Locus 4345

Sequence ID 3L_DroMel_CAF1
Location 12,762,186 – 12,762,336
Length 150
Max. P 0.925142
window6724 window6725 window6726

overview

Window 4

Location 12,762,186 – 12,762,298
Length 112
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 86.59
Mean single sequence MFE -23.56
Consensus MFE -19.91
Energy contribution -20.52
Covariance contribution 0.61
Combinations/Pair 1.04
Mean z-score -1.91
Structure conservation index 0.84
SVM decision value 0.49
SVM RNA-class probability 0.758341
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12762186 112 - 23771897
ACCAAAGGAAUUGUGCAUCGUGAUCUCAAGCCACAAAACAUUUUGCUAUCGCACAAUUAUGGCAAAACAUUGCCAGCUCCAUCGAAAAUAACCCUGAAAAUUGGUAAGUUUU-------
((((((((((((((((....((....))(((.............)))...)))))))).((((((....)))))).................))).....))))).......------- ( -22.82)
>DroVir_CAF1 21980 118 - 1
ACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUGUUGUCGCACAAUUAUGGCAAGACUCUGCCAGCACCAUCCAAAAUAACGCUGAAAAUUGGUAAGCAUA-UAGGAA
.((...((((((((((...(((.........)))...(((......))).)))))))).(((((......)))))...))............(((...........)))...-..)).. ( -25.30)
>DroGri_CAF1 15104 117 - 1
ACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUACUGUCGCACAACUAUGGCAAAACUUUGCCAGCACCAUCGAAAAUAACGCUGAAAAUUGGUAAGCAAA-UCC-AA
......(((.((((((...(((.........)))...(((......))).))))))...((((((....))))))((((((....................))))..))...-)))-.. ( -22.65)
>DroWil_CAF1 3389 118 - 1
ACCAAAGGAAUUGUGCAUCGUGAUCUCAAGCCACAAAAUAUAUUGCUAUCGCACAAUUAUGGCAAAACUUUGCCAGCACCAUCGAAAAUAACAUUGAAAAUUGGUAAGUCAAGUCG-CC
(((((.((((((((((....((....))(((.............)))...)))))))).((((((....))))))...)).((((........))))...)))))...........-.. ( -24.22)
>DroMoj_CAF1 13872 108 - 1
ACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUGUUAUCGCACAACUAUGGCAAGACCUUGCCAGCACCAUCCAAAAUUACAUUGAAAAUUGGUAAG-----------
(((((.(((...((((...(((((..((...............))..))))).......((((((....))))))))))..)))..........(....))))))...----------- ( -24.16)
>DroAna_CAF1 2678 117 - 1
ACCAAAGGAAUUGUGCAUCGUGAUCUCAAGCCACAAAAUAUUUUGCUAUCGCACAAUUAUGGCAAAACCUUGCCAGCUCCAUCGAAAAUAACUCUGAAAAUUGGUAAGUAAA-UCA-UC
(((((.((((((((((....((....))(((.............)))...)))))))..((((((....))))))..))).((((.......)).))...))))).......-...-.. ( -22.22)
>consensus
ACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUGCUAUCGCACAAUUAUGGCAAAACUUUGCCAGCACCAUCGAAAAUAACACUGAAAAUUGGUAAGUAAA_UC____
(((((...((((((((...(((.........)))...(((......))).)))))))).((((((....)))))).........................))))).............. (-19.91 = -20.52 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 12,762,218 – 12,762,336
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.26
Mean single sequence MFE -34.83
Consensus MFE -31.44
Energy contribution -30.83
Covariance contribution -0.61
Combinations/Pair 1.15
Mean z-score -1.89
Structure conservation index 0.90
SVM decision value 1.17
SVM RNA-class probability 0.925142
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12762218 118 + 23771897
GGAGCUGGCAAUGUUUUGCCAUAAUUGUGCGAUAGCAAAAUGUUUUGUGGCUUGAGAUCACGAUGCACAAUUCCUUUGGUAUAAAGUGCUUUCAUAGCACCAGCUAGAAUU-G-GGGAAA
..((((((...((((..(((((((...(((....))).......))))))).(((((.(((.((((.(((.....)))))))...))).))))).))))))))))......-.-...... ( -32.90)
>DroVir_CAF1 22018 118 + 1
GGUGCUGGCAGAGUCUUGCCAUAAUUGUGCGACAACAGAAUGUUUUGUGGUUUGAGAUCACGAUGCACAAUUCCUUUGGUAUAAAGUGCUUUCAUGGCACCAGCUGCGAAUCG-AGG-AA
(((((((..((((((((((((.((((((((((((......))))((((((((...)))))))).))))))))....)))))...)).)))))..)))))))............-...-.. ( -34.50)
>DroGri_CAF1 15141 118 + 1
GGUGCUGGCAAAGUUUUGCCAUAGUUGUGCGACAGUAGAAUGUUUUGUGGUUUGAGAUCACGAUGCACAAUUCCUUUGGUAUAAAGUGCUUUCAUGGCACCAGCUACGAAA-GUAAC-GA
