Locus 851

Sequence ID 2L_DroMel_CAF1
Location 2,421,669 – 2,421,808
Length 139
Max. P 0.951598
window1379 window1380 window1381 window1382

overview

Window 9

Location 2,421,669 – 2,421,768
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 81.82
Mean single sequence MFE -35.98
Consensus MFE -24.13
Energy contribution -25.88
Covariance contribution 1.75
Combinations/Pair 1.23
Mean z-score -1.77
Structure conservation index 0.67
SVM decision value 0.28
SVM RNA-class probability 0.664868
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2421669 99 + 22407834
CGGGUCUUUGAGCAGCCGGAGGAGCAGAAGAACACAUCGCUGCCCGAGCACAAGGUUUUUGUGGUGGGCAGCAAUGUGAUAGCCACUUCCACAGCGGCU
.(..((((((......))))))..).......(((((.((((((((..((((((...)))))).)))))))).)))))..((((.((.....)).)))) ( -37.00)
>DroPse_CAF1 828 99 + 1
AAUGUCUUUGAGGUGUCGGACAAGCAAGACAACCCUUUGCUACCCAAGCACAAAGUCUAUGUGGUGGGUAGCAAUGCCAUAGCUACCUCAACAGCAGCC
..(((..((((((((((..........)))......((((((((((..((((.......)))).))))))))))..........)))))))..)))... ( -34.20)
>DroSim_CAF1 775 99 + 1
CGGGUCUUUGAGCAGCCGGAGGAGCAGAAGAACACAUCUCUGCCUGAGCACAAGGUCUUUGUAGUGGGCAGCAAUGUGAUUGCCACUUCCACAGCGGCU
..........(((.((.(((((.((((.....(((((..(((((((...(((((...)))))..)))))))..))))).))))..)))))...)).))) ( -29.10)
>DroEre_CAF1 775 99 + 1
CGGGUGUUUGAGCAGCCGGAGGAGCAGAUGCACACAUCGCUGCCCGAGCACAAGGUAUUUGUGGUGGGCAGCAAUCUGAUAGCCACUUCCACAGCGGCC
.((.(((....))).))(((((.((.((((....))))((((((((..((((((...)))))).)))))))).........))..)))))......... ( -39.00)
>DroYak_CAF1 775 99 + 1
CGGGUGUUUGAGCAGCCGGAGGAGCAGAGCAACACAUCGCUGCCCGAGCACAAGGUCUUUGUGGUGGGCAGCAAUGUGAUAGCCACUUCCACAGCGGCC
.((.(((....))).))(((((.((...))..(((((.((((((((..((((((...)))))).)))))))).))))).......)))))......... ( -40.00)
>DroPer_CAF1 828 99 + 1
AAUGUCUUUGAGGUGUCGGACAAGCAAGACAACCCUUUGCUACCCAAGCACAAAGUCUAUGUGGUGGGUAGCAAUGCCAUAGCUACCUCAACGGCAGCC
..((((.((((((((((..........)))......((((((((((..((((.......)))).))))))))))..........))))))).))))... ( -36.60)
>consensus
CGGGUCUUUGAGCAGCCGGAGGAGCAGAACAACACAUCGCUGCCCGAGCACAAGGUCUUUGUGGUGGGCAGCAAUGUGAUAGCCACUUCCACAGCGGCC
(((.(((....))).)))..............(((((.((((((((..((((((...)))))).)))))))).)))))...(((.((.....)).))). (-24.13 = -25.88 +   1.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,421,669 – 2,421,768
Length 99
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 81.82
Mean single sequence MFE -39.05
Consensus MFE -31.95
Energy contribution -32.18
Covariance contribution 0.23
Combinations/Pair 1.28
Mean z-score -2.89
Structure conservation index 0.82
SVM decision value 1.41
SVM RNA-class probability 0.951598
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2421669 99 - 22407834
AGCCGCUGUGGAAGUGGCUAUCACAUUGCUGCCCACCACAAAAACCUUGUGCUCGGGCAGCGAUGUGUUCUUCUGCUCCUCCGGCUGCUCAAAGACCCG
(((.((((..(.((..(....(((((((((((((..(((((.....)))))...))))))))))))).....)..)).)..)))).))).......... ( -44.10)
>DroPse_CAF1 828 99 - 1
