Locus 772

Sequence ID X_DroMel_CAF1
Location 2,144,203 – 2,144,374
Length 171
Max. P 0.902590
window1253 window1254 window1255 window1256

overview

Window 3

Location 2,144,203 – 2,144,304
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.53
Mean single sequence MFE -26.00
Consensus MFE -15.94
Energy contribution -16.94
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.09
Structure conservation index 0.61
SVM decision value 0.15
SVM RNA-class probability 0.609572
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2144203 101 + 22224390
CUUUUAGAAUGCAA-----------CAACGCAAUGCAAAUCAAUCGAUGAGCAAAUUUGAUU--------GCCGCAUUGCAGAACGAUAAGCGCAUGCAAAAGCAUGGCCGACAAUCAGC
......((.(((..-----------....(((((((....(((((((.........))))))--------)..)))))))..........((.(((((....))))))).).)).))... ( -26.10)
>DroSec_CAF1 24633 101 + 1
CUUUAAGAAUGCAA-----------CAACGCAAUGCAAAUCAAUCGAUGAGCAAUUUUUAUU--------GUCGCAUUGCAGAACGAUAAGCGCAUGCAAAAGCAUGGCCGACAAUCAGC
......((.(((..-----------....(((((((..(((....)))((.((((....)))--------))))))))))..........((.(((((....))))))).).)).))... ( -24.30)
>DroSim_CAF1 22048 101 + 1
CUUUAAGAAUGCAA-----------CAACGCAAUGCAAAUCAAUCGAUGAGCAAAUUUGAUU--------GCCGCAUUGCAGAACGAUAAGCGCAUGCAAAAGCAUGGCCGACAAUCAGC
......((.(((..-----------....(((((((....(((((((.........))))))--------)..)))))))..........((.(((((....))))))).).)).))... ( -26.10)
>DroEre_CAF1 25479 103 + 1
C-UUAAGAAUGCAAGUGCAAUAACG--------UGCAAAUCAAUCGAUGAGCAAAUUUGAUU--------ACCGCACUGCAGAACGAUAAGCGCAUGCAAAAGCAUGAUCGACAAUCAGC
.-.......((((.(((((((....--------(((..(((....)))..)))......)))--------...))))))))....(((...(((((((....)))))..))...)))... ( -21.80)
>DroYak_CAF1 27335 119 + 1
C-UUAAGAAUGCAAGUGCAAUAACGCAAUGCAAUGCAAAUCAAUCGAUGAGCAAAUUUGAUUGCCGGAUUGCCGCAUUGCAGAACGAUAAGCGCAUGCAAAAGCAUGGUCGACAAUCAGC
.-.......((((.((((.....((...((((((((....(((((((.........)))))))..((....))))))))))...))....)))).))))...((.((((.....)))))) ( -31.70)
>consensus
CUUUAAGAAUGCAA___________CAACGCAAUGCAAAUCAAUCGAUGAGCAAAUUUGAUU________GCCGCAUUGCAGAACGAUAAGCGCAUGCAAAAGCAUGGCCGACAAUCAGC
..........((.................(((((((.((((((.............))))))...........))))))).....(((...(((((((....)))))..))...))).)) (-15.94 = -16.94 +   1.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 2,144,203 – 2,144,304
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.53
Mean single sequence MFE -30.72
Consensus MFE -18.14
Energy contribution -18.86
Covariance contribution 0.72
Combinations/Pair 1.10
Mean z-score -2.44
Structure conservation index 0.59
SVM decision value 0.42
SVM RNA-class probability 0.728576
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2144203 101 - 22224390
GCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGC--------AAUCAAAUUUGCUCAUCGAUUGAUUUGCAUUGCGUUG-----------UUGCAUUCUAAAAG
((.((.((..((((((((....))))).)))...)).)).))((((((((--------((((((...(((..(((....)))..)))))).))))-----------)))))))....... ( -30.60)
>DroSec_CAF1 24633 101 - 1
GCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGAC--------AAUAAAAAUUGCUCAUCGAUUGAUUUGCAUUGCGUUG-----------UUGCAUUCUUAAAG
((.((.((..((((((((....))))).)))...)).)).))((((((((--------(((......(((..(((....)))..)))....))))-----------)))))))....... ( -30.40)
>DroSim_CAF1 22048 101 - 1
GCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGC--------AAUCAAAUUUGCUCAUCGAUUGAUUUGCAUUGCGUUG-----------UUGCAUUCUUAAAG
((.((.((..((((((((....))))).)))...)).)).))((((((((--------((((((...(((..(((....)))..)))))).))))-----------)))))))....... ( -30.60)
>DroEre_CAF1 25479 103 - 1
GCUGAUUGUCGAUCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAGUGCGGU--------AAUCAAAUUUGCUCAUCGAUUGAUUUGCA--------CGUUAUUGCACUUGCAUUCUUAA-G
...(((...((..(((((....)))))))...)))....(((((((((((--------(((((((((..(.....)...))))))..--------.)))))))))).)))).......-. ( -25.80)
>DroYak_CAF1 27335 119 - 1
GCUGAUUGUCGACCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGCAAUCCGGCAAUCAAAUUUGCUCAUCGAUUGAUUUGCAUUGCAUUGCGUUAUUGCACUUGCAUUCUUAA-G
...((.((.(((.(((((....))))).((....(((..(((((((((.(((((.(((((......)))))....)))))...)))))))))..))).....))..))))).))....-. ( -36.20)
>consensus
GCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGC________AAUCAAAUUUGCUCAUCGAUUGAUUUGCAUUGCGUUG___________UUGCAUUCUUAAAG
