Locus 7100

Sequence ID X_DroMel_CAF1
Location 17,810,237 – 17,810,387
Length 150
Max. P 0.980769
window11589 window11590 window11591 window11592

overview

Window 9

Location 17,810,237 – 17,810,347
Length 110
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 75.00
Mean single sequence MFE -33.82
Consensus MFE -22.34
Energy contribution -22.57
Covariance contribution 0.22
Combinations/Pair 1.11
Mean z-score -1.48
Structure conservation index 0.66
SVM decision value 0.89
SVM RNA-class probability 0.876128
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17810237 110 + 22224390
AAUUUAAUGUUCCUAAGGAUAAUGUUUAAUUUGCUUUUAU--UUUCGCAUACCCGUAACCAUCGAGGGAGUUGCGCUGGAGCUGCUGCUCCCGCAGCUGCAGCUUCCGCUCG
.......(((((....)))))...................--....((.....((.......)).(((((((((((((((((....)))))...))).)))))))))))... ( -29.60)
>DroPse_CAF1 79382 88 + 1
-------------UAAGGCUAGAGUUAAGG------UUA-----AGGCAUACCCGUAACCAUCGAGCGAGUUGCGCUGGAGCUGCUGUUCGCGGAGCUGCAGCUUUCGCUCG
-------------...............((------(((-----.((.....)).)))))..((((((((....((((.((((.(((....))))))).)))).)))))))) ( -34.30)
>DroSec_CAF1 68269 110 + 1
AAUUCAAGGUUCUUGAAGAUAAUGUUUAAUUUGCUUUGAU--UUUUGCAUACCCGUAACCAUCGAGGGAGUUGCGCUGUAGCUGCUGCUCCCGCAGCUGCAGCUUCCGCUCG
..((((((...))))))................(((((((--..((((......))))..)))))))((((.(.(((((((((((.......)))))))))))..).)))). ( -36.80)
>DroEre_CAF1 68593 112 + 1
AAUUCAAGGUUCUUGAGGAUAAUGUUUAAUUUGUUUGUUUUGCUUGGCAUACCCGUAACCGUCGAGGGAAUUGCGCUGGAGCUGCUGCUCCCGCAGCUGCAACUUCCGCUCG
.......((((..((.((...(((((......((.......))..))))).)))).))))..((((((((((((((((((((....)))))...))).)))).)))).)))) ( -31.10)
>DroYak_CAF1 68217 105 + 1
---AGCGGCUUUUUGGGAAUAAUGUUUAAUUG----AUUUUGCUUGGCAUACCCGUAACCGUCGAGGGAGUUGCGCUGGAGCUGCUGCUCCCGCAGCUGCAGCUUCCGCUCG
---((((((....((((..((((.....))))----....(((...)))..)))).....)))..(((((((((((((((((....)))))...))).)))))))))))).. ( -36.80)
>DroPer_CAF1 80589 88 + 1
-------------UAAGGCUAGAGUUAAGG------UUA-----AGGCAUACCCGUAACCAUCGAGCGAGUUGCGCUGGAGCUGCUGUUCGCGGAGCUGCAGCUUUCGCUCG
-------------...............((------(((-----.((.....)).)))))..((((((((....((((.((((.(((....))))))).)))).)))))))) ( -34.30)
>consensus
___U_AAGGUUCUUAAGGAUAAUGUUUAAUUU____UUAU___UUGGCAUACCCGUAACCAUCGAGGGAGUUGCGCUGGAGCUGCUGCUCCCGCAGCUGCAGCUUCCGCUCG
..............................................(((..(((...........)))...)))((.((((((((.(((.....))).)))))))).))... (-22.34 = -22.57 +   0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,810,237 – 17,810,347
Length 110
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 75.00
Mean single sequence MFE -32.07
Consensus MFE -20.09
Energy contribution -19.53
Covariance contribution -0.55
Combinations/Pair 1.20
Mean z-score -2.16
Structure conservation index 0.63
SVM decision value 1.87
SVM RNA-class probability 0.980769
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17810237 110 - 22224390
CGAGCGGAAGCUGCAGCUGCGGGAGCAGCAGCUCCAGCGCAACUCCCUCGAUGGUUACGGGUAUGCGAAA--AUAAAAGCAAAUUAAACAUUAUCCUUAGGAACAUUAAAUU
.(((.(((.(.(((.(((((....))))).((....))))).)))))))((((((....(((.(((....--......))).)))....))))))................. ( -30.50)
>DroPse_CAF1 79382 88 - 1