GGCUGCUGUUGAGGUAGCUAUGGCAUUGCUACCCACCACAUAGACUUUGUGCUUGGGUAGCAAAGGGUUGUCUUGCUUGUCCGACACCUCAAAGACAUU
(((((((.....)))))))(((...((((((((((.((((.......))))..)))))))))).(((.((((..........)))).))).....))). ( -34.70)
>DroSim_CAF1 775 99 - 1
AGCCGCUGUGGAAGUGGCAAUCACAUUGCUGCCCACUACAAAGACCUUGUGCUCAGGCAGAGAUGUGUUCUUCUGCUCCUCCGGCUGCUCAAAGACCCG
(((.((((..(.((..(....(((((..(((((...(((((.....)))))....)))))..))))).....)..)).)..)))).))).......... ( -32.80)
>DroEre_CAF1 775 99 - 1
GGCCGCUGUGGAAGUGGCUAUCAGAUUGCUGCCCACCACAAAUACCUUGUGCUCGGGCAGCGAUGUGUGCAUCUGCUCCUCCGGCUGCUCAAACACCCG
(((.((((..(.((..(....((.((((((((((..(((((.....)))))...)))))))))).)).....)..)).)..)))).))).......... ( -40.20)
>DroYak_CAF1 775 99 - 1
GGCCGCUGUGGAAGUGGCUAUCACAUUGCUGCCCACCACAAAGACCUUGUGCUCGGGCAGCGAUGUGUUGCUCUGCUCCUCCGGCUGCUCAAACACCCG
(((.((((..(.((((((...(((((((((((((..(((((.....)))))...)))))))))))))..)))..))).)..)))).))).......... ( -45.20)
>DroPer_CAF1 828 99 - 1
GGCUGCCGUUGAGGUAGCUAUGGCAUUGCUACCCACCACAUAGACUUUGUGCUUGGGUAGCAAAGGGUUGUCUUGCUUGUCCGACACCUCAAAGACAUU
(((((((.....)))))))(((...((((((((((.((((.......))))..)))))))))).(((.((((..........)))).))).....))). ( -37.30)
>consensus
GGCCGCUGUGGAAGUGGCUAUCACAUUGCUGCCCACCACAAAGACCUUGUGCUCGGGCAGCGAUGUGUUCUUCUGCUCCUCCGGCUGCUCAAAGACCCG
(((.((((.(((.((((....(((((((((((((..(((((.....)))))...))))))))))))).....)))))))..)))).))).......... (-31.95 = -32.18 +   0.23)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,421,699 – 2,421,808
Length 109
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -40.84
Consensus MFE -30.51
Energy contribution -30.82
Covariance contribution 0.31
Combinations/Pair 1.28
Mean z-score -3.18
Structure conservation index 0.75
SVM decision value 1.11
SVM RNA-class probability 0.917396
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2421699 109 + 22407834
AACACAUCGCUGCCCGAGCACAAGGUUUUUGUGGUGGGCAGCAAUGUGAUAGCCACUUCCACAGCGGCUCAUGAGGCCGAAAGGCUGGGCUACAUUCCGUGCGUGCUCA
..(((((.((((((((..((((((...)))))).)))))))).)))))..((((.((.....)).)))).....((((....))))((((..(((...)))...)))). ( -46.00)
>DroPse_CAF1 858 109 + 1
AACCCUUUGCUACCCAAGCACAAAGUCUAUGUGGUGGGUAGCAAUGCCAUAGCUACCUCAACAGCAGCCCAACAGGCUGCCAAACUAGGAUACAUUCCCUGCGUCCUAA
......((((((((((..((((.......)))).))))))))))...................((((((.....)))))).....(((((..((.....))..))))). ( -37.70)
>DroSim_CAF1 805 109 + 1
AACACAUCUCUGCCUGAGCACAAGGUCUUUGUAGUGGGCAGCAAUGUGAUUGCCACUUCCACAGCGGCUCAUGAGGCCGAAAAGCUGGGCUACAUUCCCUGCGUGCUCA
...............((((((..((((((....((((((.((..((((...........)))))).)))))))))))).....((.(((.......))).)))))))). ( -36.90)
>DroEre_CAF1 805 109 + 1
CACACAUCGCUGCCCGAGCACAAGGUAUUUGUGGUGGGCAGCAAUCUGAUAGCCACUUCCACAGCGGCCAAGGAGGCCGAAAAUCUGGGUUAUAUUCCCUGCGUGCUCA
(((.((..((((((((..((((((...)))))).))))))))......((((((..........(((((.....)))))........))))))......)).))).... ( -39.67)
>DroYak_CAF1 805 109 + 1
AACACAUCGCUGCCCGAGCACAAGGUCUUUGUGGUGGGCAGCAAUGUGAUAGCCACUUCCACAGCGGCCAAGGAGGCCGAAAAUCUGGGUUACAUUCCCUGCGUGCUCA
