Locus 7631

Sequence ID	2L_DroMel_CAF1
Location	21,202,607 – 21,202,724
Length	117
Max. P	0.892714

overview

Window 3

Location	21,202,607 – 21,202,724
Length	117
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	89.32
Mean single sequence MFE	-32.60
Consensus MFE	-28.69
Energy contribution	-28.58
Covariance contribution	-0.11
Combinations/Pair	1.07
Mean z-score	-1.87
Structure conservation index	0.88
SVM decision value	0.97
SVM RNA-class probability	0.892714
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21202607 117 + 22407834
AC-CGUCAUAUUAAUUAUUUAAUU-AGCCCUCUCGGGCUUCCAAAAAUUGCCGUAGUGGACGGUAUUUCACGUCCCCAUGGCGGGG-UAUUGGUUAAAGUUUUCAACUAGCAAUAACCGC
((-(....................-(((((....)))))........(((((((.(.(((((........)))))).)))))))))-)...(((((..(((.......)))..))))).. ( -33.40)
>DroSim_CAF1 16969 118 + 1
AC-CGCCAUAUUAAUUAUUUAAUU-AGCCCUCUCGGGCUUCCAAAAAUUGCCGUAGUGGACGGUAUUUCACGUCCCCAUGGCGGGGCUAUUGGUUUAAGUUUUCAACUAGCAAUAAACGC
.(-((((((...............-(((((....)))))................(.(((((........))))).)))))))).((((((((.........)))).))))......... ( -34.50)
>DroWil_CAF1 13311 118 + 1
UU-UGUCAAAUUUAUUAUAUAUUUAAGCCCUCUCGGGCUUCCAAAAAUUGCCUUAGCGGACGGUAUUUCACGUCCCCUGGGCGGGG-UAUUGGUUAAAGUUUUCAACUAGCAAUAUUCGC
..-.....................((((((....))))))........(((((.((.(((((........))))).)))))))(((-(((((.(...(((.....)))).)))))))).. ( -31.50)
>DroYak_CAF1 16212 117 + 1
UC-UUUUAAAUAAAUUGUUUAAUU-AGCCCUCUCGGGCUUCCAAAAAUUGCCGUAGUGGACGGUAUUUCACGUCCCCAUGGCGGGG-UAUUGGUUAAAGUUUUCAACUAGCAAUAACCGC
..-..........((((((.....-(((((....))))).((((...(((((((.(.(((((........)))))).)))))))..-..))))...............))))))...... ( -31.50)
>DroMoj_CAF1 14958 118 + 1
CUCCUUUUCAUUUAUUAAAUUAUG-AGCCCUCUCGGGCUUCCAAAAAUUGCCGUAGUGGACGGUAUUUCACGUCCCCAUGGCGGGG-UAUUGGUUAAAGUUUUCAACUAGCAAUAAUCGC
((((...................(-(((((....)))))).........(((((.(.(((((........)))))).)))))))))-....(((((..(((.......)))..))))).. ( -32.90)
>DroPer_CAF1 9220 117 + 1
GU-UUUCAUAUGUAUUGGAUAAUU-AGCCCUCUCGGGCUUGCAAAAAUUGCCGUAGUGGACGGUAUUUCACGUCCCCAUGGCGGGG-UAUUGGUUAAAGUUUUCAACUAGCAAUAACCGC
..-.((((.......)))).....-(((((....))))).((.....(((((((.(.(((((........)))))).)))))))..-....(((((..(((.......)))..))))))) ( -31.80)
>consensus
AC_CGUCAUAUUAAUUAUAUAAUU_AGCCCUCUCGGGCUUCCAAAAAUUGCCGUAGUGGACGGUAUUUCACGUCCCCAUGGCGGGG_UAUUGGUUAAAGUUUUCAACUAGCAAUAACCGC
.........................(((((....)))))........(((((((.(.(((((........)))))).)))))))((.(((((.(...(((.....)))).))))).)).. (-28.69 = -28.58 +  -0.11)

