Locus 2292

Sequence ID 2R_DroMel_CAF1
Location 8,437,904 – 8,438,064
Length 160
Max. P 0.721214
window3768 window3769 window3770 window3771

overview

Window 8

Location 8,437,904 – 8,438,024
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.89
Mean single sequence MFE -41.65
Consensus MFE -29.20
Energy contribution -29.35
Covariance contribution 0.15
Combinations/Pair 1.43
Mean z-score -2.15
Structure conservation index 0.70
SVM decision value 0.40
SVM RNA-class probability 0.721214
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8437904 120 + 20766785
AGAAGGCGCUGAAGGAUGUGUGCAUCAAUCUGCUGAUGGAGGUCUUGGACCGUGUAAACGAUGUCUUCUUGGAGCGUGCUGUGCGCCUUCUGCAGACAUUGCGCAAGCAAUCCAAUAUCA
(((((((((...((.((((...(((((......)))))....(((.(((((((....)))..))))....))))))).))..)))))))))......(((((....)))))......... ( -40.60)
>DroVir_CAF1 7700 120 + 1
AGAAAGCGUUAAAGGAUGUCUGCCUCAAUCUGCUGAUGGAGGUGCUGGACCGUGUGAAUGAUGUAUACCUGGAGCGUAUCGUUCGCUUCCUGCAGACAUUGCGCAAACUGUCCAGCAUUA
.....(((((....)))))..(((((.(((....))).)))))(((((((.((.((..((((((......((((((.......))))))......))))))..)).)).))))))).... ( -40.30)
>DroGri_CAF1 1147 120 + 1
AGAAAUCGCUUAAGGAUGUAUGCCUCAAUCUGCUGAUGGAGGUGCUGGAUCGUGUGAACGAUGUUUACCUGGAGCGUAUCGUUCGCUUCCUGCAGGCAUUGCGCAAGCAAUCCGUCAUUA
..............(((....(((((.(((....))).)))))((.(((....(((((((((((((.....))))..))))))))).))).)).((.(((((....)))))))))).... ( -40.60)
>DroWil_CAF1 1146 120 + 1
AGAAAUCACUGAAGGAUAUCUGCAUCAAUUUGCUAAUGGAAGUGUUGGACCGUGUGAACGAUGUCUACCUGGAACGCGUCGUGCGUUUCUUGCAGACAUUGCGCAAACAGUCCAACAUUA
(((.(((.(....)))).)))(((......))).......((((((((((.((.((..((((((((.(..(((((((.....)))))))..).))))))))..)).)).)))))))))). ( -42.70)
>DroMoj_CAF1 1094 120 + 1
AAAAAUCGCUCAAGGAUGUCUGUCUCAAUCUAUUGAUGGAGGUGCUUGACCGUGUCAACGACGUCUAUUUGGAACGUGUCGUGCGCUUCUUGCAGACAUUGCGCAAGCAGGCCAACAUCA
.......(((....(((((((((....(((....)))((((((((.(((((((....)))((((((....)).)))))))).)))))))).)))))))))((....)).)))........ ( -38.80)
>DroAna_CAF1 1097 120 + 1
AGAAGUCGCUGAAGGAUGUGUGCAUCAGCCUGUUGAUGGAGGUGUUGGACCGUGUGAACGAUGUCUACCUGGAGCGUGUCGUGCGCUUCCUACAGACAUUGCGCAAACAGUCCAACAUCA
......(((........)))..((((((....))))))..((((((((((.((.((..((((((((....(((((((.....)))))))....))))))))..)).)).)))))))))). ( -46.90)
>consensus
AGAAAUCGCUGAAGGAUGUCUGCAUCAAUCUGCUGAUGGAGGUGCUGGACCGUGUGAACGAUGUCUACCUGGAGCGUGUCGUGCGCUUCCUGCAGACAUUGCGCAAACAGUCCAACAUCA
