Locus 5645

Sequence ID X_DroMel_CAF1
Location 14,583,635 – 14,583,813
Length 178
Max. P 0.991949
window9168 window9169 window9170 window9171

overview

Window 8

Location 14,583,635 – 14,583,735
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.38
Mean single sequence MFE -33.58
Consensus MFE -19.25
Energy contribution -21.33
Covariance contribution 2.08
Combinations/Pair 1.11
Mean z-score -2.48
Structure conservation index 0.57
SVM decision value 2.30
SVM RNA-class probability 0.991949
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14583635 100 + 22224390
UGUACUUUGUA----AAUUUCGAUUAUUCCAAGAUCCAAUGUUGCU----------------GGAUGCUGGUCGUGUUGCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCG
...........----......(((....(((..(((((.......)----------------))))..)))....)))((((((((.((((.(((((....))))).)))))))))))). ( -35.00)
>DroSec_CAF1 58949 96 + 1
----CGUUAUA----AACUUCGAUUAUUCCAAAAUCCAAUGUUGCU----------------GGAUGCUGGUCGUGUUGCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCG
----.......----(((..(((.....(((..(((((.......)----------------))))..)))))).)))((((((((.((((.(((((....))))).)))))))))))). ( -36.50)
>DroSim_CAF1 59002 96 + 1
----CGUUAUA----AACUUCGAUUAUUCCAAGAUCCAAUGUUGCU----------------GGAUGCUGGUCGUGUUCCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCG
----.......----(((..(((.....(((..(((((.......)----------------))))..)))))).))).(((((((.((((.(((((....))))).))))))))))).. ( -31.10)
>DroEre_CAF1 53823 100 + 1
AGUACAAUGCAAUGCAAUUGGAAUUAUUUCUAGGUCCAAUGUUGCU----------------GGAUGCUGUUCGUGUUGCUGGGAGCAGCCUGCAACAUUUGUUGCUAGCUCUCUC----
........(((((((..((((((....))))))(((((.......)----------------)))).......))))))).(((((.(((..(((((....)))))..))))))))---- ( -32.80)
>DroYak_CAF1 55627 114 + 1
UGUACAAUACAAUGCAUUUGCAAUUGUUUCUGGGUCCAAUGUUGCUGGAUGCUCAUGUUGCUGGAUGCUGUUCGUGUUGCUGGAAGCAGCCUGCAACAUUUGUAGCUGGCUCU--C----
....((..(((((((....)).)))))...))...........((..(.(((..(((((((.((.((((.((((......)))))))).)).)))))))..))).)..))...--.---- ( -32.50)
>consensus
_GUACAUUAUA____AAUUUCGAUUAUUCCAAGAUCCAAUGUUGCU________________GGAUGCUGGUCGUGUUGCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCG
....................((((....(((..((((.........................))))..)))....))))(((((((.((((.(((((....))))).))))))))))).. (-19.25 = -21.33 +   2.08)

