Locus 7039

Sequence ID 2L_DroMel_CAF1
Location 19,683,153 – 19,683,264
Length 111
Max. P 0.992640
window11229 window11230 window11231

overview

Window 9

Location 19,683,153 – 19,683,243
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 87.19
Mean single sequence MFE -15.15
Consensus MFE -12.74
Energy contribution -13.14
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.84
SVM decision value 2.34
SVM RNA-class probability 0.992640
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19683153 90 + 22407834
ACAAAAGACGAAAAAAAGAAACAUUUUGAUGUCGGGUAUAUACAAAAAAAAAAAAAAAACCAUGGCGUGAAAAUGCGCCUUUUGAAUUGG
.((((((.((...........((((((.(((((((((.....................))).)))))).)))))))).))))))...... ( -17.00)
>DroSec_CAF1 104931 80 + 1
ACAAAAGACGAAAAAAAGAAACAUUUUGAUGUCGGGGAUACA--A-------AA-AAAAGCAUGGCGUGAAAAUGCGCCUUUUGAAUGGG
.(((((((((...((((......))))..)))).........--.-------..-........(((((......))))))))))...... ( -14.00)
>DroSim_CAF1 84230 81 + 1
ACAAAAGACGAAAAAAAGAAACAUUUUGAUGUCGGGGAUACA--A-------AAAAAAAGCAUGGCGUGAAAAUGCGCCUUUUGAAUUGG
.(((((((((...((((......))))..)))).........--.-------...........(((((......))))))))))...... ( -14.00)
>DroEre_CAF1 81111 79 + 1
ACAAAAGACGAAAAAAAGAAACAUUUUGAUGUCGGAGAUAUA--A-------AA--AAACCAUGGCGUGAAAACGCGCCUUUUGAAACGG
.(((((((((...((((......))))..)))).........--.-------..--.......((((((....)))))))))))...... ( -15.60)
>DroYak_CAF1 80455 79 + 1
ACAAAAGACGAAA-AAAGAAACAUUUUGAUGUCGGAUGAAUA--A-------AA-AAAAACAUGGCGUGAAAACGCGCCUUUUCAAACGG
......((((..(-(((......))))..))))(..((((..--.-------..-........((((((....))))))..))))..).. ( -15.16)
>consensus
ACAAAAGACGAAAAAAAGAAACAUUUUGAUGUCGGGGAUAUA__A_______AA_AAAACCAUGGCGUGAAAAUGCGCCUUUUGAAUCGG
.(((((((((...((((......))))..))))..............................(((((......))))))))))...... (-12.74 = -13.14 +   0.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,683,153 – 19,683,243
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 87.19
Mean single sequence MFE -12.06
Consensus MFE -9.94
Energy contribution -10.14
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.82
SVM decision value 0.55
SVM RNA-class probability 0.776679
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19683153 90 - 22407834
CCAAUUCAAAAGGCGCAUUUUCACGCCAUGGUUUUUUUUUUUUUUUUGUAUAUACCCGACAUCAAAAUGUUUCUUUUUUUCGUCUUUUGU
......(((((((((..............(((.....................))).(((((....))))).........))))))))). ( -10.90)
>DroSec_CAF1 104931 80 - 1
CCCAUUCAAAAGGCGCAUUUUCACGCCAUGCUUUU-UU-------U--UGUAUCCCCGACAUCAAAAUGUUUCUUUUUUUCGUCUUUUGU
......(((((((((............((((....-..-------.--.))))....(((((....))))).........))))))))). ( -12.00)
>DroSim_CAF1 84230 81 - 1
CCAAUUCAAAAGGCGCAUUUUCACGCCAUGCUUUUUUU-------U--UGUAUCCCCGACAUCAAAAUGUUUCUUUUUUUCGUCUUUUGU
......((((((((((((.........)))).......-------.--.........(((((....)))))..........)))))))). ( -12.00)
