Locus 5415

Sequence ID 2L_DroMel_CAF1
Location 15,437,151 – 15,437,321
Length 170
Max. P 0.667552
window8592 window8593 window8594

overview

Window 2

Location 15,437,151 – 15,437,256
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.73
Mean single sequence MFE -23.03
Consensus MFE -15.61
Energy contribution -14.70
Covariance contribution -0.91
Combinations/Pair 1.19
Mean z-score -1.11
Structure conservation index 0.68
SVM decision value 0.21
SVM RNA-class probability 0.633799
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15437151 105 + 22407834
UGCAAAUUCGAUCAAAUAAUGUACAAACAUUAUUGUGGAUUAUCCC-AGUGGUGUUUCU--------------UUUUAAGUUUCUAAGCUGUGAUCGUUUGUCGUUCGACAGUUAAGUUG
........((((((..........(((((((((((.((.....)))-))))))))))..--------------.....((((....)))).)))))).(((((....)))))........ ( -23.70)
>DroPse_CAF1 181346 91 + 1
CUCGAACUCGAUCAGAAAAUGCCCAAACAUUAUGCUGGAUUAUCCC-AGUGGUGUUU----------------UUCGGACUUUCUUGGCUGUGAUCGUUUGUCGUUUG------------
..(((...(((((((((((((((..........(((((......))-))))))))))----------------))(((.((.....)))))))))))....)))....------------ ( -22.80)
>DroEre_CAF1 189628 105 + 1
UGCAAAUUCGAUCAAAUAAUGUACAAACAUUAUUGUGGAUUAUCCC-AGUGGUGUUUCU--------------UUUUAGGUUUCUAAGCUGUGAUCGUUUGUCGUUCGACAGCUAAACUG
.((.....((((((..........(((((((((((.((.....)))-))))))))))..--------------.(((((....)))))...))))))..((((....))))))....... ( -25.50)
>DroYak_CAF1 190354 105 + 1
UGCAAAUUCGAUCAAAUAAUGUUCAAACAUUAUGGUGGAUUAUCCU-AGUGGUGUUUCU--------------UUUUAAGUUUCAAAGCUGUGAUCGUUUGUCGUCCGACAGUUAAACUG
........((((((..........(((((((((...((.....)).-.)))))))))..--------------.....((((....)))).)))))).(((((....)))))........ ( -20.30)
>DroAna_CAF1 191516 120 + 1
CGCAAAUUCGAUCAAAUAAUGUACAAACAUUAUGCUGGAUUAUCCUGAGUGGUGUUUCUCUUUUUUUUUUUUUUUUUGGUUUUCUAAACUCUGAUCGUUUGUCGUUCAACUGUUAAACUG
((((((..((((((..........(((((((((...((.....))...))))))))).................(((((....)))))...)))))))))).))................ ( -19.60)
>DroPer_CAF1 182409 90 + 1
CUCGAACUCGAUCAGAAAAUGCCCAAACAUUAUGCUGGAUUAUCCC-AGUGGUGUUU----------------UUCGGACUCUCUUGGCUCUGAUCGUUUGUCGU-UG------------
..(((...((((((((....(((.(((((((..(((((......))-))))))))))----------------...((.....)).)))))))))))....))).-..------------ ( -26.30)
>consensus
CGCAAAUUCGAUCAAAUAAUGUACAAACAUUAUGCUGGAUUAUCCC_AGUGGUGUUUCU______________UUUUAAGUUUCUAAGCUGUGAUCGUUUGUCGUUCGACAGUUAAACUG
.(((((..((((((..........(((((((((...((.....))...))))))))).................((((......))))...))))))))))).................. (-15.61 = -14.70 +  -0.91)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,437,151 – 15,437,256
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.73
Mean single sequence MFE -19.65
Consensus MFE -12.07
Energy contribution -12.18
Covariance contribution 0.11
Combinations/Pair 1.07
Mean z-score -1.41
Structure conservation index 0.61
SVM decision value 0.28
SVM RNA-class probability 0.667552
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15437151 105 - 22407834
CAACUUAACUGUCGAACGACAAACGAUCACAGCUUAGAAACUUAAAA--------------AGAAACACCACU-GGGAUAAUCCACAAUAAUGUUUGUACAUUAUUUGAUCGAAUUUGCA
.........((((....))))..((((((..................--------------............-.((.....))..((((((((....))))))))))))))........ ( -17.30)
>DroPse_CAF1 181346 91 - 1
------------CAAACGACAAACGAUCACAGCCAAGAAAGUCCGAA----------------AAACACCACU-GGGAUAAUCCAGCAUAAUGUUUGGGCAUUUUCUGAUCGAGUUCGAG
------------....(((....((((((.......(((((((((((----------------........((-((......)))).......)))))))..))))))))))...))).. ( -20.37)
>DroEre_CAF1 189628 105 - 1
CAGUUUAGCUGUCGAACGACAAACGAUCACAGCUUAGAAACCUAAAA--------------AGAAACACCACU-GGGAUAAUCCACAAUAAUGUUUGUACAUUAUUUGAUCGAAUUUGCA
