Locus 5915

Sequence ID X_DroMel_CAF1
Location 15,245,111 – 15,245,239
Length 128
Max. P 0.998091
window9600 window9601 window9602 window9603

overview

Window 0

Location 15,245,111 – 15,245,209
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 79.89
Mean single sequence MFE -26.46
Consensus MFE -18.96
Energy contribution -19.74
Covariance contribution 0.78
Combinations/Pair 1.14
Mean z-score -3.12
Structure conservation index 0.72
SVM decision value 3.00
SVM RNA-class probability 0.998091
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15245111 98 + 22224390
UGUACAUGGGUAUAUAUGUAUGUAUAUAGAUAUCUCUAUGCCGACACCCAAGUUGAGGUGCCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAU
......(((((......((..(((((.((....)).)))))..)))))))(((((((((((((((...........)))).)))))))))))...... ( -26.40)
>DroSec_CAF1 65381 96 + 1
UGUGCAUGGGUAUAUAUGUAUGUACAUAGAUC--UCUAUGCCGACACCCAAGUUGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAU
.(.((((((..((.(((((....))))).)).--.)))))))(((((((.....).)))))).........(((((((((.....))))))))).... ( -30.40)
>DroSim_CAF1 74218 96 + 1
CGUGCAUGGGUAUAUAUGUAUGUAUAUAGAUA--UCUAUGCCGACACCCAAGUUGAGGUGCCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAU
((.((((((((((.(((((....))))).)))--))))))))).......(((((((((((((((...........)))).)))))))))))...... ( -32.80)
>DroEre_CAF1 66123 74 + 1
----UAUACAUAG------------------C--UCUAUGCCGACACCCAAGCGGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAU
----....((((.------------------.--..))))..((((((........)))))).........(((((((((.....))))))))).... ( -19.30)
>DroYak_CAF1 65830 78 + 1
UGUGUAUAGGUAU------------------A--UCUAUGCUGACACCCAAGUCGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAU
...(((((((...------------------.--))))))).((((((........)))))).........(((((((((.....))))))))).... ( -23.40)
>consensus
UGUGCAUGGGUAUAUAUGUAUGUA_AUAGAUA__UCUAUGCCGACACCCAAGUUGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAU
...(((((((....(((((....)))))......))))))).(((((((.....).)))))).........(((((((((.....))))))))).... (-18.96 = -19.74 +   0.78)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,245,111 – 15,245,209
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 79.89
Mean single sequence MFE -22.00
Consensus MFE -18.64
Energy contribution -18.40
Covariance contribution -0.24
Combinations/Pair 1.06
Mean z-score -1.68
Structure conservation index 0.85
SVM decision value 0.82
SVM RNA-class probability 0.858474
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15245111 98 - 22224390
AUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGGCACCUCAACUUGGGUGUCGGCAUAGAGAUAUCUAUAUACAUACAUAUAUACCCAUGUACA
....((.(((((....(((......))).)))))..(((((((......))))))).))(((((....))))).....(((((........))))).. ( -22.60)
>DroSec_CAF1 65381 96 - 1
AUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCAACUUGGGUGUCGGCAUAGA--GAUCUAUGUACAUACAUAUAUACCCAUGCACA
....((((((((....(((......))).)))))..(((((((......))))))).((((((.--...)))))).................)))... ( -25.40)
>DroSim_CAF1 74218 96 - 1
AUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGGCACCUCAACUUGGGUGUCGGCAUAGA--UAUCUAUAUACAUACAUAUAUACCCAUGCACG
....(((....((((((((......)))....(((.(((((((......)))))))..)))...--)))))(((((......))))).....)))... ( -21.50)
>DroEre_CAF1 66123 74 - 1
AUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCCGCUUGGGUGUCGGCAUAGA--G------------------CUAUGUAUA----
..((((......(((.(((......)))))).(((.(((((((......)))))))..)))...--)------------------)))......---- ( -20.60)
>DroYak_CAF1 65830 78 - 1
AUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCGACUUGGGUGUCAGCAUAGA--U------------------AUACCUAUACACA
....((.(((((....(((......))).)))))..(((((((......))))))).))((((.--.------------------....))))..... ( -19.90)
>consensus
AUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCAACUUGGGUGUCGGCAUAGA__UAUCUAU_UACAUACAUAUAUACCCAUGCACA
