Locus 7168

Sequence ID 3L_DroMel_CAF1
Location 19,220,482 – 19,220,648
Length 166
Max. P 0.999990
window11642 window11643 window11644

overview

Window 2

Location 19,220,482 – 19,220,583
Length 101
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 68.64
Mean single sequence MFE -30.23
Consensus MFE -19.07
Energy contribution -19.63
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -2.67
Structure conservation index 0.63
SVM decision value 5.59
SVM RNA-class probability 0.999990
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19220482 101 - 23771897
CAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAGCGGCAGCUAGGUUU-----------U------ACAAGUACACAAGCCGCUAAAUAUAAUACGAUUAAAUUAAAUGUAA--
((((((((((....)))))))))).....(((((...(((((((.(((.(....-----------.------.).)))......)))))))....((((........)))))))))..-- ( -29.20)
>DroSec_CAF1 49261 120 - 1
CAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAGCGGCAGCUAGGUAUGUAAUCUUUAUUCGAAAUAAAAUGAUACUAAAUGCUAAAUAUGAUACAAUUUAAUUAUUUUUAGGC
((((((((((....))))))))))(((((((((.(.(((((....)))))).))))..))))).........................(((((.(((((........))))).))))).. ( -33.90)
>DroEre_CAF1 51577 113 - 1
CAUGCUGUCAGUGAUGGCAGCAUAGAAAAACGUUCGCUUGGGGCAGCUAGAAAUGUUAUCUUCUAC------A-GAGUACACACGCUGCUAAAUACCAAACAAAUAAAUUGAUUAUAAAA
.(((((((((....)))))))))............(.(((((((((((((((........))))).------.-..((....)))))))).....)))).)................... ( -27.60)
>consensus
CAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAGCGGCAGCUAGGUAUGU_AUCUU___U______A_AAGUACACAAGCUGCUAAAUAUAAUACAAUUAAAUUAAUUAUAA__
((((((((((....))))))))))(((.....))).(((((....)))))...................................................................... (-19.07 = -19.63 +   0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,220,520 – 19,220,615
Length 95
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 70.75
Mean single sequence MFE -34.75
Consensus MFE -22.94
Energy contribution -24.12
Covariance contribution 1.19
Combinations/Pair 1.12
Mean z-score -2.69
Structure conservation index 0.66
SVM decision value 4.32
SVM RNA-class probability 0.999870
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19220520 95 - 23771897
UCGAUGAUUACACAGCACUGUUAUGCGCAGCACAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAGCGGCAGCUAGGUUU-----------U------ACAAGUAC
....(((..((..(((.((((((.((......((((((((((....))))))))))(((.....)))))))))))..)))..))..-----------)------.))..... ( -29.50)
>DroSec_CAF1 49301 111 - 1
GCGGGGAUUAUACAACACUGUAA-UCACAGCACAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAGCGGCAGCUAGGUAUGUAAUCUUUAUUCGAAAUAAAAUGAU
((...(((((((......)))))-))...)).((((((((((....))))))))))(((((((((.(.(((((....)))))).))))..)))))................. ( -38.00)
>DroEre_CAF1 51617 105 - 1
UCGGGAAUUACGCAGCACUGGCAUGCGCAGCACAUGCUGUCAGUGAUGGCAGCAUAGAAAAACGUUCGCUUGGGGCAGCUAGAAAUGUUAUCUUCUAC------A-GAGUAC
((.((((....(((...(((((.(((.((((..(((((((((....))))))))).(((.....))))))..).))))))))...)))....))))..------.-)).... ( -34.20)
>DroYak_CAF1 78214 99 - 1
UUGGGAAUUACACAGCACUGGCCUGCGCAGCACAUGCUGUCAGUGAUGGCAGCAUGUGAGAACAUUUGCUUAAAGCAGCUAGAAAUGUUAUUCUUAUU------A-------
.(((((((...(((...(((((.(((((((((((((((((((....)))))))))))).......)))).....))))))))...))).)))))))..------.------- ( -37.31)
>consensus
UCGGGAAUUACACAGCACUGGCAUGCGCAGCACAUGCUGUCAGUGAUGGCAGCAUGGGAGAACAUUCGCUAGCGGCAGCUAGAAAUGUUAUCUUUAUU______A_AAGUAC
.................(((((.(((..(((.((((((((((....))))))))))(((.....))))))....)))))))).............................. (-22.94 = -24.12 +   1.19)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,220,543 – 19,220,648
Length 105
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 87.32
Mean single sequence MFE -35.00
Consensus MFE -27.10
Energy contribution -27.66
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.73
Structure conservation index 0.77
SVM decision value 0.43
SVM RNA-class probability 0.732383
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19220543 105 - 23771897
AAUUACCGGCCUGCUUGGAGUAGUGUUGAAAGUUCGAUGAUUACACAGCACUGUUAUGCGCAGCACAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAG
.....((.((.(((.....((((((((((....))))).)))))...(((......)))))))).((((((((((....)))))))))))).............. ( -33.10)
>DroSec_CAF1 49341 104 - 1
AAUUGCCGGCCUGCUUGGAGUAGUGUUGAAAGUGCGGGGAUUAUACAACACUGUAA-UCACAGCACAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAG
....((((((((((.....)))).))))...((((...(((((((......)))))-))...))))(((((((((....)))))))))............))... ( -34.40)
>DroSim_CAF1 53129 104 - 1
AAUUGCCGGCCUGCUUGGAGUAGUGUUGAAAGUACGAGGAUUAUACAGCACUGUAA-GCACAGCACAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAG
.....((.((.((((((...((((((((..(((......)))...)))))))))))-)))..)).((((((((((....)))))))))))).............. ( -33.30)
>DroEre_CAF1 51650 105 - 1
AAUUGCCGGCCUGCUUGGAUGAGAGUUGAAAGUUCGGGAAUUACGCAGCACUGGCAUGCGCAGCACAUGCUGUCAGUGAUGGCAGCAUAGAAAAACGUUCGCUUG
((((.(((..((..((.(((....))).))))..))).)))).((((((....)).)))).(((..(((((((((....))))))))).(((.....)))))).. ( -34.70)
>DroYak_CAF1 78241 105 - 1
AAUUGCCGGCCUGCUUGGAGGAGUGUUGAAAGUUUGGGAAUUACACAGCACUGGCCUGCGCAGCACAUGCUGUCAGUGAUGGCAGCAUGUGAGAACAUUUGCUUA
....((.((((..((....))(((((((..((((....))))...))))))))))).))((((((((((((((((....)))))))))))).......))))... ( -39.51)
>consensus
AAUUGCCGGCCUGCUUGGAGUAGUGUUGAAAGUUCGGGGAUUACACAGCACUGUAAUGCGCAGCACAUGCUGUCAGUGAUGGCAGCGUGGGAGAACAUUCGCUAG
.......(((.((((((.(.((((((((..(((......)))...))))))))...).)).))))((((((((((....))))))))))...........))).. (-27.10 = -27.66 +   0.56)

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 12:39:52 2006