Locus 2607

Sequence ID 2R_DroMel_CAF1
Location 9,187,065 – 9,187,220
Length 155
Max. P 0.997542
window4295 window4296 window4297

overview

Window 5

Location 9,187,065 – 9,187,180
Length 115
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 79.71
Mean single sequence MFE -34.96
Consensus MFE -22.77
Energy contribution -22.58
Covariance contribution -0.19
Combinations/Pair 1.33
Mean z-score -1.62
Structure conservation index 0.65
SVM decision value 0.43
SVM RNA-class probability 0.733118
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9187065 115 + 20766785
CCAUCAACGAUUACCUCAGUGUGUUCUGGCUCCAUCCCUUGAAUUCUUGUAACCCUUUCGGCAAACGGUGCUACAAAAGGGACGAUUUCUGCAGGGGUUCGUCCUUUUUGUAUCC
.......(((......(((.(.((((.((.......))..)))).))))........)))(((.....)))(((((((((((((((..(....)..).))))))))))))))... ( -27.44)
>DroSec_CAF1 71404 115 + 1
CCAUCAACGAUUACCUGGGUGUUUUCUGGCUCCAUCCCUUGAAUUCUUGUAACCCUUUCGGCAAACGGUGCUACAAAAGGGACGAUUUCAGCAUGGGUUCGUCCUUUUUGUAUCC
.......(((......(((((..(((.((.......))..)))..).....))))..)))(((.....)))((((((((((((((.(((.....))).))))))))))))))... ( -29.30)
>DroSim_CAF1 63750 115 + 1
CCAUCAAUGAUUACCUGGGUGUGUUCUGGCUCCAUCCCUUGAAUUCUUGUAACCCUUUCGGCAAACGGUGCUACAAAAGGGACGAUUUCUGCAUGGGUUCGUCCUUUUUGUAUCC
...........((((.((((..((((.((.......))..)))).......))))....(.....))))).((((((((((((((.(((.....))).))))))))))))))... ( -30.10)
>DroEre_CAF1 68097 112 + 1
CCAUCAACGAUUACCUGGGUGUGUACUGGCUCCAUCGCAUCACU---UCUAGCCCUUUCGGCAAACGGGGCUACAAAAGGGACGAUCUCUGCAGGGGUUCGUCCUUUUUGUAUCC
.............((((((((((...((....)).))))))...---....(((.....)))...))))..((((((((((((((((((....)))).))))))))))))))... ( -39.70)
>DroYak_CAF1 62906 115 + 1
CCAUCAAUGAUUACCUGGGUGUGUACUGGCUCCAACGCAUAACUUCUUCUAGCCCUUUCGGCAAACGCGGUUACAAAAGGGACGAUCUCUGCAGGGUGUCGUCCUCUUUGUAUCC
(((............)))((((((..((....))))))))...........(((.....)))......((.((((((..((((((((((....))).)))))))..)))))).)) ( -32.30)
>DroAna_CAF1 69040 115 + 1
GUAUUAACGGCAACCUGAGGGUUUACUGGCUCGACGCGAUGUUCUCGUCGACCACAUUUAGCAGGAGAGGCUACACCAGGGACGAAUCAGGUAGAUAUUCGUCCUUGGUGUGGCC
.............((((..((.....(((.((((((.(.....).)))))))))...))..))))...(((((((((((((((((((.........))))))))))))))))))) ( -50.90)
>consensus
CCAUCAACGAUUACCUGGGUGUGUACUGGCUCCAUCCCAUGAAUUCUUCUAACCCUUUCGGCAAACGGGGCUACAAAAGGGACGAUUUCUGCAGGGGUUCGUCCUUUUUGUAUCC
.......((.((.((.((((...............................))))....)).)).))....((((((((((((((.(((.....))).))))))))))))))... (-22.77 = -22.58 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 6

Location 9,187,101 – 9,187,220
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 74.48
Mean single sequence MFE -46.57
Consensus MFE -29.91
Energy contribution -30.58
Covariance contribution 0.68
Combinations/Pair 1.38
Mean z-score -4.54
Structure conservation index 0.64
SVM decision value 2.39
SVM RNA-class probability 0.993353
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9187101 119 + 20766785
CCUUGAAUUCUUGUAACCCUUUCGGCAAACGGUGCUACAAAAGGGACGAUUUCUGCAGGGGUUCGUCCUUUUUGUAUCCCUUUACUGAAAUGGUUACGAGAAAUUUCAAAGAUGAGCGC
..((((((((((((((((.((((((.(((.((.(.(((((((((((((((..(....)..).)))))))))))))).)))))).)))))).)))))))))))..))))).......... ( -49.10)
>DroSec_CAF1 71440 117 + 1
CCUUGAAUUCUUGUAACCCUUUCGGCAAACGGUGCUACAAAAGGGACGAUUUCAGCAUGGGUUCGUCCUUUUUGUAUCCCUUUACUGAAAUGGGUAGGAGGAAUUUUAAAGAUGGA--G
.(((((((((((.(.((((((((((.(((.((.(.((((((((((((((.(((.....))).)))))))))))))).)))))).)))))).)))).).))))))))..))).....--. ( -44.30)
>DroSim_CAF1 63786 117 + 1
CCUUGAAUUCUUGUAACCCUUUCGGCAAACGGUGCUACAAAAGGGACGAUUUCUGCAUGGGUUCGUCCUUUUUGUAUCCCUUUACUGAAAUGGGUAGGAGAAAUUUUGAAGAUGGA--A
.(((.(((((((.((.(((((((((.(((.((.(.((((((((((((((.(((.....))).)))))))))))))).)))))).)))))).))))).)))))...)).))).....--. ( -42.00)
>DroEre_CAF1 68133 116 + 1
GCAUCACU---UCUAGCCCUUUCGGCAAACGGGGCUACAAAAGGGACGAUCUCUGCAGGGGUUCGUCCUUUUUGUAUCCCUUUACUGAAAUUGGUGGAAGGAAUUGCACAGAUGACCGC
(((...((---((((.(..((((((.(((.((((.((((((((((((((((((....)))).))))))))))))))))))))).))))))..).))))))....)))............ ( -48.20)
>DroYak_CAF1 62942 119 + 1
GCAUAACUUCUUCUAGCCCUUUCGGCAAACGCGGUUACAAAAGGGACGAUCUCUGCAGGGUGUCGUCCUCUUUGUAUCCCUUUACCGAAAUUUGUAAAAGGAAUUCCUUAGAUGAGCGC
((.................((((((.(((.(.((.((((((..((((((((((....))).)))))))..)))))).)))))).)))))).(..(..((((....))))..)..))).. ( -37.10)
>DroAna_CAF1 69076 119 + 1
CGAUGUUCUCGUCGACCACAUUUAGCAGGAGAGGCUACACCAGGGACGAAUCAGGUAGAUAUUCGUCCUUGGUGUGGCCCUAUGCUACAUUUGGUGGCACGAACUCCGACGACGAGUCU
.......(((((((((((.((.(((((..((.(((((((((((((((((((.........))))))))))))))))))))).))))).)).))))((........))..)))))))... ( -58.70)
>consensus
CCAUGAAUUCUUCUAACCCUUUCGGCAAACGGGGCUACAAAAGGGACGAUUUCUGCAGGGGUUCGUCCUUUUUGUAUCCCUUUACUGAAAUGGGUAGGAGGAAUUUCAAAGAUGAGCGC
.......(((((.((.((.((((((.(((.((...((((((((((((((.(((.....))).)))))))))))))).)).))).)))))).)).)).)))))................. (-29.91 = -30.58 +   0.68)