........................((.(((....))).))((((((((((.((.((..((((((((.(..(((((((.....)))))))..).))))))))..)).)).)))))))))). (-29.20 = -29.35 +   0.15)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,437,904 – 8,438,024
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.89
Mean single sequence MFE -35.48
Consensus MFE -24.08
Energy contribution -24.67
Covariance contribution 0.59
Combinations/Pair 1.38
Mean z-score -1.74
Structure conservation index 0.68
SVM decision value 0.05
SVM RNA-class probability 0.560933
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8437904 120 - 20766785
UGAUAUUGGAUUGCUUGCGCAAUGUCUGCAGAAGGCGCACAGCACGCUCCAAGAAGACAUCGUUUACACGGUCCAAGACCUCCAUCAGCAGAUUGAUGCACACAUCCUUCAGCGCCUUCU
.....(((((.(((((((((..((....))....))))).))))...)))))((((.(...........((((...)))).......((.((..((((....))))..)).))).)))). ( -32.60)
>DroVir_CAF1 7700 120 - 1
UAAUGCUGGACAGUUUGCGCAAUGUCUGCAGGAAGCGAACGAUACGCUCCAGGUAUACAUCAUUCACACGGUCCAGCACCUCCAUCAGCAGAUUGAGGCAGACAUCCUUUAACGCUUUCU
...((((((((.((.((....((((.(((.(((.(((.......))))))..))).))))....)).)).))))))))((((.(((....))).))))...................... ( -34.70)
>DroGri_CAF1 1147 120 - 1
UAAUGACGGAUUGCUUGCGCAAUGCCUGCAGGAAGCGAACGAUACGCUCCAGGUAAACAUCGUUCACACGAUCCAGCACCUCCAUCAGCAGAUUGAGGCAUACAUCCUUAAGCGAUUUCU
.......((((((((((.((..(((((...(((.(((.......)))))))))))...(((((....)))))...)).((((.(((....))).))))..........)))))))))).. ( -31.50)
>DroWil_CAF1 1146 120 - 1
UAAUGUUGGACUGUUUGCGCAAUGUCUGCAAGAAACGCACGACGCGUUCCAGGUAGACAUCGUUCACACGGUCCAACACUUCCAUUAGCAAAUUGAUGCAGAUAUCCUUCAGUGAUUUCU
...(((((((((((.((.((.((((((((..(.(((((.....))))).)..)))))))).)).)).))))))))))).........(((......)))(((.((((....).))).))) ( -42.90)
>DroMoj_CAF1 1094 120 - 1
UGAUGUUGGCCUGCUUGCGCAAUGUCUGCAAGAAGCGCACGACACGUUCCAAAUAGACGUCGUUGACACGGUCAAGCACCUCCAUCAAUAGAUUGAGACAGACAUCCUUGAGCGAUUUUU
...(((((((((.((((((.......)))))).)).)).)))))(((((......((.(((.(((((...)))))....(((.(((....))).)))...))).))...)))))...... ( -30.30)
>DroAna_CAF1 1097 120 - 1
UGAUGUUGGACUGUUUGCGCAAUGUCUGUAGGAAGCGCACGACACGCUCCAGGUAGACAUCGUUCACACGGUCCAACACCUCCAUCAACAGGCUGAUGCACACAUCCUUCAGCGACUUCU
...(((((((((((.((.((.(((((((..(((.(((.......))))))...))))))).)).)).))))))))))).............(((((............)))))....... ( -40.90)
>consensus
UAAUGUUGGACUGCUUGCGCAAUGUCUGCAGGAAGCGCACGACACGCUCCAGGUAGACAUCGUUCACACGGUCCAACACCUCCAUCAGCAGAUUGAGGCAGACAUCCUUCAGCGAUUUCU
