Locus 8093

Sequence ID 3R_DroMel_CAF1
Location 21,733,365 – 21,733,497
Length 132
Max. P 0.959513
window13025 window13026 window13027 window13028

overview

Window 5

Location 21,733,365 – 21,733,461
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 71.89
Mean single sequence MFE -33.85
Consensus MFE -15.93
Energy contribution -18.60
Covariance contribution 2.67
Combinations/Pair 1.10
Mean z-score -1.99
Structure conservation index 0.47
SVM decision value 1.10
SVM RNA-class probability 0.914610
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21733365 96 + 27905053
ACUUGCGGUGCCGGAAAUAAUGUCAACCACUGCCGAUCCCGUGGCGCUGGGGGUAAACUCCCCCGUGGAGGAUGUAGUGGCCAAAACCACCACAAC
..(((.((((..((..((.(((((..((((.((((......))))...(((((......)))))))))..))))).))..)).....)))).))). ( -35.80)
>DroGri_CAF1 12770 81 + 1
ACUUGCGGUCUACAGCAUUAUGUCAACGACUACUGAGGAGG------------UGGCCACAACAAUGGUGGCGGA---CGCUAAUGCUCCAUCUAU
......((.....(((((((((((......((((.....))------------))(((((.......))))).))---)).)))))))))...... ( -21.50)
>DroSec_CAF1 2 80 + 1
----------------AUAAUGUCAACCACUGCCGAUCCCGUGGCGCAGGGGGUAAACUCCCCCGUGGUGGAUGUGGUGGCCAAAACCACCACAAC
----------------.....(((.(((((.((((......))))...(((((......)))))))))).)))(((((((......)))))))... ( -38.30)
>DroSim_CAF1 143 96 + 1
ACUUGCGGUGCCGGAAAUAAUGUCAACCACUGCCGAUCCCGUGGCGCAGGGGGUAAACUCCCCCGUGGUGGAUGUAGUGGCCAAAACCACCACAAC
..(((.((((..((..((.(((((.(((((.((((......))))...(((((......)))))))))).))))).))..)).....)))).))). ( -37.10)
>DroEre_CAF1 8343 93 + 1
ACUUGCGGUGCCGGAAAUAAUGUCAACCACUGCCGAUCCCGUGGCGUUGGGGGCAAGCUCCCCCGUGGCGUAUGG---UGCCAAAACCGCCACAAC
....((((((...((.......))...)))))).......((((((..(((((......))))).(((((.....---)))))....))))))... ( -35.10)
>DroYak_CAF1 143 96 + 1
ACUUGCGGUGCCGGAAAUAAUGUCAACCACAGCGGAACCCGUGGCGUUGGGGGUAAGCUCCCCCGUGGCGGAUGUAGUGGCCAAAACCACCACAAC
..(((.((((..((..((.(((((..((((.((((...))))......(((((......)))))))))..))))).))..)).....)))).))). ( -35.30)
>consensus
ACUUGCGGUGCCGGAAAUAAUGUCAACCACUGCCGAUCCCGUGGCGCUGGGGGUAAACUCCCCCGUGGUGGAUGUAGUGGCCAAAACCACCACAAC
..........................((((.((((......))))...(((((......)))))))))....(((.((((......)))).))).. (-15.93 = -18.60 +   2.67)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,733,365 – 21,733,461
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 71.89
Mean single sequence MFE -35.32
Consensus MFE -21.92
Energy contribution -25.00
Covariance contribution 3.08
Combinations/Pair 1.21
Mean z-score -1.78
Structure conservation index 0.62
SVM decision value 1.50
SVM RNA-class probability 0.959513
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21733365 96 - 27905053
GUUGUGGUGGUUUUGGCCACUACAUCCUCCACGGGGGAGUUUACCCCCAGCGCCACGGGAUCGGCAGUGGUUGACAUUAUUUCCGGCACCGCAAGU
..(((((((((....)))))))))((..(((((((((......)))))...(((........))).))))..))....((((.((....)).)))) ( -36.90)
