Locus 3117

Sequence ID	3L_DroMel_CAF1
Location	9,046,108 – 9,046,208
Length	100
Max. P	0.993693

overview

Window 8

Location	9,046,108 – 9,046,208
Length	100
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	94.42
Mean single sequence MFE	-25.11
Consensus MFE	-20.32
Energy contribution	-21.12
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.78
Structure conservation index	0.81
SVM decision value	0.77
SVM RNA-class probability	0.847077
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9046108 100 + 23771897
UGGCAGG-GGAAUUCCUCUUAUCGUGGACUUUCCCCUUUUUUCAACACUAAUAUAAACAAACGGACCUAGGUGCUUGCCCCCACACAUUGAAAGCUUGCCA
.((((((-((((.(((.(.....).)))..))))))..(((((((.................(.((....)).).((......))..)))))))..)))). ( -23.70)
>DroSec_CAF1 24514 99 + 1
UGGCAGGGGGAAUUCCUCUUAUCGUGGCCGUUCCCCUU-UUUCAACACUAAUAUAAACAAACAGACCUAGGUGCUUGCC-ACACACAUUGAAAGCUUGCCA
.((((((((((((.((.(.....).))..))))))))(-((((((............(.....).....(((....)))-.......)))))))..)))). ( -23.40)
>DroSim_CAF1 24993 100 + 1
UGGCAGGGGGAAUUCCUCUUAUCGUGGACUUUCCCCUUUUUUCAACACUAAUAUAAACAAACAGACCUAGGUGCUUGCC-CCACACAUUGAAAGCUUGCCA
.(((((((((((.(((.(.....).))).)))))))..(((((((..(((.................)))(((......-.)))...)))))))..)))). ( -24.63)
>DroEre_CAF1 24682 100 + 1
UGGCAGGGGGAAUUCCUCUUAUCGUGGACUUUCCCCUUUUUUCAACACUAAUAUAAACAAACGAACCGAGCUGUUUGCC-ACACACAUUGAAAGCUUGCCA
.(((((((((((.(((.(.....).))).)))))))..(((((((............((((((........))))))..-.......)))))))..)))). ( -26.40)
>DroYak_CAF1 24892 100 + 1
UGGCAGGGGGAAUUCCUCUUAUCGUGGACUUUCCCCUUUUUUCAACACUAAUAUAAACAAACGGGCCGAGGUGUUUGCC-CCACACAUUGAAAGCUUGCCA
.(((((((((((.(((.(.....).))).)))))))..........................((((.((....)).)))-)...............)))). ( -27.40)
>consensus
UGGCAGGGGGAAUUCCUCUUAUCGUGGACUUUCCCCUUUUUUCAACACUAAUAUAAACAAACGGACCUAGGUGCUUGCC_CCACACAUUGAAAGCUUGCCA
.(((((((((((.(((.(.....).))).)))))))...((((((................(.......)(((........)))...))))))...)))). (-20.32 = -21.12 +   0.80)

alignment

secondary structure

dotplot

Window 9

Location	9,046,108 – 9,046,208
Length	100
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	94.42
Mean single sequence MFE	-31.54
Consensus MFE	-27.18
Energy contribution	-27.34
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-2.14
Structure conservation index	0.86
SVM decision value	2.42
SVM RNA-class probability	0.993693
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9046108 100 - 23771897
UGGCAAGCUUUCAAUGUGUGGGGGCAAGCACCUAGGUCCGUUUGUUUAUAUUAGUGUUGAAAAAAGGGGAAAGUCCACGAUAAGAGGAAUUCC-CCUGCCA
.(((....((((((..((((..(((((((((....))..)))))))..)))..)..))))))..(((((((..(((.(.....).))).))))-)))))). ( -33.20)
>DroSec_CAF1 24514 99 - 1
UGGCAAGCUUUCAAUGUGUGU-GGCAAGCACCUAGGUCUGUUUGUUUAUAUUAGUGUUGAAA-AAGGGGAACGGCCACGAUAAGAGGAAUUCCCCCUGCCA
.((((...((((((..(((((-((((((((........)))))).))))))..)..))))))-..((((((...((.(.....).))..)))))).)))). ( -30.80)
>DroSim_CAF1 24993 100 - 1
UGGCAAGCUUUCAAUGUGUGG-GGCAAGCACCUAGGUCUGUUUGUUUAUAUUAGUGUUGAAAAAAGGGGAAAGUCCACGAUAAGAGGAAUUCCCCCUGCCA
.((((...((((((..(...(-((((((((........)))))))))......)..))))))...((((((..(((.(.....).))).)))))).)))). ( -32.20)
>DroEre_CAF1 24682 100 - 1
UGGCAAGCUUUCAAUGUGUGU-GGCAAACAGCUCGGUUCGUUUGUUUAUAUUAGUGUUGAAAAAAGGGGAAAGUCCACGAUAAGAGGAAUUCCCCCUGCCA
.((((...((((((..(((((-((((((((((...))).))))).))))))..)..))))))...((((((..(((.(.....).))).)))))).)))). ( -31.00)
>DroYak_CAF1 24892 100 - 1
UGGCAAGCUUUCAAUGUGUGG-GGCAAACACCUCGGCCCGUUUGUUUAUAUUAGUGUUGAAAAAAGGGGAAAGUCCACGAUAAGAGGAAUUCCCCCUGCCA
.((((...((((((..(...(-(((((((..........))))))))......)..))))))...((((((..(((.(.....).))).)))))).)))). ( -30.50)
>consensus
UGGCAAGCUUUCAAUGUGUGG_GGCAAGCACCUAGGUCCGUUUGUUUAUAUUAGUGUUGAAAAAAGGGGAAAGUCCACGAUAAGAGGAAUUCCCCCUGCCA
.((((...((((((..(.....(((((((..........))))))).......)..))))))...((((((..(((.(.....).))).)))))).)))). (-27.18 = -27.34 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:56 2006