...((((((((((..((.((.((((((((..(.((((.......)))).)..)))))))).)).))..))))))))))..((.(((....))).))........................ (-24.08 = -24.67 +   0.59)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,437,944 – 8,438,064
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.28
Mean single sequence MFE -40.17
Consensus MFE -28.04
Energy contribution -28.43
Covariance contribution 0.39
Combinations/Pair 1.43
Mean z-score -1.64
Structure conservation index 0.70
SVM decision value 0.17
SVM RNA-class probability 0.618432
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8437944 120 + 20766785
GGUCUUGGACCGUGUAAACGAUGUCUUCUUGGAGCGUGCUGUGCGCCUUCUGCAGACAUUGCGCAAGCAAUCCAAUAUCAAGCCGAACAUCGUGGUCGAGAUUUUCAAGCAGGUGGUCAA
(((.(((((.(((....))).(((((.(..((((.((((...)))))))).).)))))((((....))))))))).))).....((.((((.((.(.(((...))).).)))))).)).. ( -33.40)
>DroVir_CAF1 7740 120 + 1
GGUGCUGGACCGUGUGAAUGAUGUAUACCUGGAGCGUAUCGUUCGCUUCCUGCAGACAUUGCGCAAACUGUCCAGCAUUAAGCCGAAUGUCAUCGUUGAGAUCUUCAAGCAACUGGUGAA
((((((((((.((.((..((((((......((((((.......))))))......))))))..)).)).))))))))))..........(((((((((.(.....)...)))).))))). ( -38.40)
>DroGri_CAF1 1187 120 + 1
GGUGCUGGAUCGUGUGAACGAUGUUUACCUGGAGCGUAUCGUUCGCUUCCUGCAGGCAUUGCGCAAGCAAUCCGUCAUUAAGCCGAAUGUGAUCGUUGAGAUCUUCAAGCAGUUGGUCAA
..(((.(((....(((((((((((((.....))))..))))))))).))).)))((.(((((....)))))))........(((((.(((((((.....)))).....))).)))))... ( -40.30)
>DroWil_CAF1 1186 120 + 1
AGUGUUGGACCGUGUGAACGAUGUCUACCUGGAACGCGUCGUGCGUUUCUUGCAGACAUUGCGCAAACAGUCCAACAUUAAACCCAAUAUCCUUGUCGAAGUCUUCAAGCAGCUGGUGAA
((((((((((.((.((..((((((((.(..(((((((.....)))))))..).))))))))..)).)).))))))))))...((((.....((((..(....)..))))....))).).. ( -42.00)
>DroMoj_CAF1 1134 120 + 1
GGUGCUUGACCGUGUCAACGACGUCUAUUUGGAACGUGUCGUGCGCUUCUUGCAGACAUUGCGCAAGCAGGCCAACAUCAAGCCAAAUAUCAUCGUUGAGAUCUUCAAGCAGUUGGUCAA
..(((((((..((.(((((((.(..(((((((...((((.(.((((.....)).....((((....))))))).))))....))))))).).))))))).))..)))))))......... ( -41.60)
>DroAna_CAF1 1137 120 + 1
GGUGUUGGACCGUGUGAACGAUGUCUACCUGGAGCGUGUCGUGCGCUUCCUACAGACAUUGCGCAAACAGUCCAACAUCAAGCCGAACGUGAUCGUCGAGGUAUUCAAGCAGCUCGUCAA
((((((((((.((.((..((((((((....(((((((.....)))))))....))))))))..)).)).))))))))))...............(.((((.(........).)))).).. ( -45.30)
>consensus
GGUGCUGGACCGUGUGAACGAUGUCUACCUGGAGCGUGUCGUGCGCUUCCUGCAGACAUUGCGCAAACAGUCCAACAUCAAGCCGAAUAUCAUCGUCGAGAUCUUCAAGCAGCUGGUCAA
((((((((((.((.((..((((((((.(..(((((((.....)))))))..).))))))))..)).)).))))))))))......................................... (-28.04 = -28.43 +   0.39)