CGAGCGAAAGCUGCAGCUCCGCGAACAGCAGCUCCAGCGCAACUCGCUCGAUGGUUACGGGUAUGCCU-----UAA------CCUUAACUCUAGCCUUA-------------
(((((((..((((.((((..((.....)))))).)))).....)))))))..(((((.(((....)))-----)))------))...............------------- ( -31.40)
>DroSec_CAF1 68269 110 - 1
CGAGCGGAAGCUGCAGCUGCGGGAGCAGCAGCUACAGCGCAACUCCCUCGAUGGUUACGGGUAUGCAAAA--AUCAAAGCAAAUUAAACAUUAUCUUCAAGAACCUUGAAUU
.(((.(((.(.(((.(((((....))))).((....))))).)))))))((((((....(((.(((....--......))).)))....))))))((((((...)))))).. ( -33.10)
>DroEre_CAF1 68593 112 - 1
CGAGCGGAAGUUGCAGCUGCGGGAGCAGCAGCUCCAGCGCAAUUCCCUCGACGGUUACGGGUAUGCCAAGCAAAACAAACAAAUUAAACAUUAUCCUCAAGAACCUUGAAUU
((((.((((.((((.(((((....))))).((....))))))))))))))..((((..(((((............................))))).....))))....... ( -33.19)
>DroYak_CAF1 68217 105 - 1
CGAGCGGAAGCUGCAGCUGCGGGAGCAGCAGCUCCAGCGCAACUCCCUCGACGGUUACGGGUAUGCCAAGCAAAAU----CAAUUAAACAUUAUUCCCAAAAAGCCGCU---
((((.(((.(.(((.(((((....))))).((....))))).)))))))).(((((..(((.(((...........----........)))....)))....)))))..--- ( -32.81)
>DroPer_CAF1 80589 88 - 1
CGAGCGAAAGCUGCAGCUCCGCGAACAGCAGCUCCAGCGCAACUCGCUCGAUGGUUACGGGUAUGCCU-----UAA------CCUUAACUCUAGCCUUA-------------
(((((((..((((.((((..((.....)))))).)))).....)))))))..(((((.(((....)))-----)))------))...............------------- ( -31.40)
>consensus
CGAGCGGAAGCUGCAGCUGCGGGAGCAGCAGCUCCAGCGCAACUCCCUCGAUGGUUACGGGUAUGCCAA___AUAA____AAAUUAAACAUUAUCCUCAAGAACCUU_A___
..(((....)))((((((..(((((..((.((....))))..)))))....((....))))).))).............................................. (-20.09 = -19.53 +  -0.55)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,810,272 – 17,810,387
Length 115
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 83.90
Mean single sequence MFE -36.65
Consensus MFE -27.35
Energy contribution -26.88
Covariance contribution -0.47
Combinations/Pair 1.41
Mean z-score -1.99
Structure conservation index 0.75
SVM decision value 0.24
SVM RNA-class probability 0.648690
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17810272 115 + 22224390
UUUAU--UUUCGCAUACCCGUAACCAUCGAGGGAGUUGCGCUGGAGCUGCUGCUCCCGCAGCUGCAGCUUCCGCUCGGCGAUCUUCUUUUGCUCCUCCUUCUGCUCGAGCUGCUCCU
.....--....(((..............(((((((..((((.(((((....))))).)).((((.(((....)))))))...........))..))))))).((....))))).... ( -39.40)
>DroGri_CAF1 84729 112 + 1
-----UGGCAAGCAUACCCGUAGCCAUCGAGUGAGUUGCGCUGUUGCUGCUGCUCUCUGAGCUGCAAUUUGCGCUCUGCGAUCUUCUUUUGCUCCUCCUUCUGCUCGAGCUGCUCCU
-----..............(((((..(((((((((..((((.(((((....((((...)))).)))))..))))...((((.......))))..))).....))))))))))).... ( -34.30)
>DroSec_CAF1 68304 115 + 1
UUGAU--UUUUGCAUACCCGUAACCAUCGAGGGAGUUGCGCUGUAGCUGCUGCUCCCGCAGCUGCAGCUUCCGCUCGGCGAUCUUCUUUUGCUCCUCCUUCUGCUCGAGCUGCUCCU
(((((--..((((......))))..)))))((((((...(((((((((((.......)))))))))))....(((((((((..................)).)).))))).)))))) ( -42.77)
>DroEre_CAF1 68628 117 + 1
UGUUUUGCUUGGCAUACCCGUAACCGUCGAGGGAAUUGCGCUGGAGCUGCUGCUCCCGCAGCUGCAACUUCCGCUCGGCGAUCUUCUUCUGCUCCUCCUUCUGCUCGAGCUGCUCCU
.((...((((((((((....))..(((((((((((((((((((((((....)))))...))).)))).)))).))))))).....................))).))))).)).... ( -40.80)
>DroMoj_CAF1 100078 111 + 1