alignment

secondary structure

dotplot

Window 4

Location	21,202,607 – 21,202,724
Length	117
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	89.32
Mean single sequence MFE	-34.85
Consensus MFE	-28.27
Energy contribution	-28.38
Covariance contribution	0.11
Combinations/Pair	1.04
Mean z-score	-2.66
Structure conservation index	0.81
SVM decision value	0.81
SVM RNA-class probability	0.857462
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21202607 117 - 22407834
GCGGUUAUUGCUAGUUGAAAACUUUAACCAAUA-CCCCGCCAUGGGGACGUGAAAUACCGUCCACUACGGCAAUUUUUGGAAGCCCGAGAGGGCU-AAUUAAAUAAUUAAUAUGACG-GU
((.(((((...((((((..........((((..-....(((.((((((((........))))).))).))).....)))).(((((....)))))-.......))))))..))))).-)) ( -37.10)
>DroSim_CAF1 16969 118 - 1
GCGUUUAUUGCUAGUUGAAAACUUAAACCAAUAGCCCCGCCAUGGGGACGUGAAAUACCGUCCACUACGGCAAUUUUUGGAAGCCCGAGAGGGCU-AAUUAAAUAAUUAAUAUGGCG-GU
......((((((((((((.........((((.......(((.((((((((........))))).))).))).....)))).(((((....)))))-..........))))).)))))-)) ( -36.20)
>DroWil_CAF1 13311 118 - 1
GCGAAUAUUGCUAGUUGAAAACUUUAACCAAUA-CCCCGCCCAGGGGACGUGAAAUACCGUCCGCUAAGGCAAUUUUUGGAAGCCCGAGAGGGCUUAAAUAUAUAAUAAAUUUGACA-AA
((((...))))..((..((........((((..-....(((.((.(((((........))))).))..))).....))))((((((....))))))..............))..)).-.. ( -35.10)
>DroYak_CAF1 16212 117 - 1
GCGGUUAUUGCUAGUUGAAAACUUUAACCAAUA-CCCCGCCAUGGGGACGUGAAAUACCGUCCACUACGGCAAUUUUUGGAAGCCCGAGAGGGCU-AAUUAAACAAUUUAUUUAAAA-GA
(.((.(((((...(((((.....))))))))))-.)))(((.((((((((........))))).))).)))..(((((((((((((....)))))-((((....))))..)))))))-). ( -32.90)
>DroMoj_CAF1 14958 118 - 1
GCGAUUAUUGCUAGUUGAAAACUUUAACCAAUA-CCCCGCCAUGGGGACGUGAAAUACCGUCCACUACGGCAAUUUUUGGAAGCCCGAGAGGGCU-CAUAAUUUAAUAAAUGAAAAGGAG
.((((((....))))))....((((..((((..-....(((.((((((((........))))).))).))).....)))).(((((....)))))-.................))))... ( -32.90)
>DroPer_CAF1 9220 117 - 1
GCGGUUAUUGCUAGUUGAAAACUUUAACCAAUA-CCCCGCCAUGGGGACGUGAAAUACCGUCCACUACGGCAAUUUUUGCAAGCCCGAGAGGGCU-AAUUAUCCAAUACAUAUGAAA-AC
((((.(((((...(((((.....))))))))))-.)).(((.((((((((........))))).))).))).......)).(((((....)))))-.....................-.. ( -34.90)
>consensus
GCGGUUAUUGCUAGUUGAAAACUUUAACCAAUA_CCCCGCCAUGGGGACGUGAAAUACCGUCCACUACGGCAAUUUUUGGAAGCCCGAGAGGGCU_AAUUAAAUAAUAAAUAUGAAA_AA
(((.....)))..((((..........((((.......(((.((((((((........))))).))).))).....)))).(((((....)))))........))))............. (-28.27 = -28.38 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:30 2006