.......((((((....))))..(((((((((.((((....))))..--------------.(......).))-)((.....))..((((((((....)))))))))))))).....)). ( -19.70)
>DroYak_CAF1 190354 105 - 1
CAGUUUAACUGUCGGACGACAAACGAUCACAGCUUUGAAACUUAAAA--------------AGAAACACCACU-AGGAUAAUCCACCAUAAUGUUUGAACAUUAUUUGAUCGAAUUUGCA
.........((((....))))..((((((..................--------------............-.((.....))...(((((((....))))))).))))))........ ( -16.10)
>DroAna_CAF1 191516 120 - 1
CAGUUUAACAGUUGAACGACAAACGAUCAGAGUUUAGAAAACCAAAAAAAAAAAAAAAAAGAGAAACACCACUCAGGAUAAUCCAGCAUAAUGUUUGUACAUUAUUUGAUCGAAUUUGCG
..(((((.....)))))(.(((((((((((((((..........................(((........))).((.....))))).((((((....))))))))))))))..))))). ( -19.60)
>DroPer_CAF1 182409 90 - 1
------------CA-ACGACAAACGAUCAGAGCCAAGAGAGUCCGAA----------------AAACACCACU-GGGAUAAUCCAGCAUAAUGUUUGGGCAUUUUCUGAUCGAGUUCGAG
------------..-.(((....((((((((.....(((.(((((((----------------........((-((......)))).......))))))).)))))))))))...))).. ( -24.86)
>consensus
CAGUUUAACUGUCGAACGACAAACGAUCACAGCUUAGAAACUCAAAA______________AGAAACACCACU_GGGAUAAUCCACCAUAAUGUUUGUACAUUAUUUGAUCGAAUUUGCA
.......................((((((..............................................((.....))...(((((((....))))))).))))))........ (-12.07 = -12.18 +   0.11)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,437,216 – 15,437,321
Length 105
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 81.05
Mean single sequence MFE -33.48
Consensus MFE -23.03
Energy contribution -23.15
Covariance contribution 0.12
Combinations/Pair 1.29
Mean z-score -1.30
Structure conservation index 0.69
SVM decision value 0.01
SVM RNA-class probability 0.540862
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15437216 105 - 22407834
GUAGCA------------ACUUGCCUGACCUCACUGACCCUGUCUCGAGAGGUCACGGAGAGUCCCCUGCUCGGGGGCAACUUAACUGUCGAACGACAAACGAUCACAGCUUAGAAA
((.((.------------(((..(((((((((...(((...)))....))))))).))..)))((((.....)))))).))((((((((.((.((.....)).)))))).))))... ( -32.90)
>DroSec_CAF1 182891 117 - 1
GUAGCACUGGUAGAUCCCACUUGACUGACCUCUCUGACCCUGUCUCGAGAGGUCACGGAGAGUCCCCUGCUCCGGGGCAACUUAACUGUCGAACGACAAACGAUCACAGCUUAGAAA
((.((.((((.((.....((((..((((((((((.(((...)))..))))))))).)..))))......)))))).)).))((((((((.((.((.....)).)))))).))))... ( -36.60)
>DroSim_CAF1 188794 117 - 1
GUAGCACUGGUAGAUCCCACUUGCCUGACCUCACUGACCCUGUCUCGAGAGGUCACGGAGAGUCCCCUGCUCCGGGGCAACUUAACUGUCGAACGACAAACGAUCACAGCUUAGAAA
..(((....((.((((....((((((((((((...(((...)))....)))))).(((((((....)).)))))))))))......((((....))))...)))))).)))...... ( -36.50)
>DroEre_CAF1 189693 109 - 1
--------CGUAUAUCCCACUUGUCUGACCUCACUGACCCUGUCUCGAGAGGUCACGGAGAGUCCUCUGCUCCGAGGCAGUUUAGCUGUCGAACGACAAACGAUCACAGCUUAGAAA
--------............((((((((((((...(((...)))....)))))).(((((((....)).)))))))))))(((((((((.((.((.....)).))))))).)))).. ( -33.70)
>DroYak_CAF1 190419 109 - 1
--------CGUUAAUGGCACUUUCCUGACCUCAGAGACCCUGUCUCGAGAGGUCAUGGAGAGUCCUCUGCUCCGGGGCAGUUUAACUGUCGGACGACAAACGAUCACAGCUUUGAAA
--------.(((((.((.((((((((((((((.(((((...)))))..))))))).))))))))).(((((....))))).)))))((((....))))................... ( -42.70)
>DroAna_CAF1 191596 102 - 1
-------------CUCCCACUUGCUUGACCUCAAUGACCCUGUCCCGA--GUUCAUGGAGAGACCCUACCUUCAGGGCAGUUUAACAGUUGAACGACAAACGAUCAGAGUUUAGAAA
-------------((((((...(((((....((.......))...)))--))...))).))).((((......))))...(((((...((((.((.....)).))))...))))).. ( -18.50)
>consensus
_________GUA_AUCCCACUUGCCUGACCUCACUGACCCUGUCUCGAGAGGUCACGGAGAGUCCCCUGCUCCGGGGCAACUUAACUGUCGAACGACAAACGAUCACAGCUUAGAAA
....................((((((((((((...(((...)))....)))))).(((((((....)).))))))))))).((((((((.((.((.....)).)))))).))))... (-23.03 = -23.15 +   0.12)

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 11:43:33 2006