Locus 1867

Sequence ID 2R_DroMel_CAF1
Location 7,010,065 – 7,010,171
Length 106
Max. P 0.923654
window3097 window3098

overview

Window 7

Location 7,010,065 – 7,010,171
Length 106
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.54
Mean single sequence MFE -25.83
Consensus MFE -17.49
Energy contribution -18.22
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -2.48
Structure conservation index 0.68
SVM decision value 1.16
SVM RNA-class probability 0.923654
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7010065 106 + 20766785
CGA--UUCUUUGUUUGCUUUGCUGAUGACGAUCA---UUUCGCAUUAAGUUUAAUUUAAGUUGAAAUUAGUUCGUUAAUGAACUCAUCAGCAACA------GUUUUUGACUUUUGUU
...--......(((.(((((((((((((.(.(((---((.((.(((((.((((((....)))))).))))).))..))))).))))))))))).)------))....)))....... ( -27.70)
>DroVir_CAF1 51546 115 + 1
UGA--UUCUUUGUUUGCUUUGCUGAUGACGAUCAUCAUUUCGCAUUAAGUUUAAUUUAAGUUGAAAUUAGUUCGCUAAUGAACUCAUCAGCAGCAGCAGCAGUGUUCAGCCUUUGUU
(((--....(((((.(((((((((((((.(.((((.....((.(((((.((((((....)))))).))))).))...)))).))))))))))).))))))))...)))......... ( -30.60)
>DroWil_CAF1 56492 90 + 1
UGA--UUCUUUGUUUGCUUUACUGAUGACGAUCA---UUUCGCAUUAAGUUUAAUUUAAGUUGAAAUUAGUUCGCUAAUGAACUCAUCAGCU----------------------GGG
...--...........(((..(((((((.(.(((---((.((.(((((.((((((....)))))).))))).))..))))).))))))))..----------------------))) ( -19.90)
>DroMoj_CAF1 55652 105 + 1
UGA--UUCUUUGUUUGCUCUGCUGAUGACGAUCAUCAGUUCGCAUUAAGUUUAAUUUAAGUUGAAAUUAGUUCGCUAAUGAACUCAUCAACAGCAGAC----UCUGCAGAC------
...--......(((((((((((((.(((.((((((.((..((.(((((.((((((....)))))).))))).)))).))))..)).))).))))))).----...))))))------ ( -28.10)
>DroAna_CAF1 39185 106 + 1
UAA--UUCUUUGUUUGCUUUGCUGAUGACGAUCA---UUUCGCAUUAAGUUUAAUUUAAGUUGAAAUUAGUUCGCUAAUGAACUCAUCAGGCACA------GUUUUGGGCUUAAGUU
...--..(((.(((((((.(((((((((.(.(((---((.((.(((((.((((((....)))))).))))).))..))))).))))))).))).)------))...))))..))).. ( -23.70)
>DroPer_CAF1 40326 108 + 1
CUCUUCUCUUUGUUUGUUUUGCUGAUGAUGAUCA---UUUCGCAUUAAGUUUAAUUCAAGUUGAAAUUAGUUCGCUAAUGAACUCAUCAGCAACA------GUUUUUGGCUUUGGUU
.............((((..(((((((((.(.(((---((.((.(((((.((((((....)))))).))))).))..))))).)))))))))))))------)............... ( -25.00)
>consensus
UGA__UUCUUUGUUUGCUUUGCUGAUGACGAUCA___UUUCGCAUUAAGUUUAAUUUAAGUUGAAAUUAGUUCGCUAAUGAACUCAUCAGCAACA______GUUUUCGGCUUU_GUU
..................((((((((((.(.(((......((.(((((.((((((....)))))).))))).))....))).)))))))))))........................ (-17.49 = -18.22 +   0.72)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 7,010,065 – 7,010,171
Length 106
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.54
Mean single sequence MFE -20.99
Consensus MFE -15.73
Energy contribution -16.32
Covariance contribution 0.59
Combinations/Pair 1.17
Mean z-score -2.26
Structure conservation index 0.75
SVM decision value 1.15
SVM RNA-class probability 0.922148
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7010065 106 - 20766785
AACAAAAGUCAAAAAC------UGUUGCUGAUGAGUUCAUUAACGAACUAAUUUCAACUUAAAUUAAACUUAAUGCGAAA---UGAUCGUCAUCAGCAAAGCAAACAAAGAA--UCG
................------..((((((((((((((......))))).........................((((..---...))))))))))))).............--... ( -19.40)
>DroVir_CAF1 51546 115 - 1
AACAAAGGCUGAACACUGCUGCUGCUGCUGAUGAGUUCAUUAGCGAACUAAUUUCAACUUAAAUUAAACUUAAUGCGAAAUGAUGAUCGUCAUCAGCAAAGCAAACAAAGAA--UCA
......(((........)))(((..((((((((((.((((((.((...((((((......)))))).........))...)))))).).))))))))).)))..........--... ( -26.00)
>DroWil_CAF1 56492 90 - 1
CCC----------------------AGCUGAUGAGUUCAUUAGCGAACUAAUUUCAACUUAAAUUAAACUUAAUGCGAAA---UGAUCGUCAUCAGUAAAGCAAACAAAGAA--UCA
...----------------------.(((((((((.(((((.(((((.....))).......((((....))))))..))---))).).))))))))...............--... ( -16.10)
>DroMoj_CAF1 55652 105 - 1
------GUCUGCAGA----GUCUGCUGUUGAUGAGUUCAUUAGCGAACUAAUUUCAACUUAAAUUAAACUUAAUGCGAACUGAUGAUCGUCAUCAGCAGAGCAAACAAAGAA--UCA
------((.(((...----.(((((((.((((((..(((((((.(((.....))).......((((....)))).....))))))))))))).)))))))))).))......--... ( -27.40)
>DroAna_CAF1 39185 106 - 1
AACUUAAGCCCAAAAC------UGUGCCUGAUGAGUUCAUUAGCGAACUAAUUUCAACUUAAAUUAAACUUAAUGCGAAA---UGAUCGUCAUCAGCAAAGCAAACAAAGAA--UUA
...............(------(.(((.(((((((.(((((.(((((.....))).......((((....))))))..))---))).).))))))))).))...........--... ( -16.10)
>DroPer_CAF1 40326 108 - 1
AACCAAAGCCAAAAAC------UGUUGCUGAUGAGUUCAUUAGCGAACUAAUUUCAACUUGAAUUAAACUUAAUGCGAAA---UGAUCAUCAUCAGCAAAACAAACAAAGAGAAGAG
................------..((((((((((..(((((.(((.......(((.....)))..........)))..))---)))...)))))))))).................. ( -20.93)
>consensus
AAC_AAAGCCAAAAAC______UGUUGCUGAUGAGUUCAUUAGCGAACUAAUUUCAACUUAAAUUAAACUUAAUGCGAAA___UGAUCGUCAUCAGCAAAGCAAACAAAGAA__UCA
........................((((((((((((((......))))).........................((((........))))))))))))).................. (-15.73 = -16.32 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:09 2006