>DroEre_CAF1 81111 79 - 1
CCGUUUCAAAAGGCGCGUUUUCACGCCAUGGUUU--UU-------U--UAUAUCUCCGACAUCAAAAUGUUUCUUUUUUUCGUCUUUUGU
......((((((((((((....))))........--..-------.--.........(((((....)))))..........)))))))). ( -13.80)
>DroYak_CAF1 80455 79 - 1
CCGUUUGAAAAGGCGCGUUUUCACGCCAUGUUUUU-UU-------U--UAUUCAUCCGACAUCAAAAUGUUUCUUU-UUUCGUCUUUUGU
.......(((((((((((....)))).........-..-------.--.........(((((....))))).....-....))))))).. ( -11.60)
>consensus
CCAAUUCAAAAGGCGCAUUUUCACGCCAUGCUUUU_UU_______U__UAUAUCCCCGACAUCAAAAUGUUUCUUUUUUUCGUCUUUUGU
......((((((((((........))...............................(((((....)))))..........)))))))). ( -9.94 = -10.14 +   0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,683,167 – 19,683,264
Length 97
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 82.10
Mean single sequence MFE -19.28
Consensus MFE -11.62
Energy contribution -13.90
Covariance contribution 2.28
Combinations/Pair 1.06
Mean z-score -2.12
Structure conservation index 0.60
SVM decision value 0.18
SVM RNA-class probability 0.622451
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19683167 97 + 22407834
AAAGAAACAUUUUGAUGUCGGGUAUAUACAAAAAAAAAAAAAAAACCAUGGCGUGAAAAUGCGCCUUUUGAAUUGGACUCGAUAAGGCAA-A-ACCUGA
.......((((((.(((((((((.....................))).)))))).)))))).(((((((((.......)))).)))))..-.-...... ( -20.90)
>DroSec_CAF1 104945 87 + 1
AAAGAAACAUUUUGAUGUCGGGGAUACA--A-------AA-AAAAGCAUGGCGUGAAAAUGCGCCUUUUGAAUGGGACUCGAUAAGGCAA-A-ACCUGA
.................(((((......--.-------..-.........((((....))))(((((((((.......)))).)))))..-.-.))))) ( -19.80)
>DroSim_CAF1 84244 88 + 1
AAAGAAACAUUUUGAUGUCGGGGAUACA--A-------AAAAAAAGCAUGGCGUGAAAAUGCGCCUUUUGAAUUGGACUCGAUAAGGCAA-A-ACCUGA
.................(((((......--.-------............((((....))))(((((((((.......)))).)))))..-.-.))))) ( -19.80)
>DroEre_CAF1 81125 86 + 1
AAAGAAACAUUUUGAUGUCGGAGAUAUA--A-------AA--AAACCAUGGCGUGAAAACGCGCCUUUUGAAACGGACUCGAUAAGGCAA-A-ACCUGA
.................((((.......--.-------..--........((((....))))(((((((((.......)))).)))))..-.-..)))) ( -17.90)
>DroYak_CAF1 80468 88 + 1
AAAGAAACAUUUUGAUGUCGGAUGAAUA--A-------AA-AAAAACAUGGCGUGAAAACGCGCCUUUUCAAACGGAGUCGAUAAGGCAAAA-ACCUGA
...........(((((..((..((((..--.-------..-........((((((....))))))..))))..))..)))))..(((.....-.))).. ( -19.26)
>DroAna_CAF1 82060 78 + 1
AAGGAAACGCUUUGAA----------UG--G-------GC-AAAAGCACGGCGUGAAAAUGCGCCUUUUGAAAUGGACUCGAUAAAGCAA-ACACCUGA
..(....)((((((..----------((--(-------((-.....((.(((((......)))))...)).....).)))).))))))..-........ ( -18.00)
>consensus
AAAGAAACAUUUUGAUGUCGGGGAUAUA__A_______AA_AAAAGCAUGGCGUGAAAAUGCGCCUUUUGAAAUGGACUCGAUAAGGCAA_A_ACCUGA
.................((((.............................((((....))))(((((((((.......)))).))))).......)))) (-11.62 = -13.90 +   2.28)

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 12:25:55 2006