Locus 789

Sequence ID 3L_DroMel_CAF1
Location 2,356,514 – 2,356,624
Length 110
Max. P 0.908089
window1213 window1214

overview

Window 3

Location 2,356,514 – 2,356,624
Length 110
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 74.94
Mean single sequence MFE -28.53
Consensus MFE -16.39
Energy contribution -17.29
Covariance contribution 0.90
Combinations/Pair 1.32
Mean z-score -1.60
Structure conservation index 0.57
SVM decision value 0.47
SVM RNA-class probability 0.747741
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2356514 110 + 23771897
AUUCAUCCAGCGACUUUUCCUCCUUGGCCUGCUUCUCAGCCUUUUCGGAAAAGAAGUCGGGGAAGACAAAGGACUCCUCCCUGGGCUGGAAUA----CACAA--AUAUCAUU-GGAA
.....((((((..(((((((.....(((.((.....))))).....)))))))...(((((((.((........)).)))))))))))))...----.....--........-.... ( -33.70)
>DroSec_CAF1 105411 110 + 1
AUUCAUCCAGCGACUUUUCCUCCUUGGCCUGCUUCUCAGCCUUUUCGGAAAAGAAGUCGGGGAAGACAAAGGACUCCUCCCUGGGCUGGAAUA----CACAA--AUAUAAUU-GGGA
.....((((((..(((((((.....(((.((.....))))).....)))))))...(((((((.((........)).)))))))))))))...----.....--........-.... ( -33.70)
>DroSim_CAF1 106411 110 + 1
AUUCAUCCAGCGACUUUUCCUCCUUGGCCUGCUUCUCAGCCUUUUCGGAAAAGAAGUCGGGGAAGACAAAGGACUCCUCCCUGGGCUGGAAUA----CACAA--AUAUCAUU-GGGA
.....((((((..(((((((.....(((.((.....))))).....)))))))...(((((((.((........)).)))))))))))))...----.....--........-.... ( -33.70)
>DroEre_CAF1 112394 110 + 1
AUUCAUCCAACGCCUUUUCCUCCUUUUCCUGCUUCUCAGCCUUUUCAGAGAAGAAGUCGGGGAAGACAAAGGACUCUUCCCUGGGCUGGAAUA----AAGAA--AUAUUAUA-AAGA
.....((((..(((..............((.((((((..........)))))).)).(((((((((........))))))))))))))))...----.....--........-.... ( -29.10)
>DroWil_CAF1 198922 110 + 1
ACUCAUCUAGAGAUUUGCCCUCCUUUUCCUGAUUCUCAGCCCGAUUGGAAAACAAAUCGGGAAAGGUAAACGAUUCAGUUUUUGGCUAUAAAA----UAUGA--AAAUUAAAUGGU-
.(((.....))).((((((.........(((.....)))(((((((........)))))))...))))))...((((..(((((....)))))----..)))--)...........- ( -22.00)
>DroMoj_CAF1 113547 111 + 1
ACUCAUCCAGUGACUUUUCCUCCUUUUCCUGCUUCUCUGCUUUAUUUACAAAUAUAUCCGGAAAGGUAAACGCUUCAGUUUUUGGCUGAAAAAAAGAAGCAAUUGUAUC--A-U---
.......((((.((((((((..........((......))..((((....)))).....))))))))....(((((..(((((.....)))))..))))).))))....--.-.--- ( -19.00)
>consensus
AUUCAUCCAGCGACUUUUCCUCCUUGGCCUGCUUCUCAGCCUUUUCGGAAAAGAAGUCGGGGAAGACAAAGGACUCCUCCCUGGGCUGGAAUA____CACAA__AUAUCAUA_GGGA
.....(((((((((((((..(((.......((......))......)))..)))))))(((((.((........)).)))))..))))))........................... (-16.39 = -17.29 +   0.90)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 2,356,514 – 2,356,624
Length 110
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 74.94
Mean single sequence MFE -31.09
Consensus MFE -20.74
Energy contribution -21.97
Covariance contribution 1.23
Combinations/Pair 1.41
Mean z-score -1.54
Structure conservation index 0.67
SVM decision value 1.06
SVM RNA-class probability 0.908089
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2356514 110 - 23771897
UUCC-AAUGAUAU--UUGUG----UAUUCCAGCCCAGGGAGGAGUCCUUUGUCUUCCCCGACUUCUUUUCCGAAAAGGCUGAGAAGCAGGCCAAGGAGGAAAAGUCGCUGGAUGAAU
....-........--.....----...((((((...(((((((........))))))).(((((.((((((.....((((........))))..)))))).)))))))))))..... ( -37.20)
>DroSec_CAF1 105411 110 - 1
UCCC-AAUUAUAU--UUGUG----UAUUCCAGCCCAGGGAGGAGUCCUUUGUCUUCCCCGACUUCUUUUCCGAAAAGGCUGAGAAGCAGGCCAAGGAGGAAAAGUCGCUGGAUGAAU
....-........--.....----...((((((...(((((((........))))))).(((((.((((((.....((((........))))..)))))).)))))))))))..... ( -37.20)
>DroSim_CAF1 106411 110 - 1
UCCC-AAUGAUAU--UUGUG----UAUUCCAGCCCAGGGAGGAGUCCUUUGUCUUCCCCGACUUCUUUUCCGAAAAGGCUGAGAAGCAGGCCAAGGAGGAAAAGUCGCUGGAUGAAU
....-........--.....----...((((((...(((((((........))))))).(((((.((((((.....((((........))))..)))))).)))))))))))..... ( -37.20)
>DroEre_CAF1 112394 110 - 1
UCUU-UAUAAUAU--UUCUU----UAUUCCAGCCCAGGGAAGAGUCCUUUGUCUUCCCCGACUUCUUCUCUGAAAAGGCUGAGAAGCAGGAAAAGGAGGAAAAGGCGUUGGAUGAAU
....-........--...((----(((.(((((((.(((((((........)))))))...((((((.(((......(((....))).))).)))))).....)).)))))))))). ( -32.30)
>DroWil_CAF1 198922 110 - 1
-ACCAUUUAAUUU--UCAUA----UUUUAUAGCCAAAAACUGAAUCGUUUACCUUUCCCGAUUUGUUUUCCAAUCGGGCUGAGAAUCAGGAAAAGGAGGGCAAAUCUCUAGAUGAGU
-............--.....----.......(((..((((......)))).((((((((((((.(....).)))))))(((.....)))..)))))..)))....(((.....))). ( -22.80)
>DroMoj_CAF1 113547 111 - 1
---A-U--GAUACAAUUGCUUCUUUUUUUCAGCCAAAAACUGAAGCGUUUACCUUUCCGGAUAUAUUUGUAAAUAAAGCAGAGAAGCAGGAAAAGGAGGAAAAGUCACUGGAUGAGU
---.-(--(((......(((((..(((((.....)))))..))))).....(((((((.......(((((.......)))))......)).))))).......)))).......... ( -19.82)
>consensus
UCCC_AAUGAUAU__UUGUG____UAUUCCAGCCCAGGGAGGAGUCCUUUGUCUUCCCCGACUUCUUUUCCGAAAAGGCUGAGAAGCAGGAAAAGGAGGAAAAGUCGCUGGAUGAAU
...........................((((((...(((((((........))))))).(((((.((((((......(((....))).......)))))).)))))))))))..... (-20.74 = -21.97 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:14 2006