>DroGri_CAF1 12770 81 - 1
AUAGAUGGAGCAUUAGCG---UCCGCCACCAUUGUUGUGGCCA------------CCUCCUCAGUAGUCGUUGACAUAAUGCUGUAGACCGCAAGU
.....((.(((((((..(---((.((.((.((((..(.((...------------)).)..)))).)).)).))).))))))).))...(....). ( -19.80)
>DroSec_CAF1 2 80 - 1
GUUGUGGUGGUUUUGGCCACCACAUCCACCACGGGGGAGUUUACCCCCUGCGCCACGGGAUCGGCAGUGGUUGACAUUAU----------------
..(((((((((....)))))))))((.((((((((((......)))))...(((........))).))))).))......---------------- ( -38.80)
>DroSim_CAF1 143 96 - 1
GUUGUGGUGGUUUUGGCCACUACAUCCACCACGGGGGAGUUUACCCCCUGCGCCACGGGAUCGGCAGUGGUUGACAUUAUUUCCGGCACCGCAAGU
..(((((((((....)))))))))((.((((((((((......)))))...(((........))).))))).))....((((.((....)).)))) ( -37.70)
>DroEre_CAF1 8343 93 - 1
GUUGUGGCGGUUUUGGCA---CCAUACGCCACGGGGGAGCUUGCCCCCAACGCCACGGGAUCGGCAGUGGUUGACAUUAUUUCCGGCACCGCAAGU
...((((((....((((.---......)))).(((((......)))))..))))))((..((((.((((((....)))))).))))..))...... ( -38.90)
>DroYak_CAF1 143 96 - 1
GUUGUGGUGGUUUUGGCCACUACAUCCGCCACGGGGGAGCUUACCCCCAACGCCACGGGUUCCGCUGUGGUUGACAUUAUUUCCGGCACCGCAAGU
..(((((((((....)))))))))...(((..(((((......)))))...(((((((......))))))).............)))..(....). ( -39.80)
>consensus
GUUGUGGUGGUUUUGGCCACUACAUCCACCACGGGGGAGUUUACCCCCAGCGCCACGGGAUCGGCAGUGGUUGACAUUAUUUCCGGCACCGCAAGU
..(((((((((....)))))))))((.((((((((((......)))))...(((........))).))))).))...................... (-21.92 = -25.00 +   3.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,733,404 – 21,733,497
Length 93
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 78.11
Mean single sequence MFE -33.86
Consensus MFE -20.45
Energy contribution -22.73
Covariance contribution 2.28
Combinations/Pair 1.24
Mean z-score -1.51
Structure conservation index 0.60
SVM decision value 0.17
SVM RNA-class probability 0.615223
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21733404 93 + 27905053
CGUGGCGCUGGGGGUAAACUCCCCCGUGGAGGAUGUAGUGGCCAAAACCACCACAACGGUGGCCAAUGCGAUUGCGAAGACAGUG---GCCGUAAU
...(((((((((((......)))))........((((((.((.....(((((.....))))).....)).)))))).....))).---)))..... ( -33.70)
>DroGri_CAF1 12809 81 + 1
GG------------UGGCCACAACAAUGGUGGCGGA---CGCUAAUGCUCCAUCUAUAGUAACCAAUGCGAUUGUUCAGACAGUUCAGUCCAUAAU
((------------(.(((((.......)))))(((---.((....)))))..........))).(((.(((((..(.....)..))))))))... ( -23.20)
>DroSec_CAF1 25 93 + 1
CGUGGCGCAGGGGGUAAACUCCCCCGUGGUGGAUGUGGUGGCCAAAACCACCACAACGGUGGCCAAUGCGAUUGCGAAGACAGUG---GCCGUAAU
((..((((((((((......))))).((((.(.((((((((......))))))))....).)))).)))).)..)).........---........ ( -39.40)
>DroSim_CAF1 182 93 + 1
CGUGGCGCAGGGGGUAAACUCCCCCGUGGUGGAUGUAGUGGCCAAAACCACCACAACGGUGGCCAAUGCGAUUGCGAAGACAGUG---GCCGUAAU
..((((.(((((((......)))))(((((((...............))))))).....)))))).((((.(..(.......)..---).)))).. ( -34.96)
>DroEre_CAF1 8382 90 + 1