((((((((((...((.(((((.((((((((((((......))))((((((((...)))))))).))))))))....))))).))..)))).....)))))).(.(((....-))).)-.. ( -40.40)
>DroSec_CAF1 4131 118 + 1
GGAGCUGGCAAUGUUUUGCCAUAAUUGUGCGAUAGCAAAAUGUUUUGUGGCUUGAGAUCACGAUGCACAAUUCCUUUGGUAUAAAGUGCCUUCAUAGCACCAGCUAGAUUU-A-UAAAAA
..((((((...((((..(((((((...(((....))).......))))))).((((..(((.((((.(((.....)))))))...)))..)))).))))))))))......-.-...... ( -30.90)
>DroWil_CAF1 3427 116 + 1
GGUGCUGGCAAAGUUUUGCCAUAAUUGUGCGAUAGCAAUAUAUUUUGUGGCUUGAGAUCACGAUGCACAAUUCCUUUGGUAUAAAGUGCUUUCAUGGCACCAGCUGGAAAC-A-AUU--U
((((((((((...((.(((((.((((((((((((....)))...(((((((....).)))))))))))))))....))))).))..)))).....))))))...((....)-)-...--. ( -36.20)
>DroMoj_CAF1 13900 117 + 1
GGUGCUGGCAAGGUCUUGCCAUAGUUGUGCGAUAACAGAAUGUUUUGUGGUUUGAGAUCACGAUGCACAAUUCCUUUGGUAUAAAGUGCUUUCAUGGCACCAGCUGGGUAU-G-AAC-AA
((((((((((...(..(((((.(((((((((..(((.....)))((((((((...)))))))))))))))))....)))))..)..)))).....))))))..........-.-...-.. ( -34.10)
>consensus
GGUGCUGGCAAAGUUUUGCCAUAAUUGUGCGAUAGCAAAAUGUUUUGUGGCUUGAGAUCACGAUGCACAAUUCCUUUGGUAUAAAGUGCUUUCAUGGCACCAGCUAGAAAU_G_AAC_AA
((((((((((......(((((.((((((((((((......))))((((((.......)))))).))))))))....))))).....)))).....))))))................... (-31.44 = -30.83 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 12,762,218 – 12,762,336
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 87.26
Mean single sequence MFE -27.25
Consensus MFE -24.75
Energy contribution -24.81
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -1.84
Structure conservation index 0.91
SVM decision value 1.15
SVM RNA-class probability 0.923090
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12762218 118 - 23771897
UUUCCC-C-AAUUCUAGCUGGUGCUAUGAAAGCACUUUAUACCAAAGGAAUUGUGCAUCGUGAUCUCAAGCCACAAAACAUUUUGCUAUCGCACAAUUAUGGCAAAACAUUGCCAGCUCC
......-.-......((((((((((((((..((((...((.((...)).)).))))...(((((..((((...........))))..)))))....)))))))........))))))).. ( -26.20)
>DroVir_CAF1 22018 118 - 1
UU-CCU-CGAUUCGCAGCUGGUGCCAUGAAAGCACUUUAUACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUGUUGUCGCACAAUUAUGGCAAGACUCUGCCAGCACC
..-...-.........(((((((((((((.....((((.....))))...((((((...(((.........)))...(((......))).)))))))))))))........))))))... ( -28.50)
>DroGri_CAF1 15141 118 - 1
UC-GUUAC-UUUCGUAGCUGGUGCCAUGAAAGCACUUUAUACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUACUGUCGCACAACUAUGGCAAAACUUUGCCAGCACC
..-....(-(((.(((...(((((.......)))))...))).))))...((((((...(((.........)))...(((......))).))))))...((((((....))))))..... ( -27.40)
>DroSec_CAF1 4131 118 - 1
UUUUUA-U-AAAUCUAGCUGGUGCUAUGAAGGCACUUUAUACCAAAGGAAUUGUGCAUCGUGAUCUCAAGCCACAAAACAUUUUGCUAUCGCACAAUUAUGGCAAAACAUUGCCAGCUCC
......-.-......((((((((((((((..((((...((.((...)).)).))))...(((((..((((...........))))..)))))....)))))))........))))))).. ( -26.00)
>DroWil_CAF1 3427 116 - 1
A--AAU-U-GUUUCCAGCUGGUGCCAUGAAAGCACUUUAUACCAAAGGAAUUGUGCAUCGUGAUCUCAAGCCACAAAAUAUAUUGCUAUCGCACAAUUAUGGCAAAACUUUGCCAGCACC
.--...-.-.......(((((((((((((..((((...((.((...)).)).))))...(((((..(((.............)))..)))))....)))))))........))))))... ( -28.62)
>DroMoj_CAF1 13900 117 - 1
UU-GUU-C-AUACCCAGCUGGUGCCAUGAAAGCACUUUAUACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUGUUAUCGCACAACUAUGGCAAGACCUUGCCAGCACC
..-...-.-.......((((((((((((......((((.....))))...((((((...(((.........)))..(((.....)))...)))))).))))))........))))))... ( -26.80)
>consensus
UU_CUU_C_AUUCCCAGCUGGUGCCAUGAAAGCACUUUAUACCAAAGGAAUUGUGCAUCGUGAUCUCAAACCACAAAACAUUCUGCUAUCGCACAAUUAUGGCAAAACUUUGCCAGCACC
................(((((((((((((..((((...((.((...)).)).))))...(((((..((...............))..)))))....)))))))........))))))... (-24.75 = -24.81 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:10 2006