alignment

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secondary structure

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Window 9

Location 14,583,635 – 14,583,735
Length 100
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.38
Mean single sequence MFE -27.28
Consensus MFE -10.94
Energy contribution -12.62
Covariance contribution 1.68
Combinations/Pair 1.14
Mean z-score -2.30
Structure conservation index 0.40
SVM decision value 1.53
SVM RNA-class probability 0.961830
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14583635 100 - 22224390
CGCUGAGAGAGCCAGCAACAAAUGUUGCAGACUGCUCCCAGCAACACGACCAGCAUCC----------------AGCAACAUUGGAUCUUGGAAUAAUCGAAAUU----UACAAAGUACA
.((((.(((((.(.(((((....))))).).)).))).))))....(((((((.((((----------------((.....)))))).)))).....))).....----........... ( -28.00)
>DroSec_CAF1 58949 96 - 1
CGCUGAGAGAGCCAGCAACAAAUGUUGCAGACUGCUCCCAGCAACACGACCAGCAUCC----------------AGCAACAUUGGAUUUUGGAAUAAUCGAAGUU----UAUAACG----
.((((.(((((.(.(((((....))))).).)).))).))))....(((((((.((((----------------((.....)))))).)))).....))).....----.......---- ( -28.00)
>DroSim_CAF1 59002 96 - 1
CGCUGAGAGAGCCAGCAACAAAUGUUGCAGACUGCUCCCAGGAACACGACCAGCAUCC----------------AGCAACAUUGGAUCUUGGAAUAAUCGAAGUU----UAUAACG----
..(((.(((((.(.(((((....))))).).)).))).)))((((.(((((((.((((----------------((.....)))))).)))).....)))..)))----)......---- ( -25.20)
>DroEre_CAF1 53823 100 - 1
----GAGAGAGCUAGCAACAAAUGUUGCAGGCUGCUCCCAGCAACACGAACAGCAUCC----------------AGCAACAUUGGACCUAGAAAUAAUUCCAAUUGCAUUGCAUUGUACU
----(.(((((((.(((((....))))).)))).))).)......((((...(((...----------------.(((..((((((..((....))..)))))))))..))).))))... ( -28.30)
>DroYak_CAF1 55627 114 - 1
----G--AGAGCCAGCUACAAAUGUUGCAGGCUGCUUCCAGCAACACGAACAGCAUCCAGCAACAUGAGCAUCCAGCAACAUUGGACCCAGAAACAAUUGCAAAUGCAUUGUAUUGUACA
----.--.......(((....(((((((.((.((((....(.....)....)))).)).))))))).))).(((((.....))))).......(((((.((....)))))))........ ( -26.90)
>consensus
CGCUGAGAGAGCCAGCAACAAAUGUUGCAGACUGCUCCCAGCAACACGACCAGCAUCC________________AGCAACAUUGGAUCUUGGAAUAAUCGAAAUU____UAUAACGUAC_
..((((((...((((((((....))))).((.((((....(.....)....)))))).........................))).))))))............................ (-10.94 = -12.62 +   1.68)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,583,671 – 14,583,775
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.48
Mean single sequence MFE -38.20
Consensus MFE -22.58
Energy contribution -25.30
Covariance contribution 2.72
Combinations/Pair 1.06
Mean z-score -2.92
Structure conservation index 0.59
SVM decision value 1.64
SVM RNA-class probability 0.969165
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14583671 104 + 22224390
GUUGCU----------------GGAUGCUGGUCGUGUUGCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCGCGACUGUCAUCAUGUUGCCUUCGAUUCUCAGAGUGUUGAU
((.((.----------------.((((.(((((((...((((((((.((((.(((((....))))).))))))))))))))))))).))))..)).))..(((((.(.....).))))). ( -41.50)
>DroSec_CAF1 58981 104 + 1
GUUGCU----------------GGAUGCUGGUCGUGUUGCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCGAGACUGGCAUCAUGUUGCCUUCGAUUCUCAGGGUGUUGAU
......----------------.(((((..(((...((((((((((.((((.(((((....))))).)))))))))))))))))..))))).....(((((.(.....))))))...... ( -47.00)
>DroSim_CAF1 59034 104 + 1