alignment

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secondary structure

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dotplot

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Window 1

Location 8,437,944 – 8,438,064
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.28
Mean single sequence MFE -39.17
Consensus MFE -24.72
Energy contribution -25.42
Covariance contribution 0.70
Combinations/Pair 1.36
Mean z-score -2.10
Structure conservation index 0.63
SVM decision value 0.26
SVM RNA-class probability 0.655768
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8437944 120 - 20766785
UUGACCACCUGCUUGAAAAUCUCGACCACGAUGUUCGGCUUGAUAUUGGAUUGCUUGCGCAAUGUCUGCAGAAGGCGCACAGCACGCUCCAAGAAGACAUCGUUUACACGGUCCAAGACC
..((((....(.((((.....)))).)((((((((...((((.....((..(((((((((..((....))....))))).))))..)).))))..))))))))......))))....... ( -32.70)
>DroVir_CAF1 7740 120 - 1
UUCACCAGUUGCUUGAAGAUCUCAACGAUGACAUUCGGCUUAAUGCUGGACAGUUUGCGCAAUGUCUGCAGGAAGCGAACGAUACGCUCCAGGUAUACAUCAUUCACACGGUCCAGCACC
..........(((.(((..((........))..))))))....((((((((.((.((....((((.(((.(((.(((.......))))))..))).))))....)).)).)))))))).. ( -32.80)
>DroGri_CAF1 1187 120 - 1
UUGACCAACUGCUUGAAGAUCUCAACGAUCACAUUCGGCUUAAUGACGGAUUGCUUGCGCAAUGCCUGCAGGAAGCGAACGAUACGCUCCAGGUAAACAUCGUUCACACGAUCCAGCACC
.........((((.((.((((.....))))....(((((((..((..(((((((....))))).))..))..))))(((((((..((.....))....)))))))...))))).)))).. ( -33.00)
>DroWil_CAF1 1186 120 - 1
UUCACCAGCUGCUUGAAGACUUCGACAAGGAUAUUGGGUUUAAUGUUGGACUGUUUGCGCAAUGUCUGCAAGAAACGCACGACGCGUUCCAGGUAGACAUCGUUCACACGGUCCAACACU
....((((.(.((((..(....)..)))).)..))))......(((((((((((.((.((.((((((((..(.(((((.....))))).)..)))))))).)).)).))))))))))).. ( -45.30)
>DroMoj_CAF1 1134 120 - 1
UUGACCAACUGCUUGAAGAUCUCAACGAUGAUAUUUGGCUUGAUGUUGGCCUGCUUGCGCAAUGUCUGCAAGAAGCGCACGACACGUUCCAAAUAGACGUCGUUGACACGGUCAAGCACC
.........(((((((.....(((((((((.(((((((..((.(((((((((.((((((.......)))))).)).)).)))))))..)))))))..))))))))).....))))))).. ( -46.90)
>DroAna_CAF1 1137 120 - 1
UUGACGAGCUGCUUGAAUACCUCGACGAUCACGUUCGGCUUGAUGUUGGACUGUUUGCGCAAUGUCUGUAGGAAGCGCACGACACGCUCCAGGUAGACAUCGUUCACACGGUCCAACACC
....(((((((...((.....))((((....))))))))))).(((((((((((.((.((.(((((((..(((.(((.......))))))...))))))).)).)).))))))))))).. ( -44.30)
>consensus
UUGACCAGCUGCUUGAAGAUCUCAACGAUGACAUUCGGCUUAAUGUUGGACUGCUUGCGCAAUGUCUGCAGGAAGCGCACGACACGCUCCAGGUAGACAUCGUUCACACGGUCCAACACC
..........((((((.....))))(((......)))))....((((((((((..((.((.((((((((..(.((((.......)))).)..)))))))).)).))..)))))))))).. (-24.72 = -25.42 +   0.70)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:58 2006