alignment

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secondary structure

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dotplot

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Window 7

Location 9,187,101 – 9,187,220
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 74.48
Mean single sequence MFE -39.31
Consensus MFE -24.28
Energy contribution -23.95
Covariance contribution -0.33
Combinations/Pair 1.31
Mean z-score -3.45
Structure conservation index 0.62
SVM decision value 2.88
SVM RNA-class probability 0.997542
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9187101 119 - 20766785
GCGCUCAUCUUUGAAAUUUCUCGUAACCAUUUCAGUAAAGGGAUACAAAAAGGACGAACCCCUGCAGAAAUCGUCCCUUUUGUAGCACCGUUUGCCGAAAGGGUUACAAGAAUUCAAGG
........(((((((..((((.((((((.((((.(((((.((.(((((((.((((((.............)))))).)))))))...)).))))).)))).)))))).))))))))))) ( -42.92)
>DroSec_CAF1 71440 117 - 1
C--UCCAUCUUUAAAAUUCCUCCUACCCAUUUCAGUAAAGGGAUACAAAAAGGACGAACCCAUGCUGAAAUCGUCCCUUUUGUAGCACCGUUUGCCGAAAGGGUUACAAGAAUUCAAGG
.--.....(((...(((((.....((((.((((.(((((.((.(((((((.((((((.............)))))).)))))))...)).))))).)))))))).....))))).))). ( -34.72)
>DroSim_CAF1 63786 117 - 1
U--UCCAUCUUCAAAAUUUCUCCUACCCAUUUCAGUAAAGGGAUACAAAAAGGACGAACCCAUGCAGAAAUCGUCCCUUUUGUAGCACCGUUUGCCGAAAGGGUUACAAGAAUUCAAGG
.--..............((((...((((.((((.(((((.((.(((((((.((((((.............)))))).)))))))...)).))))).))))))))....))))....... ( -33.92)
>DroEre_CAF1 68133 116 - 1
GCGGUCAUCUGUGCAAUUCCUUCCACCAAUUUCAGUAAAGGGAUACAAAAAGGACGAACCCCUGCAGAGAUCGUCCCUUUUGUAGCCCCGUUUGCCGAAAGGGCUAGA---AGUGAUGC
((((....))))(((.(..((((..((..((((.((((((((.(((((((.((((((.((......).).)))))).)))))))..))).))))).)))).))...))---))..)))) ( -36.20)
>DroYak_CAF1 62942 119 - 1
GCGCUCAUCUAAGGAAUUCCUUUUACAAAUUUCGGUAAAGGGAUACAAAGAGGACGACACCCUGCAGAGAUCGUCCCUUUUGUAACCGCGUUUGCCGAAAGGGCUAGAAGAAGUUAUGC
..((((....((((....)))).......(((((((((((((.(((((((.(((((((.(......).).)))))).))))))).)).).))))))))))))))............... ( -37.40)
>DroAna_CAF1 69076 119 - 1
AGACUCGUCGUCGGAGUUCGUGCCACCAAAUGUAGCAUAGGGCCACACCAAGGACGAAUAUCUACCUGAUUCGUCCCUGGUGUAGCCUCUCCUGCUAAAUGUGGUCGACGAGAACAUCG
...(((((((..((........))((((....(((((.(((((.((((((.((((((((.........)))))))).)))))).))).))..)))))....)))))))))))....... ( -50.70)
>consensus
GCGCUCAUCUUUGAAAUUCCUCCUACCAAUUUCAGUAAAGGGAUACAAAAAGGACGAACCCCUGCAGAAAUCGUCCCUUUUGUAGCACCGUUUGCCGAAAGGGUUACAAGAAUUCAAGG
..........................((.((((.(((((.((.(((((((.((((((.............)))))).)))))))...)).))))).)))).))................ (-24.28 = -23.95 +  -0.33)

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 10:34:21 2006