Locus 9515

Sequence ID	3R_DroMel_CAF1
Location	25,148,638 – 25,148,770
Length	132
Max. P	0.670138

overview

Window 7

Location	25,148,638 – 25,148,746
Length	108
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	83.90
Mean single sequence MFE	-29.90
Consensus MFE	-23.33
Energy contribution	-23.33
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.54
Structure conservation index	0.78
SVM decision value	-0.01
SVM RNA-class probability	0.529282
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25148638 108 + 27905053
UUUUUUUUUCA-------GUGCGCGUGUUUGUUUGUUUAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCC-AGG
.....((((((-------((..(((....)))..((((.((((.((((((((((.....))))))))))...))))..)))))))))))).......((((.((....))))-.)) ( -29.30)
>DroVir_CAF1 7009 106 + 1
GUG-UGUGUGU-------GC-CUGGUGUUUGUUUGUUUAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCA-CAG
.((-((((..(-------(.-((((((...((((.....((((.((((((((((.....))))))))))...))))(....).....))))....)))))).))....))))-)). ( -33.00)
>DroPse_CAF1 7737 111 + 1
----CCCUGCAUACGUAUAUGUAUAUGUUUGUUUGCUUAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCC-AGG
----.((((((.((((((....))))))(((((((....((((.((((((((((.....))))))))))...))))(....)................)))))))...)).)-))) ( -30.50)
>DroGri_CAF1 87567 95 + 1
-------------------U-UUGGUGUUUGUUUGUUUAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUACC-CAG
-------------------.-..((((.(((((((....((((.((((((((((.....))))))))))...))))(....)................)))))))...))))-... ( -27.70)
>DroAna_CAF1 6471 107 + 1
UU--UUUUGUA-------GUGUUGGUGUUUGUUUGUUUAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCCGAGG
..--.......-------...((((((.(((((((....((((.((((((((((.....))))))))))...))))(....)................)))))))...)))))).. ( -29.10)
>DroPer_CAF1 8747 111 + 1
----CCCUGCAUAUGUAUAUGUAUAUGUUUGUUUGCUUAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCC-AGG
----.((((((((((((....)))))))(((((((....((((.((((((((((.....))))))))))...))))(....)................)))))))....).)-))) ( -29.80)
>consensus
____UCUUGCA_______GUGUUGGUGUUUGUUUGUUUAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCC_AGG
............................(((((((....((((.((((((((((.....))))))))))...))))(....)................)))))))........... (-23.33 = -23.33 +  -0.00)

alignment

secondary structure

dotplot

Window 8

Location	25,148,668 – 25,148,770
Length	102
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	84.75
Mean single sequence MFE	-28.54
Consensus MFE	-21.38
Energy contribution	-22.22
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.31
Structure conservation index	0.75
SVM decision value	0.29
SVM RNA-class probability	0.670138
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25148668 102 + 27905053
UAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCCAGGGGCAUAAAAAA----------GAGAGAUCCCCAC----
((((((.((((((((((.....)))))))))).(((((.(....))))))..........((((.((....)))).)))))))).....----------.............---- ( -29.90)
>DroVir_CAF1 7037 110 + 1
UAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCACAGGCCAAAAAAAAAAAAAAAAAGCCGAG-AGACAA-----
..((((.((((((((((.....)))))))))).(((((.(....))))))............)).))..........(((..................)))...-......----- ( -23.77)
>DroGri_CAF1 87584 100 + 1
UAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUACCCAG-GCAUAAAAAA----------GAGUA-AGAGAAU----
((((((.((((((((((.....)))))))))).(((((.(....))))))...........................)-))))).....----------.....-.......---- ( -27.10)
>DroWil_CAF1 81561 99 + 1
UAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAGCGCUGAAAAUUUAUUACCGGACAAUUUUGCCAUG-GCAUAAAAAA----------AAGCG-CCG-ACC----
(((((((((((((((((.....))))))))))...(((((((....(((............)))....))))))).))-))))).....----------.....-...-...---- ( -29.30)
>DroMoj_CAF1 6493 99 + 1
UAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGC-CAGGGCAUAAAAAA----------GCGAG-AGACAA-----
((((((.((((((((((.....))))))))))...(((((((....(((............)))....))))))-)..)))))).....----------((...-.).)..----- ( -28.40)
>DroPer_CAF1 8780 101 + 1
UAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCCAGGGG-AUAAAAAA----------GAG---CCG-ACUGUGG
....(((((((((((((.....))))))))))((((((.(....)........(((((..((((.((....)))).))..-)))))...----------..)---)))-))..))) ( -32.80)
>consensus
UAUGCCAAAAGUGUUGUAAAGUGCGGCGCUUUGUCGGCAGGAAACGCUGAAAAUUUAUUACCGGACAAUUUUGCCAAGGGCAUAAAAAA__________GAGAG_ACACAA_____
((((((.((((((((((.....)))))))))).(((((.(....))))))............................))))))................................ (-21.38 = -22.22 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:17 2006