Locus 4412

Sequence ID 2R_DroMel_CAF1
Location 14,509,380 – 14,509,475
Length 95
Max. P 0.622549
window7053 window7054

overview

Window 3

Location 14,509,380 – 14,509,475
Length 95
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 81.57
Mean single sequence MFE -27.98
Consensus MFE -20.65
Energy contribution -20.77
Covariance contribution 0.11
Combinations/Pair 1.19
Mean z-score -1.33
Structure conservation index 0.74
SVM decision value 0.10
SVM RNA-class probability 0.583205
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14509380 95 + 20766785
GUGUAUCUGUGUGCCGCGCUACUUAUA--------------GAGCGCCUCAGUCUGCGUGUAUUUAUAAAUUUUGUU-UUGGCUUUUGGCCAGCGCCACGCAAAUAAUUG
...(((.((((((..(((((..(((((--------------((((((........))))...)))))))........-..(((.....)))))))))))))).))).... ( -26.70)
>DroPse_CAF1 138874 109 + 1
-GAUAUCCGUGUACUGCGCUACUUAUAGUCUCCGCAGAUUCGAACGUCUCUGUCUGCGUGUAUUUAUAAAUUCUGUUUUUGGCUCUCAGCCAGCGCCACGCAAAUAAUUG
-.......((((...(((((..((((((...((((((((..((.....)).))))))).)...))))))...........(((.....)))))))).))))......... ( -28.80)
>DroEre_CAF1 146935 95 + 1
GUGUAUCUGUGUGCCGUGCUACUUAUA--------------GAGCGCCUCAGUCUGCGUGUAUUUAUAAAUUUUGUU-UUGGCUUUUGGCCAGCGCCACGCAAAUAAUUG
...(((.((((((..(((((..(((((--------------((((((........))))...)))))))........-..(((.....)))))))))))))).))).... ( -24.80)
>DroYak_CAF1 145198 95 + 1
GUGUAUCUGUGUGCCGCGCUACUUAUA--------------GAGCGCCUCAGUCUGCGUGUAUUUAUAAAUUUGGUU-UUGGCUUUUGGCCAGCGCCACGCAAAUAAUUG
...(((.((((((.(((((((.(((((--------------((((((........))))...)))))))...)))).-.((((.....))))))).)))))).))).... ( -26.90)
>DroAna_CAF1 155450 109 + 1
GGGUAUAUGUGUGGUGGGCUACUUAUAGUCUCAGAAGCGGAGAACGCCUGUGUCUGCGUGUAUUUAUAAAUUCUGUU-UUGGCUUUCAGCCAGUGCCACGCAAAUAAUUG
...(((.((((((((.((((......((((.((((((((((..((....)).)))))(((....)))...)))))..-..))))...))))...)))))))).))).... ( -31.90)
>DroPer_CAF1 141076 109 + 1
-GAUAUCCGUGUACUGCGCUACUUAUAGUCUCCGCAGAUUCGAACGUCUCUGUCUGCGUGUAUUUAUAAAUUCAGUUUUUGGCUCUCAGCCAGCGCCACGCAAAUAAUUG
-.......((((...(((((..((((((...((((((((..((.....)).))))))).)...))))))...........(((.....)))))))).))))......... ( -28.80)
>consensus
GGGUAUCUGUGUGCCGCGCUACUUAUA______________GAACGCCUCAGUCUGCGUGUAUUUAUAAAUUCUGUU_UUGGCUUUCAGCCAGCGCCACGCAAAUAAUUG
...(((.((((((..(((((.......................((((........)))).....................(((.....)))))))))))))).))).... (-20.65 = -20.77 +   0.11)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,509,380 – 14,509,475
Length 95
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 81.57
Mean single sequence MFE -25.13
Consensus MFE -16.78
Energy contribution -16.92
Covariance contribution 0.14
Combinations/Pair 1.11
Mean z-score -1.62
Structure conservation index 0.67
SVM decision value 0.18
SVM RNA-class probability 0.622549
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14509380 95 - 20766785
CAAUUAUUUGCGUGGCGCUGGCCAAAAGCCAA-AACAAAAUUUAUAAAUACACGCAGACUGAGGCGCUC--------------UAUAAGUAGCGCGGCACACAGAUACAC
....((((((.(((.(((((((.....)))).-......(((((((......(((........)))...--------------)))))))...))).))).))))))... ( -24.80)
>DroPse_CAF1 138874 109 - 1
CAAUUAUUUGCGUGGCGCUGGCUGAGAGCCAAAAACAGAAUUUAUAAAUACACGCAGACAGAGACGUUCGAAUCUGCGGAGACUAUAAGUAGCGCAGUACACGGAUAUC-
....((((((.(((((((((((.....))).........(((((((......((((((..(((...)))...)))))).....))))))))))))..))).))))))..- ( -29.50)
>DroEre_CAF1 146935 95 - 1
CAAUUAUUUGCGUGGCGCUGGCCAAAAGCCAA-AACAAAAUUUAUAAAUACACGCAGACUGAGGCGCUC--------------UAUAAGUAGCACGGCACACAGAUACAC
....((((((.(((.((.((((.....)))).-......(((((((......(((........)))...--------------)))))))....)).))).))))))... ( -20.80)
>DroYak_CAF1 145198 95 - 1
CAAUUAUUUGCGUGGCGCUGGCCAAAAGCCAA-AACCAAAUUUAUAAAUACACGCAGACUGAGGCGCUC--------------UAUAAGUAGCGCGGCACACAGAUACAC
....((((((.(((.(((((((.....)))).-......(((((((......(((........)))...--------------)))))))...))).))).))))))... ( -24.80)
>DroAna_CAF1 155450 109 - 1
CAAUUAUUUGCGUGGCACUGGCUGAAAGCCAA-AACAGAAUUUAUAAAUACACGCAGACACAGGCGUUCUCCGCUUCUGAGACUAUAAGUAGCCCACCACACAUAUACCC
....(((.((.((((...((((.....)))).-......(((((((.....((((........))))((((.......)))).)))))))......)))).)).)))... ( -21.40)
>DroPer_CAF1 141076 109 - 1
CAAUUAUUUGCGUGGCGCUGGCUGAGAGCCAAAAACUGAAUUUAUAAAUACACGCAGACAGAGACGUUCGAAUCUGCGGAGACUAUAAGUAGCGCAGUACACGGAUAUC-
....((((((.(((((((((((.....))).........(((((((......((((((..(((...)))...)))))).....))))))))))))..))).))))))..- ( -29.50)
>consensus
CAAUUAUUUGCGUGGCGCUGGCCAAAAGCCAA_AACAAAAUUUAUAAAUACACGCAGACAGAGGCGCUC______________UAUAAGUAGCGCAGCACACAGAUACAC
....((((((.(((((((((((.....))).........(((((((..............(((...)))..............))))))))))))..))).))))))... (-16.78 = -16.92 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:00 2006