GUUGCU----------------GGAUGCUGGUCGUGUUCCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCGAGACUGGCAUCAUGUUGCUGUCGAUUCUCACUGUGUUGAU
((.((.----------------.(((((..(((....(((((((((.((((.(((((....))))).))))))))))).)))))..)))))..)).)).((((((.(.....).)))))) ( -43.10)
>DroEre_CAF1 53863 96 + 1
GUUGCU----------------GGAUGCUGUUCGUGUUGCUGGGAGCAGCCUGCAACAUUUGUUGCUAGCUCUCUC--------UCUCAUCAUGUUGCCUUCGAUUUUCAAAGUGUUGAU
.....(----------------(((.((....((((.((..(((((.(((..(((((....)))))..))))))))--------...)).))))..)).))))....((((....)))). ( -26.80)
>DroYak_CAF1 55667 110 + 1
GUUGCUGGAUGCUCAUGUUGCUGGAUGCUGUUCGUGUUGCUGGAAGCAGCCUGCAACAUUUGUAGCUGGCUCU--C--------UCUCAUCAUGUUGCCUUCGAUUUUCAAUGUGUUGAU
...((..(.(((..(((((((.((.((((.((((......)))))))).)).)))))))..))).)..))...--.--------..(((.(((((((...........))))))).))). ( -32.60)
>consensus
GUUGCU________________GGAUGCUGGUCGUGUUGCUGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCG_GACUGUCAUCAUGUUGCCUUCGAUUCUCAAAGUGUUGAU
.......................((((.(((((......(((((((.((((.(((((....))))).)))))))))))...))))).)))).........(((((.(.....).))))). (-22.58 = -25.30 +   2.72)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,583,695 – 14,583,813
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 89.59
Mean single sequence MFE -31.70
Consensus MFE -26.82
Energy contribution -27.18
Covariance contribution 0.36
Combinations/Pair 1.09
Mean z-score -1.62
Structure conservation index 0.85
SVM decision value 0.83
SVM RNA-class probability 0.860684
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14583695 118 + 22224390
UGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCGCGACUGUCAUCAUGUUGCCUUCGAUUCUCAGAGUGUUGAUAAGGGACUCAAUAAAUAUGUCAGAAAUAUGAGAUCUAU
((((((.((((.(((((....))))).))))))))))..(((((((....)).)))))....(((.(((.((((.((.....)).)))).....((((.......))))))))))... ( -34.70)
>DroSec_CAF1 59005 118 + 1
UGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCGAGACUGGCAUCAUGUUGCCUUCGAUUCUCAGGGUGUUGAUAAGGGACUCAAUAAAUAUGUCAGAAAUAUGAGAUCUAU
((((((.((((.(((((....))))).))))))))))....((..((((......)))).))(((.((((.....((((((................)))))).....)))))))... ( -35.59)
>DroSim_CAF1 59058 118 + 1
UGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCGAGACUGGCAUCAUGUUGCUGUCGAUUCUCACUGUGUUGAUAAGGGACUCAAUAAAUAUGUCAGAAAUAUGAGAUCUAU
((((((.((((.(((((....))))).))))))))))......(((((((..(((((..(((..((.(((......))).))..))).)))))...)))))))............... ( -35.40)
>DroEre_CAF1 53887 110 + 1
UGGGAGCAGCCUGCAACAUUUGUUGCUAGCUCUCUC--------UCUCAUCAUGUUGCCUUCGAUUUUCAAAGUGUUGAUAAGGGACUCAAUAAAUAUGUCAGAAAUAUGAGAUCUAU
.(((((.(((..(((((....)))))..))))))))--------..((.(((((((.((((((((.........)))))..)))(((...........)))...)))))))))..... ( -29.30)
>DroYak_CAF1 55707 108 + 1
UGGAAGCAGCCUGCAACAUUUGUAGCUGGCUCU--C--------UCUCAUCAUGUUGCCUUCGAUUUUCAAUGUGUUGAUAAGGGACUCAAUAAAUAUGUCAAAAAUAUGAGAUCUAU
.(..((.((((.((.((....)).)).))))))--.--------.)((.(((((((.((((((((.........)))))..)))(((...........)))...)))))))))..... ( -23.50)
>consensus
UGGGAGCAGUCUGCAACAUUUGUUGCUGGCUCUCUCAGCG_GACUGUCAUCAUGUUGCCUUCGAUUCUCAAAGUGUUGAUAAGGGACUCAAUAAAUAUGUCAGAAAUAUGAGAUCUAU
.(((((.((((.(((((....))))).))))))))).............(((((((.((((((((.(.....).)))))..)))(((...........)))...)))))))....... (-26.82 = -27.18 +   0.36)

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 11:53:05 2006