....((.(((((....(((......))).)))))..(((((((......))))))).))....................................... (-18.64 = -18.40 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,245,143 – 15,245,239
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 95.68
Mean single sequence MFE -24.27
Consensus MFE -20.24
Energy contribution -20.32
Covariance contribution 0.08
Combinations/Pair 1.11
Mean z-score -2.45
Structure conservation index 0.83
SVM decision value 2.22
SVM RNA-class probability 0.990480
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15245143 96 + 22224390
UCUCUAUGCCGACACCCAAGUUGAGGUGCCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAUUAUGCAAAUUCAACCCGAAACAGGGCCAAA
......(((.........(((((((((((((((...........)))).))))))))))).........))).......(((......)))..... ( -23.97)
>DroSec_CAF1 65413 94 + 1
--UCUAUGCCGACACCCAAGUUGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAUUAUGCAAAUUCAACACGAAACAGGGCCAAA
--.....((((((((((.....).)))))).........(((((((((.....)))))))))...........................))).... ( -23.20)
>DroSim_CAF1 74250 94 + 1
--UCUAUGCCGACACCCAAGUUGAGGUGCCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAUUAUGCAAAUUCAACCCGAAACAGGGCCAAA
--....(((.........(((((((((((((((...........)))).))))))))))).........))).......(((......)))..... ( -23.97)
>DroEre_CAF1 66133 94 + 1
--UCUAUGCCGACACCCAAGCGGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAUUAUGCAAAUUCAACCCGAAACAGGGUCAAA
--....(((.((((((........)))))).........(((((((((.....))))))))).......)))......((((......)))).... ( -26.10)
>DroYak_CAF1 65844 94 + 1
--UCUAUGCUGACACCCAAGUCGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAUUAUGCAAAUUCAAGCCGAAACAGGGCCAAA
--....(((.((((((........)))))).........(((((((((.....))))))))).......))).......(((.......))).... ( -24.10)
>consensus
__UCUAUGCCGACACCCAAGUUGAGGUGUCUCAUCAAUCGCAAUUGAGCGCAUCUUAAUUGCUAAUUAUGCAAAUUCAACCCGAAACAGGGCCAAA
.......((((((((((.....).)))))).........(((((((((.....)))))))))...........................))).... (-20.24 = -20.32 +   0.08)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,245,143 – 15,245,239
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 95.68
Mean single sequence MFE -27.44
Consensus MFE -26.96
Energy contribution -26.96
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -1.55
Structure conservation index 0.98
SVM decision value 2.12
SVM RNA-class probability 0.988322
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15245143 96 - 22224390
UUUGGCCCUGUUUCGGGUUGAAUUUGCAUAAUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGGCACCUCAACUUGGGUGUCGGCAUAGAGA
((..((((......))))..))..(((.(((((.((((((.((.....)).)))))))))))....(((((((......))))))).)))...... ( -29.10)
>DroSec_CAF1 65413 94 - 1
UUUGGCCCUGUUUCGUGUUGAAUUUGCAUAAUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCAACUUGGGUGUCGGCAUAGA--
....(((.....(((((((((...(((((....(....)....))))).)))).))))).......(((((((......)))))))))).....-- ( -25.00)
>DroSim_CAF1 74250 94 - 1
UUUGGCCCUGUUUCGGGUUGAAUUUGCAUAAUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGGCACCUCAACUUGGGUGUCGGCAUAGA--
((..((((......))))..))..(((.(((((.((((((.((.....)).)))))))))))....(((((((......))))))).)))....-- ( -29.10)
>DroEre_CAF1 66133 94 - 1
UUUGACCCUGUUUCGGGUUGAAUUUGCAUAAUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCCGCUUGGGUGUCGGCAUAGA--
((..((((......))))..))..(((.(((((.((((((.((.....)).)))))))))))....(((((((......))))))).)))....-- ( -29.40)
>DroYak_CAF1 65844 94 - 1
UUUGGCCCUGUUUCGGCUUGAAUUUGCAUAAUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCGACUUGGGUGUCAGCAUAGA--
((.((((.......)))).))...(((.(((((.((((((.((.....)).)))))))))))....(((((((......))))))).)))....-- ( -24.60)
>consensus
UUUGGCCCUGUUUCGGGUUGAAUUUGCAUAAUUAGCAAUUAAGAUGCGCUCAAUUGCGAUUGAUGAGACACCUCAACUUGGGUGUCGGCAUAGA__
((..((((......))))..))..(((.(((((.((((((.((.....)).)))))))))))....(((((((......))))))).)))...... (-26.96 = -26.96 +   0.00)

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 11:59:32 2006