------GUGAAGCAUACCCAUAGCCAUCGAGAGAGUUGCGCUGCUGCUGCUGCUCUCGUAGCUGCAAUUUGCGCUCGGCAAUCUUCUUCUGCUCCUCCUUCUGCUCGAGCUGUUCCU
------.............(((((..(((((((((..((((...(((.(((((....))))).)))....))))..((((.........)))).....)))).)))))))))).... ( -32.30)
>DroAna_CAF1 77422 112 + 1
CUGA-----UGUCAUACCCAUAUCCAUCGAGGGAGUUGCGCUGCAGUUGCUGCUCUCGGAGUUGCAACUUCCGUUCGGCGAUCUUCUUCUGCUCCUCCUUCUGUUCGAGUUGUUCCU
..((-----((.............))))(((((((..((((((.((((((.((((...)))).))))))......))))((......)).))..)))))))................ ( -30.32)
>consensus
UU_A___UUUAGCAUACCCGUAACCAUCGAGGGAGUUGCGCUGCAGCUGCUGCUCCCGCAGCUGCAACUUCCGCUCGGCGAUCUUCUUCUGCUCCUCCUUCUGCUCGAGCUGCUCCU
...........(((................(((((((((((....)).(((((....))))).)))))))))((((((((.....................))).)))))))).... (-27.35 = -26.88 +  -0.47)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,810,272 – 17,810,387
Length 115
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 83.90
Mean single sequence MFE -37.42
Consensus MFE -29.09
Energy contribution -29.48
Covariance contribution 0.39
Combinations/Pair 1.26
Mean z-score -1.72
Structure conservation index 0.78
SVM decision value 0.15
SVM RNA-class probability 0.606420
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17810272 115 - 22224390
AGGAGCAGCUCGAGCAGAAGGAGGAGCAAAAGAAGAUCGCCGAGCGGAAGCUGCAGCUGCGGGAGCAGCAGCUCCAGCGCAACUCCCUCGAUGGUUACGGGUAUGCGAAA--AUAAA
....(((((((((((.((.((((..((.........((((...))))..((((.((((((.......)))))).))))))..)))).))....))).))))).)))....--..... ( -43.50)
>DroGri_CAF1 84729 112 - 1
AGGAGCAGCUCGAGCAGAAGGAGGAGCAAAAGAAGAUCGCAGAGCGCAAAUUGCAGCUCAGAGAGCAGCAGCAACAGCGCAACUCACUCGAUGGCUACGGGUAUGCUUGCCA-----
..(((((((((((((.((..(((..((...........))...((((...((((.((((...)))).)))).....))))..)))..))....))).))))).)))))....----- ( -35.50)
>DroSec_CAF1 68304 115 - 1
AGGAGCAGCUCGAGCAGAAGGAGGAGCAAAAGAAGAUCGCCGAGCGGAAGCUGCAGCUGCGGGAGCAGCAGCUACAGCGCAACUCCCUCGAUGGUUACGGGUAUGCAAAA--AUCAA
....(((((((((((.((.((((..((.........((((...))))..((((.((((((.......)))))).))))))..)))).))....))).))))).)))....--..... ( -43.50)
>DroEre_CAF1 68628 117 - 1
AGGAGCAGCUCGAGCAGAAGGAGGAGCAGAAGAAGAUCGCCGAGCGGAAGUUGCAGCUGCGGGAGCAGCAGCUCCAGCGCAAUUCCCUCGACGGUUACGGGUAUGCCAAGCAAAACA
..(.((((((((.((..........)).......(((((.((((.((((.((((.(((((....))))).((....)))))))))))))).))))).))))).)))).......... ( -42.50)
>DroMoj_CAF1 100078 111 - 1
AGGAACAGCUCGAGCAGAAGGAGGAGCAGAAGAAGAUUGCCGAGCGCAAAUUGCAGCUACGAGAGCAGCAGCAGCAGCGCAACUCUCUCGAUGGCUAUGGGUAUGCUUCAC------
.(((.((((((((((.((..((((.((((.......)))))..((((...((((.(((.(....).))).))))..))))..)))..))....))).))))).)).)))..------ ( -34.10)
>DroAna_CAF1 77422 112 - 1
AGGAACAACUCGAACAGAAGGAGGAGCAGAAGAAGAUCGCCGAACGGAAGUUGCAACUCCGAGAGCAGCAACUGCAGCGCAACUCCCUCGAUGGAUAUGGGUAUGACA-----UCAG
................((.((((..((............((....)).((((((..(((...)))..)))))).....))..)))).))((((.(((....)))..))-----)).. ( -25.40)
>consensus
AGGAGCAGCUCGAGCAGAAGGAGGAGCAAAAGAAGAUCGCCGAGCGGAAGUUGCAGCUGCGAGAGCAGCAGCUACAGCGCAACUCCCUCGAUGGUUACGGGUAUGCCAAA___U_AA
....(((((((((((.((.((((..((....(.....).....((...((((((.(((.....))).))))))...))))..)))).))....))).))))).)))........... (-29.09 = -29.48 +   0.39)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:06 2006