Locus 63

Sequence ID 2L_DroMel_CAF1
Location 239,301 – 239,440
Length 139
Max. P 0.996186
window95 window96 window97

overview

Window 5

Location 239,301 – 239,421
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.44
Mean single sequence MFE -45.00
Consensus MFE -17.03
Energy contribution -16.95
Covariance contribution -0.08
Combinations/Pair 1.35
Mean z-score -2.20
Structure conservation index 0.38
SVM decision value 0.55
SVM RNA-class probability 0.779377
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 239301 120 + 22407834
AUUCUUCUCAAACUCCGCAUUCGAGGACUGAGAAUUGCUAUCUAAAAGUGCUGCUGCUGCAGAAGCUGCAUUGGAGGCCACGGCAGCAACUGCCGCUGAAUUUGAAGACAUCGAGUUGUU
....((((((...(((........))).))))))..(((.(((((.(((.((((....))))..)))...))))))))((((((((...)))))).))(((((((.....)))))))... ( -33.70)
>DroVir_CAF1 36752 115 + 1
-----UCUCAAAGUCCGCAUUCGACGAUUGCGAAUUGCUAUCGAGCAGCGCCGCCGCCGCAUUGGCGGCAUUCGAAGCGGCCGCAACAGCAGCCGCACUGGUCGAGCUCAUCGAAUUGUU
-----...........((((((((.(((.((.....)).)))((((..((((((((((.....)))))).......(((((.((....)).)))))...)).)).)))).))))).))). ( -45.70)
>DroPse_CAF1 37980 120 + 1
AUUCUUCUCGAAUUCCGUGUUUGACGACUGCGAAUUACUGUCCAGCAGGGCAGCCGCUGCGGAGGCAGCAUUCGAGGCCACCACAGCCACAGCCGCACUCGACGAGGACAUGGAAUUCUG
.........(((((((((((((..(((.((((.....((((((....))))))..((((.((.(((..(....)..))).)).))))......)))).)))....))))))))))))).. ( -50.20)
>DroWil_CAF1 39756 120 + 1
AUUCUUUUCAAAUUCCGUAUUUGAUGAUUGUGAAUUACUAUCCAAGAGGGCUGCUGCUGCUGAGGCAGCAUUGGAGGCAACAGCCGCUACUGCGGCACUUGUCGAAGACAUGGAAUUAUU
..........((((((((.(((((..(.............(((((....((((((.(....).)))))).)))))(....).(((((....)))))..)..)))))...))))))))... ( -40.50)
>DroAna_CAF1 37294 120 + 1
AUUCUUCUCGAACUCGGCAUUCGAGGACUGCGAGUUGCUGUCCAGCAGAGCGGCUGCAGCAGCAGAGGCAUUGGAAGCGACCGCCGCCACAGCUGCCGAGUUGGAGGACAUGGAGUUGUU
(((((((((.(((((((((...(.((.(.(((.((((((.(((((....((..((((....))))..)).)))))))))))))).))).)...))))))))).))))....))))).... ( -51.00)
>DroPer_CAF1 38397 120 + 1
AUUCUUCUCGAAUUCCGUGUUUGAUGACUGCGAAUUGCUGUCCAGCAGGGCAGCCGCUGCAGAGGCAGCAUUCGAGGCCACCACAGCCACAGCCGCACUCGACGAGGACAUGGAAUUCUG
.........(((((((((((((..(((.(((((((.(((((((....))))))).(((((....)))))))))..(((.......)))......))).)))....))))))))))))).. ( -48.90)
>consensus
AUUCUUCUCAAAUUCCGCAUUCGACGACUGCGAAUUGCUAUCCAGCAGGGCAGCCGCUGCAGAGGCAGCAUUCGAGGCCACCGCAGCCACAGCCGCACUCGUCGAGGACAUGGAAUUGUU
..........(((((....((((((..((((.............)))).((.((.(((((....))))).......((....)).......)).))....))))))......)))))... (-17.03 = -16.95 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 6