..(((((.((((((((..((((((...)))))).)))))))).)))))..(((.((........(((((.....))))).......(((.......)))...))))).. ( -42.80)
>DroPer_CAF1 858 109 + 1
AACCCUUUGCUACCCAAGCACAAAGUCUAUGUGGUGGGUAGCAAUGCCAUAGCUACCUCAACGGCAGCCCAACAGGCUGCCAAACUAGGAUACAUUCCCUGCGUCCUAA
......((((((((((..((((.......)))).))))))))))..................(((((((.....)))))))....(((((..((.....))..))))). ( -42.00)
>consensus
AACACAUCGCUGCCCGAGCACAAGGUCUUUGUGGUGGGCAGCAAUGUGAUAGCCACUUCCACAGCGGCCCAAGAGGCCGAAAAACUGGGAUACAUUCCCUGCGUGCUCA
..(((((.((((((((..((((((...)))))).)))))))).))))).(((((..........(((((.....)))))........)))))................. (-30.51 = -30.82 +   0.31)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,421,699 – 2,421,808
Length 109
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 82.94
Mean single sequence MFE -44.68
Consensus MFE -34.98
Energy contribution -34.68
Covariance contribution -0.30
Combinations/Pair 1.35
Mean z-score -3.07
Structure conservation index 0.78
SVM decision value 1.22
SVM RNA-class probability 0.932021
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2421699 109 - 22407834
UGAGCACGCACGGAAUGUAGCCCAGCCUUUCGGCCUCAUGAGCCGCUGUGGAAGUGGCUAUCACAUUGCUGCCCACCACAAAAACCUUGUGCUCGGGCAGCGAUGUGUU
((((...((.(((((.((......)).)))))))))))..(((((((.....)))))))..(((((((((((((..(((((.....)))))...))))))))))))).. ( -48.60)
>DroPse_CAF1 858 109 - 1
UUAGGACGCAGGGAAUGUAUCCUAGUUUGGCAGCCUGUUGGGCUGCUGUUGAGGUAGCUAUGGCAUUGCUACCCACCACAUAGACUUUGUGCUUGGGUAGCAAAGGGUU
((((((..((.....))..))))))...(((((((.....))))))).........((....)).((((((((((.((((.......))))..))))))))))...... ( -43.10)
>DroSim_CAF1 805 109 - 1
UGAGCACGCAGGGAAUGUAGCCCAGCUUUUCGGCCUCAUGAGCCGCUGUGGAAGUGGCAAUCACAUUGCUGCCCACUACAAAGACCUUGUGCUCAGGCAGAGAUGUGUU
((((((((.(((...(((((((((((.....((((....).))))))).))..(..(((((...)))))..)...)))))....))))))))))).(((....)))... ( -38.30)
>DroEre_CAF1 805 109 - 1
UGAGCACGCAGGGAAUAUAACCCAGAUUUUCGGCCUCCUUGGCCGCUGUGGAAGUGGCUAUCAGAUUGCUGCCCACCACAAAUACCUUGUGCUCGGGCAGCGAUGUGUG
..(((.(((.(((.......))).......(((((.....)))))........))))))..((.((((((((((..(((((.....)))))...)))))))))).)).. ( -44.30)
>DroYak_CAF1 805 109 - 1
UGAGCACGCAGGGAAUGUAACCCAGAUUUUCGGCCUCCUUGGCCGCUGUGGAAGUGGCUAUCACAUUGCUGCCCACCACAAAGACCUUGUGCUCGGGCAGCGAUGUGUU
..(((.(((.(((.......))).......(((((.....)))))........))))))..(((((((((((((..(((((.....)))))...))))))))))))).. ( -48.20)
>DroPer_CAF1 858 109 - 1
UUAGGACGCAGGGAAUGUAUCCUAGUUUGGCAGCCUGUUGGGCUGCCGUUGAGGUAGCUAUGGCAUUGCUACCCACCACAUAGACUUUGUGCUUGGGUAGCAAAGGGUU
((((((..((.....))..))))))...(((((((.....))))))).........((....)).((((((((((.((((.......))))..))))))))))...... ( -45.60)
>consensus
UGAGCACGCAGGGAAUGUAACCCAGAUUUUCGGCCUCAUGGGCCGCUGUGGAAGUGGCUAUCACAUUGCUGCCCACCACAAAGACCUUGUGCUCGGGCAGCGAUGUGUU
.(((......(((.......))).(((....))))))...(((((((.....)))))))..(((((((((((((..(((((.....)))))...))))))))))))).. (-34.98 = -34.68 +  -0.30)

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 09:47:08 2006