGUCAUCUUUAAUUCAUGAAGCCCAGUUUUUGUUUUGCUUCAUGCAUU-
(((.(((((((((((..((......))-------------------......)))))))((((....)))).))))(((((((..............))))))))))..- ( -24.94)
>DroPse_CAF1 89392 104 - 1
UGUUGCCGGCCACGCCCACUGUCACGGCUUGGCAGCUGCGGAGCAGCCAAACGCGUGGCAAAGUCAUCUUUAAUUCAUGAGGC-AAGUUU-----UUGCCGCAUGCAUUC
(((..(((((((.(((.........))).)))).(((((...)))))....)).)..)))...........(((.((((.(((-((....-----))))).)))).))). ( -34.80)
>DroSec_CAF1 63536 90 - 1
UGCCGAAUGCCACGCCCCCUUUCAUGG-------------------CACUACGCGUGGCAAAGUCAUCUUUAAUUCAUGAAGCCCAGUUUUUGUUUUGCUUCAUGCAUU-
(((.(((((((((((..((......))-------------------......)))))))((((....)))).))))(((((((..............))))))))))..- ( -24.94)
>DroSim_CAF1 56491 90 - 1
UGCCGAAUGCCACGCCCCCUUUCAUGG-------------------CACUACGCGUGGCAAAGUCAUCUUUAAUUCAUGAAGCCCAGUUUUUGUUUUGCUUCAUGCAUU-
(((.(((((((((((..((......))-------------------......)))))))((((....)))).))))(((((((..............))))))))))..- ( -24.94)
>DroAna_CAF1 103882 98 - 1
UGCUGGAUGCCACGCCCCCUGUCAGGGCUUGGCAG-----------CAGAACGCGUGGCGAAGUCAUCUUUAAUUCAUAAAGCCAAGUUUUUUGUCUCGUGCAUGCAUU-
.......(((((.((((.......)))).)))))(-----------((...((((.(((((((....(((((.....))))).......))))))).))))..)))...- ( -31.60)
>DroPer_CAF1 90066 104 - 1
UGUUGCCGGCCACGCCCACUGUCACGGCUUGGCAGCUGCGGAGCAGCCAAACGCGUGGCAAAGUCAUCUUUAAUUCAUGAGGC-AAGUUU-----UUGCCGCAUGCAUUC
(((..(((((((.(((.........))).)))).(((((...)))))....)).)..)))...........(((.((((.(((-((....-----))))).)))).))). ( -34.80)
>consensus
UGCCGAAUGCCACGCCCCCUGUCAUGG___________________CACAACGCGUGGCAAAGUCAUCUUUAAUUCAUGAAGCCAAGUUUUUGUUUUGCUGCAUGCAUU_
........(((((((((........)).........................)))))))((((....))))(((.((((.(((..............))).)))).))). (-15.45 = -15.37 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:23 2006