Location 239,301 – 239,421
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.44
Mean single sequence MFE -45.12
Consensus MFE -24.13
Energy contribution -23.42
Covariance contribution -0.72
Combinations/Pair 1.50
Mean z-score -2.43
Structure conservation index 0.53
SVM decision value 2.07
SVM RNA-class probability 0.987078
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 239301 120 - 22407834
AACAACUCGAUGUCUUCAAAUUCAGCGGCAGUUGCUGCCGUGGCCUCCAAUGCAGCUUCUGCAGCAGCAGCACUUUUAGAUAGCAAUUCUCAGUCCUCGAAUGCGGAGUUUGAGAAGAAU
.....(((((...((((..((((((.(((.((((((((..(((...))).(((((...)))))))))))))......(((.......)))..))))).))))..)))).)))))...... ( -34.80)
>DroVir_CAF1 36752 115 - 1
AACAAUUCGAUGAGCUCGACCAGUGCGGCUGCUGUUGCGGCCGCUUCGAAUGCCGCCAAUGCGGCGGCGGCGCUGCUCGAUAGCAAUUCGCAAUCGUCGAAUGCGGACUUUGAGA-----
....(((((((((..((((.((((((((((((....))))))........(((((((.....))))))))))))).))))..((.....))..))))))))).............----- ( -52.70)
>DroPse_CAF1 37980 120 - 1
CAGAAUUCCAUGUCCUCGUCGAGUGCGGCUGUGGCUGUGGUGGCCUCGAAUGCUGCCUCCGCAGCGGCUGCCCUGCUGGACAGUAAUUCGCAGUCGUCAAACACGGAAUUCGAGAAGAAU
..(((((((.(((....(.(((.((((((.((.(((((((.(((..........))).))))))).)).))).((((....))))....))).))).)..))).)))))))......... ( -49.80)
>DroWil_CAF1 39756 120 - 1
AAUAAUUCCAUGUCUUCGACAAGUGCCGCAGUAGCGGCUGUUGCCUCCAAUGCUGCCUCAGCAGCAGCAGCCCUCUUGGAUAGUAAUUCACAAUCAUCAAAUACGGAAUUUGAAAAGAAU
............((((...(((((.((((((.((.(((((((((......(((((...)))))))))))))))).)))(((.((.....)).)))........))).)))))..)))).. ( -32.50)
>DroAna_CAF1 37294 120 - 1
AACAACUCCAUGUCCUCCAACUCGGCAGCUGUGGCGGCGGUCGCUUCCAAUGCCUCUGCUGCUGCAGCCGCUCUGCUGGACAGCAACUCGCAGUCCUCGAAUGCCGAGUUCGAGAAGAAU
..............(((.(((((((((((((..(((((((..((.......))..)))))))..)))).........((((.((.....)).)))).....))))))))).)))...... ( -53.30)
>DroPer_CAF1 38397 120 - 1
CAGAAUUCCAUGUCCUCGUCGAGUGCGGCUGUGGCUGUGGUGGCCUCGAAUGCUGCCUCUGCAGCGGCUGCCCUGCUGGACAGCAAUUCGCAGUCAUCAAACACGGAAUUCGAGAAGAAU
..(((((((........((((....)))).(((....(((((((..((((((((((....))))).((((.((....)).)))).)))))..)))))))..))))))))))......... ( -47.60)
>consensus
AACAAUUCCAUGUCCUCGACCAGUGCGGCUGUGGCUGCGGUGGCCUCCAAUGCUGCCUCUGCAGCAGCAGCCCUGCUGGACAGCAAUUCGCAGUCAUCAAAUACGGAAUUCGAGAAGAAU
...(((((..(((((.........(((((....))))).(((((......((((((....)))))))))))......)))))((.....))..............))))).......... (-24.13 = -23.42 +  -0.72)

alignment

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secondary structure

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dotplot

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Window 7

Location 239,341 – 239,440
Length 99
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 71.37
Mean single sequence MFE -42.70
Consensus MFE -22.44
Energy contribution -24.03
Covariance contribution 1.59
Combinations/Pair 1.60
Mean z-score -2.60
Structure conservation index 0.53
SVM decision value 2.66
SVM RNA-class probability 0.996186
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 239341 99 - 22407834
AGAUGUUG---GUCUUUUUGAUAACAACUCGAUGUCUUCAAAUUCAGCGGCAGUUGCUGCCGUGGCCUCCAAUGCAGCUUCUGCAGCAGCAGCACUUUUAGA
...(((((---.....(((((..(((......)))..)))))....((.((((..(((((..(((...)))..)))))..)))).))..)))))........ ( -29.90)
>DroPse_CAF1 38020 102 - 1
GGAUGUGGGGGGCCUGUUCGAUCAGAAUUCCAUGUCCUCGUCGAGUGCGGCUGUGGCUGUGGUGGCCUCGAAUGCUGCCUCCGCAGCGGCUGCCCUGCUGGA
((((((((((...(((......)))..))))))))))...((.((((.(((.((.(((((((.(((..........))).))))))).)).))).)))).)) ( -47.40)
>DroGri_CAF1 37740 102 - 1
CGAUGUGGGCGGACUAUUCGAUAACAAUUCGAUGAGUUCGACGAGUGCUGCUGCAGUUGCAGCUGCCUCAAGUGCUGCAUCCGCAGCAGCAGCGUUGCUCGA
.....((((((((((..((((.......))))..)))))((((..(((((((((.(.((((((..........)))))).).))))))))).))))))))). ( -47.80)
>DroMoj_CAF1 35312 99 - 1
GGAUGUUGG---UCUCUUCGACAACAAUUCAAUGAGCUCGACAAGCGCUGCUGCCGUUGCAGCUGCCUCAAAUGCGGCCAAUGCAGCGGCAGCACUGCUCGA
...(((((.---.(((...((.......))...)))..)))))((((.((((((((((((((((((.......)))))...))))))))))))).))))... ( -44.10)
>DroAna_CAF1 37334 99 - 1
GGAUGUUG---GACUCUUCGACAACAACUCCAUGUCCUCCAACUCGGCAGCUGUGGCGGCGGUCGCUUCCAAUGCCUCUGCUGCUGCAGCCGCUCUGCUGGA
((((((((---..........)))))..)))......((((.(..(((.((((..(((((((..((.......))..)))))))..)))).)))..).)))) ( -42.40)
>DroPer_CAF1 38437 102 - 1
GGAUGUGGGGGGCCUGUUCGAUCAGAAUUCCAUGUCCUCGUCGAGUGCGGCUGUGGCUGUGGUGGCCUCGAAUGCUGCCUCUGCAGCGGCUGCCCUGCUGGA
((((((((((...(((......)))..))))))))))...((.((((.(((.((.((((..(.(((..........))).)..)))).)).))).)))).)) ( -44.60)
>consensus
GGAUGUGGG__GACUCUUCGAUAACAAUUCCAUGUCCUCGACGAGUGCGGCUGUGGCUGCGGUGGCCUCAAAUGCUGCCUCUGCAGCAGCAGCACUGCUGGA
(((((((((...................)))))))))....((((((.(((.((.(((((((.(((..........))).))))))).)).))).)))))). (-22.44 = -24.03 +   1.59)

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 09:24:48 2006