Locus 2985

Sequence ID 3R_DroMel_CAF1
Location 7,991,361 – 7,991,462
Length 101
Max. P 0.826834
window4802 window4803

overview

Window 2

Location 7,991,361 – 7,991,462
Length 101
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 80.89
Mean single sequence MFE -25.12
Consensus MFE -14.44
Energy contribution -15.08
Covariance contribution 0.64
Combinations/Pair 1.18
Mean z-score -1.88
Structure conservation index 0.57
SVM decision value 0.07
SVM RNA-class probability 0.567936
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7991361 101 + 27905053
GUUUCAUGGCCAGCUUUUCAUGGUCAGAAGACAACUGAAAACAGAGGAAUGAAAACGAGAAAAACAUG--A-GACAUGGCAAGGC-------UGGAUCUGACCAUGAUUUA
...((((((((((((((((((((((....)))..(((....)))........................--.-..))))).)))))-------)))......)))))).... ( -26.40)
>DroPse_CAF1 69735 87 + 1
UUUUC--------CAUUUCAUGGUCAGCAACCCACUGAAAAA---GAAAAAAAAGAGAGAAUAAGAAGCAAGCAUUUGGGAAGC-------------CUGACCUUGAAUUG
.....--------((.((((.(((((((..((((((.....)---).....................(....)...))))..).-------------)))))).)))).)) ( -19.20)
>DroSec_CAF1 57663 101 + 1
GUUUCAUGGCCAGCUUUUCAUGGUCAGCAGACAACUGAAAACAGAGGAAUUAAAACGAGAAAAAAUUG--A-GACGUGGCAAGGC-------UGGUUCUGACCAUGAUUUA
...((((((((((((((((((((((....)))..(((....)))........................--.-..))))).)))))-------)))......)))))).... ( -26.00)
>DroSim_CAF1 57945 101 + 1
GUUUCAUGGCCAGCUUUUCAUGGUCAGCAGACAACUGAAAACAGAGGAAUGAAAACGAGAAAAACAUG--A-GACGUGGCAAGGC-------UGGUUCUGACCAUGAUUUA
...((((((((((((((((((((((....)))..(((....)))........................--.-..))))).)))))-------)))......)))))).... ( -26.00)
>DroEre_CAF1 60144 101 + 1
GUUUCAUGGCCAGAUUUUCAUGGUCAGCAGACAACUGAAAACAGAGGAAUGAAAACGAGAAAAACAUG--A-GACGUGACAAGCC-------UUGUGCUGACCAUGAUUUA
.................((((((((((((.(...(((....)))(((..((...(((...........--.-..)))..))..))-------)).)))))))))))).... ( -26.64)
>DroYak_CAF1 60466 108 + 1
GUUUCAUGGCCAGAUUUUCAUGGUCAGCAGACAACUGAAAACAGAGGAAUGAAAACGAGAAAAACAUG--A-GACGUGACAAGCCGUUUGCCUGGUUCUGACCAUGAUUUA
...((((((.((((((((((..(((....)))...))))))...(((.....(((((.(.....((((--.-..)))).....)))))).)))...)))).)))))).... ( -26.50)
>consensus
GUUUCAUGGCCAGCUUUUCAUGGUCAGCAGACAACUGAAAACAGAGGAAUGAAAACGAGAAAAACAUG__A_GACGUGGCAAGCC_______UGGUUCUGACCAUGAUUUA
.................((((((((((.......(((....)))....................((((......))))...................)))))))))).... (-14.44 = -15.08 +   0.64)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,991,361 – 7,991,462
Length 101
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 80.89
Mean single sequence MFE -24.39
Consensus MFE -14.76
Energy contribution -16.23
Covariance contribution 1.47
Combinations/Pair 1.14
Mean z-score -2.31
Structure conservation index 0.61
SVM decision value 0.70
SVM RNA-class probability 0.826834
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7991361 101 - 27905053
UAAAUCAUGGUCAGAUCCA-------GCCUUGCCAUGUC-U--CAUGUUUUUCUCGUUUUCAUUCCUCUGUUUUCAGUUGUCUUCUGACCAUGAAAAGCUGGCCAUGAAAC
....((((((((((.....-------.......((((..-.--)))).......................((((((...(((....)))..)))))).))))))))))... ( -23.80)
>DroPse_CAF1 69735 87 - 1
CAAUUCAAGGUCAG-------------GCUUCCCAAAUGCUUGCUUCUUAUUCUCUCUUUUUUUUC---UUUUUCAGUGGGUUGCUGACCAUGAAAUG--------GAAAA
((.((((.((((((-------------.(..((((...............................---........))))..))))))).)))).))--------..... ( -18.13)
>DroSec_CAF1 57663 101 - 1
UAAAUCAUGGUCAGAACCA-------GCCUUGCCACGUC-U--CAAUUUUUUCUCGUUUUAAUUCCUCUGUUUUCAGUUGUCUGCUGACCAUGAAAAGCUGGCCAUGAAAC
....((((((((((...((-------(..(((..(((..-.--...........)))..))).....)))((((((...(((....)))..)))))).))))))))))... ( -22.64)
>DroSim_CAF1 57945 101 - 1
UAAAUCAUGGUCAGAACCA-------GCCUUGCCACGUC-U--CAUGUUUUUCUCGUUUUCAUUCCUCUGUUUUCAGUUGUCUGCUGACCAUGAAAAGCUGGCCAUGAAAC
....(((((((((((....-------((...))....))-.--...(((((((..(((..((..(..(((....)))..)..))..)))...))))))))))))))))... ( -24.50)
>DroEre_CAF1 60144 101 - 1
UAAAUCAUGGUCAGCACAA-------GGCUUGUCACGUC-U--CAUGUUUUUCUCGUUUUCAUUCCUCUGUUUUCAGUUGUCUGCUGACCAUGAAAAUCUGGCCAUGAAAC
....((((((((((....(-------((..((..(((..-.--...........)))...))..)))..(((((((...(((....)))..)))))))))))))))))... ( -26.74)
>DroYak_CAF1 60466 108 - 1
UAAAUCAUGGUCAGAACCAGGCAAACGGCUUGUCACGUC-U--CAUGUUUUUCUCGUUUUCAUUCCUCUGUUUUCAGUUGUCUGCUGACCAUGAAAAUCUGGCCAUGAAAC
....(((((((((((..(((((.....))))).......-.--.....(((((..(((..((..(..(((....)))..)..))..)))...))))))))))))))))... ( -30.50)
>consensus
UAAAUCAUGGUCAGAACCA_______GCCUUGCCACGUC_U__CAUGUUUUUCUCGUUUUCAUUCCUCUGUUUUCAGUUGUCUGCUGACCAUGAAAAGCUGGCCAUGAAAC
....((((((((((....................(((.................))).............((((((...(((....)))..)))))).))))))))))... (-14.76 = -16.23 +   1.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:26 2006