Locus 5691

Sequence ID 2L_DroMel_CAF1
Location 16,175,154 – 16,175,372
Length 218
Max. P 0.999991
window9016 window9017 window9018

overview

Window 6

Location 16,175,154 – 16,175,274
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 95.28
Mean single sequence MFE -36.15
Consensus MFE -35.28
Energy contribution -34.78
Covariance contribution -0.50
Combinations/Pair 1.09
Mean z-score -3.36
Structure conservation index 0.98
SVM decision value 5.64
SVM RNA-class probability 0.999991
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16175154 120 + 22407834
UCACGGCAGUUUUCACAAUAGAACUGAUUCUGAAAUUGAUUUCAUACGGCUUCGUAUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGCGUGU
(((..((((((((......))))))).)..)))..........((((((((((((........))))))))....(((((.(((((...((((.....))))....)))))))))))))) ( -38.30)
>DroEre_CAF1 95462 120 + 1
UCACGGCAGUUUUCACAAUAGAACUGAUUCUGAAAUUGAUUUCAUACGGUUUCGUAUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUUUGCGUGU
(((..((((((((......))))))).)..)))..........((((((((((((........))))))))....(((((.(((((...((((.....))))....)))))))))))))) ( -33.30)
>DroWil_CAF1 134070 120 + 1
UCACGGCAGUUUUCACAAUAGAACUGAUUCUGAAAUUGAUUUCAUAUGGCUUCGUUUUACAUGACGGAGCCUUCUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGUGUUU
(((..((((((((......))))))).)..)))..............(((((((((......)))))))))....(((((.(((((...((((.....))))....)))))))))).... ( -35.70)
>DroMoj_CAF1 158259 120 + 1
UCACGGCAGUUUUCACAAUAGAACUGAUUCUGAAAUUGAUUUCAUAUGGCUUCGUGUUGCACGACGGAGCCUUCUGCAGAUCCGCAUUUAAUCUAUUAGAUUUAGUUGUGGUCUGCGUCU
(((..((((((((......))))))).)..)))....(((.......((((((((........))))))))....(((((.(((((...((((.....))))....))))))))))))). ( -36.60)
>DroAna_CAF1 89367 120 + 1
UCACGGCAGUUUUCACAAUAGAACUGAUUCUGAAAUUGAUUGCAUAUGGCUUCGUUUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGCGUAU
(((..((((((((......))))))).)..))).......(((....(((((((((......)))))))))....(((((.(((((...((((.....))))....))))))))))))). ( -38.40)
>DroPer_CAF1 127730 120 + 1
UCACGGCAGUUUUCACAAUAGAACUGAUUCUGAAAUUGAUUUCAUACGGCUUCGUGUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUUUUAGAUUUACUUGUGGUCUGUGUCU
(((..((((((((......))))))).)..)))....(((.......((((((((........))))))))....(((((.(((((...((((.....))))....))))))))))))). ( -34.60)
>consensus
UCACGGCAGUUUUCACAAUAGAACUGAUUCUGAAAUUGAUUUCAUACGGCUUCGUAUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGCGUCU
(((..((((((((......))))))).)..)))..............((((((((........))))))))....(((((.(((((...((((.....))))....)))))))))).... (-35.28 = -34.78 +  -0.50)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,175,194 – 16,175,311
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 85.15
Mean single sequence MFE -33.73
Consensus MFE -29.42
Energy contribution -29.28
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -3.00
Structure conservation index 0.87
SVM decision value 1.86
SVM RNA-class probability 0.980469
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16175194 117 + 22407834
UUCAUACGGCUUCGUAUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGCGUGUCAUUGAUUUCUCUAGUGUCCAGGUAAACGAUAAUCCA---
...((((((((((((........))))))))....(((((.(((((...((((.....))))....)))))))))))))).((((.(((..((.......))..)))))))......--- ( -32.70)
>DroVir_CAF1 140016 120 + 1
UUCAUAUGGCUUCGUAUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGCGUGUCAUUGAUAUCUCUAGUAUCCAGGUAAACGAAAACAACCGA
(((....((((((((........))))))))....(((((.(((((...((((.....))))....))))))))))((..(...(((((.....)))))...)...)))))......... ( -33.10)
>DroGri_CAF1 102316 111 + 1
UUCAUAUGGCUUCGUGUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUACUAGAUUUACUUGUGGUCUGCGUCUCAUUGAUAUCUCUAGUAUCCAGGUAAACA----C-----A
.......((((((((........))))))))....(((((.(((((...((((.....))))....))))))))))((..(...(((((.....)))))...)...)).----.-----. ( -31.50)
>DroWil_CAF1 134110 118 + 1
UUCAUAUGGCUUCGUUUUACAUGACGGAGCCUUCUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGUGUUUCUUUGAUAUCUCUAGUGUCCAGGUAAUUAA--ACUCAUGC
.......(((((((((......)))))))))....(((((.(((((...((((.....))))....))))))))))(((.(((.(((((.....))))).))).)))...--........ ( -32.50)
>DroMoj_CAF1 158299 120 + 1
UUCAUAUGGCUUCGUGUUGCACGACGGAGCCUUCUGCAGAUCCGCAUUUAAUCUAUUAGAUUUAGUUGUGGUCUGCGUCUCAUUGAUAUCUGUUGCAUUCAGGUAACAAGUAACAAAUAU
.......((((((((........))))))))....(((((.(((((...((((.....))))....))))))))))......(((.((..((((((......))))))..)).))).... ( -38.00)
>DroAna_CAF1 89407 117 + 1
UGCAUAUGGCUUCGUUUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGCGUAUCUUUGGUAUCACUAGUGUUCAGGUAAACAACCAUCAG---
.((((..(((((((((......)))))))))....(((((.(((((...((((.....))))....))))))))))..................))))...(((.....))).....--- ( -34.60)
>consensus
UUCAUAUGGCUUCGUAUUACACGACGGAGCCUUUUGCAGAUCCGCAUUUAAUCUAUUAGAUUUACUUGUGGUCUGCGUCUCAUUGAUAUCUCUAGUAUCCAGGUAAACAA_AACAAA___
.......((((((((........))))))))....(((((.(((((...((((.....))))....))))))))))............................................ (-29.42 = -29.28 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,175,274 – 16,175,372
Length 98
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 77.06
Mean single sequence MFE -16.52
Consensus MFE -10.77
Energy contribution -11.27
Covariance contribution 0.50
Combinations/Pair 1.22
Mean z-score -1.84
Structure conservation index 0.65
SVM decision value 1.18
SVM RNA-class probability 0.926488
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16175274 98 + 22407834
CAUUGAUUUCUCUAGUGUCCAGGUAAACGAUAAUCCA-----UAUAACUACUCUAACCCAGUAGUUGUGAUACUAA-UUACUUCUGGAACAUAAACUAUAACGU
..............((((((((((((..(......).-----((((((((((.......)))))))))).......-))))..)))).))))............ ( -17.00)
>DroVir_CAF1 140096 99 + 1
CAUUGAUAUCUCUAGUAUCCAGGUAAACGAAAACAACCGAAAAAAAACUACUCUAAUCCAGUAGUUAG-A--UAAU-UUACUUCUGGAAUAUAU-UUAUAACGU
.................((((((((((((........))......(((((((.......)))))))..-.--...)-))))..)))))......-......... ( -14.10)
>DroGri_CAF1 102396 90 + 1
CAUUGAUAUCUCUAGUAUCCAGGUAAACA----C-----AAUAAAGACUACUCUAACCCAGUAGUUGA-U--AAAC-UUACUUCUGGAAUAUAA-UUAUAACGU
.................((((((......----.-----......(((((((.......)))))))..-.--....-.....))))))......-......... ( -13.81)
>DroEre_CAF1 95582 98 + 1
CAUUGAUUUCUCUAGUGUCCAGGUAAACGAUAAUCCA-----UAUAACUACUCUAACCCAGUAGUUGUGAUACUUA-UUACUUCUGGAACAUAAACAAUAACGU
..............(((((((((.....(((((....-----((((((((((.......))))))))))....)))-))...))))).))))............ ( -19.10)
>DroAna_CAF1 89487 98 + 1
CUUUGGUAUCACUAGUGUUCAGGUAAACAACCAUCAG-----UAUAACUACUUUAACCCAGUAGUUGUGAUAAUAA-UUAUAUCUUGAACAUAAACAAUAACGU
..............(((((((((..............-----((((((((((.......)))))))))).......-......)))))))))............ ( -19.73)
>DroPer_CAF1 127850 98 + 1
CAUUGAUAUCCCUAGUCUCCAGGUAAACAAUAAUCGA-----AAC-ACUACUCUCACCCAGUAGUUGUGAUAUAAUUUUACUUCUGGAACAUAAACUAUAACAU
..............((.((((((((((.....((((.-----...-((((((.......))))))..)))).....)))))..))))))).............. ( -15.40)
>consensus
CAUUGAUAUCUCUAGUGUCCAGGUAAACAAUAAUCAA_____AAUAACUACUCUAACCCAGUAGUUGUGAUAAAAA_UUACUUCUGGAACAUAAACUAUAACGU
..............(((((((((....)...............(((((((((.......)))))))))...............)))).))))............ (-10.77 = -11.27 +   0.50)

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 11:50:19 2006