((.((.((..((((((((....))))).)))...)).)).))(((((((............(((...(((..(((....)))..))).....)))...........)))))))....... (-18.14 = -18.86 +   0.72)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,144,232 – 2,144,341
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.71
Mean single sequence MFE -34.42
Consensus MFE -26.78
Energy contribution -27.02
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.87
Structure conservation index 0.78
SVM decision value 0.75
SVM RNA-class probability 0.840968
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2144232 109 - 22224390
UGCC---GGAGAUAGCGAUGGCGAUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGC--------AAUCAAAUUUGCUCAUCGAUUG
....---........(((((((((.(((((((((((....((((.....))))(((((....))))).)))))))))))(((......))--------).......)))).))))).... ( -37.00)
>DroSec_CAF1 24662 103 - 1
UGCC---GGAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGAC--------AAUAAAAAUUGCUCAUCGAUUG
....---...(((((((------(((((((((((((....((((.....))))(((((....))))).)))))))))))(((...)))..--------.......)))))).)))..... ( -32.10)
>DroSim_CAF1 22077 103 - 1
UGCC---GGAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGC--------AAUCAAAUUUGCUCAUCGAUUG
((((---(.(....(((------..(((((((((((....((((.....))))(((((....))))).))))))))))))))..).))))--------)..................... ( -34.70)
>DroEre_CAF1 25510 103 - 1
UGCC---GUAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGAUCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAGUGCGGU--------AAUCAAAUUUGCUCAUCGAUUG
((((---(((....(((------..(((((((((((.(((((.....).))))(((((....))))).))))))))))))))..))))))--------)..................... ( -31.10)
>DroYak_CAF1 27374 114 - 1
UGCCGCCGGAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGACCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGCAAUCCGGCAAUCAAAUUUGCUCAUCGAUUG
.((((((((((((((((------...((((((.(((....))).))))))...(((((....)))))))).))))..))))....)))))((((.(((((......)))))....)))). ( -37.20)
>consensus
UGCC___GGAGAUAGCG______AUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCUGCAAUGCGGC________AAUCAAAUUUGCUCAUCGAUUG
..........((((((.........(((((((((((....((((.....))))(((((....))))).)))))))))))(((...)))....................))).)))..... (-26.78 = -27.02 +   0.24)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,144,264 – 2,144,374
Length 110
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 90.96
Mean single sequence MFE -35.20
Consensus MFE -28.60
Energy contribution -27.96
Covariance contribution -0.64
Combinations/Pair 1.13
Mean z-score -1.80
Structure conservation index 0.81
SVM decision value 1.03
SVM RNA-class probability 0.902590
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2144264 110 - 22224390
AUGUACGUUUAGAGUGCACGG--AGGAUGAGGAUGUGCC---GGAGAUAGCGAUGGCGAUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCU
.(((((.......))))).((--(.((((((.....(((---(..((((((((((((............))))))))).)))..))))(((((....)))))..)))))).))). ( -40.90)
>DroSec_CAF1 24694 104 - 1
AUGUACGUUUAGAGUGCGCGG--AGGAUGAGGAUGUGCC---GGAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCU
..((((.......))))..((--(.((((((.....(((---(..(((((((------(((.((.....))))))))).)))..))))(((((....)))))..)))))).))). ( -38.00)
>DroSim_CAF1 22109 104 - 1
AUGUACGUUUAGAGUGCGCGG--AGGAUGAGGAUGUGCC---GGAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCU
..((((.......))))..((--(.((((((.....(((---(..(((((((------(((.((.....))))))))).)))..))))(((((....)))))..)))))).))). ( -38.00)
>DroEre_CAF1 25542 106 - 1
AUGUGUGUUUAGAGUGCGAGGGGGGGAUGAGGAUAUGCC---GUAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGAUCAUGCUUUUGCAUGCGCUUAUCGUUCU
...........(((((((.....((.(((....))).))---(((((.((((------((.((((((.(((....))).)))))).)))..)))))))).)))))))........ ( -28.40)
>DroYak_CAF1 27414 107 - 1
AUGUGUAUUUAGAGUGCGAGC--AGGAUGAGGAUAUGCCGCCGGAGAUAGCG------AUGGACGAUAAGUUAUCGCUGAUUGUCGACCAUGCUUUUGCAUGCGCUUAUCGUUCU
.(((.(((((...(.(((.((--(...........)))))))..))))))))------..(((((((((((..((((.....).))).(((((....))))).))))))))))). ( -30.70)
>consensus
AUGUACGUUUAGAGUGCGCGG__AGGAUGAGGAUGUGCC___GGAGAUAGCG______AUGGACGAUAAGUUAUCGCUGAUUGUCGGCCAUGCUUUUGCAUGCGCUUAUCGUUCU
..((((((((...((.(.......).))..))))))))......................(((((((((((....((((.....))))(((((....))))).))))))))))). (-28.60 = -27.96 +  -0.64)

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 09:53:30 2006