CGUGGCGUUGGGGGCAAGCUCCCCCGUGGCGUAUGG---UGCCAAAACCGCCACAACGGUGGCCAAUGCGAUUGCGAAGACAGUG---GCCGUAAU
.((((((..(((((......))))).(((((.....---)))))....)))))).(((((.((.....((....))......)).---)))))... ( -37.10)
>DroYak_CAF1 182 93 + 1
CGUGGCGUUGGGGGUAAGCUCCCCCGUGGCGGAUGUAGUGGCCAAAACCACCACAACGGUGGCCAAUGCGAUUGCGAAGACAGUG---GCCGUAAU
...(((...(((((......)))))...((((.((((.(((((...(((........)))))))).)))).))))..........---)))..... ( -34.80)
>consensus
CGUGGCGCUGGGGGUAAACUCCCCCGUGGUGGAUGUAGUGGCCAAAACCACCACAACGGUGGCCAAUGCGAUUGCGAAGACAGUG___GCCGUAAU
...(((...(((((......)))))........((((((.((.....(((((.....))))).....)).))))))............)))..... (-20.45 = -22.73 +   2.28)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,733,404 – 21,733,497
Length 93
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 78.11
Mean single sequence MFE -33.90
Consensus MFE -19.64
Energy contribution -21.08
Covariance contribution 1.45
Combinations/Pair 1.18
Mean z-score -2.24
Structure conservation index 0.58
SVM decision value 1.21
SVM RNA-class probability 0.930850
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21733404 93 - 27905053
AUUACGGC---CACUGUCUUCGCAAUCGCAUUGGCCACCGUUGUGGUGGUUUUGGCCACUACAUCCUCCACGGGGGAGUUUACCCCCAGCGCCACG
.....(((---((.(((..........))).)))))..((((((((((((....)))))))).........(((((......)))))))))..... ( -35.70)
>DroGri_CAF1 12809 81 - 1
AUUAUGGACUGAACUGUCUGAACAAUCGCAUUGGUUACUAUAGAUGGAGCAUUAGCG---UCCGCCACCAUUGUUGUGGCCA------------CC
.....((((....(((((((...((((.....))))....))))))).((....)))---)))(((((.......)))))..------------.. ( -20.20)
>DroSec_CAF1 25 93 - 1
AUUACGGC---CACUGUCUUCGCAAUCGCAUUGGCCACCGUUGUGGUGGUUUUGGCCACCACAUCCACCACGGGGGAGUUUACCCCCUGCGCCACG
.....(((---((.(((..........))).)))))..((((((((((((....)))))))))........(((((......))))).)))..... ( -36.90)
>DroSim_CAF1 182 93 - 1
AUUACGGC---CACUGUCUUCGCAAUCGCAUUGGCCACCGUUGUGGUGGUUUUGGCCACUACAUCCACCACGGGGGAGUUUACCCCCUGCGCCACG
.....(((---((.(((..........))).)))))..(((.(((((((...((.......)).)))))))(((((......))))).)))..... ( -35.30)
>DroEre_CAF1 8382 90 - 1
AUUACGGC---CACUGUCUUCGCAAUCGCAUUGGCCACCGUUGUGGCGGUUUUGGCA---CCAUACGCCACGGGGGAGCUUGCCCCCAACGCCACG
.....(((---((.(((..........))).)))))......((((((....((((.---......)))).(((((......)))))..)))))). ( -38.60)
>DroYak_CAF1 182 93 - 1
AUUACGGC---CACUGUCUUCGCAAUCGCAUUGGCCACCGUUGUGGUGGUUUUGGCCACUACAUCCGCCACGGGGGAGCUUACCCCCAACGCCACG
.....(((---((.(((..........))).)))))..(((((((((((...((.......)).)))))))(((((......)))))))))..... ( -36.70)
>consensus
AUUACGGC___CACUGUCUUCGCAAUCGCAUUGGCCACCGUUGUGGUGGUUUUGGCCACUACAUCCACCACGGGGGAGUUUACCCCCAGCGCCACG
.....(((...................((...(((((((.....)))))))...))...............(((((......)))))...)))... (-19.64 = -21.08 +   1.45)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:26 2006