Locus 1663

Sequence ID 2L_DroMel_CAF1
Location 4,495,813 – 4,495,961
Length 148
Max. P 0.580233
window2662 window2663

overview

Window 2

Location 4,495,813 – 4,495,921
Length 108
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 73.37
Mean single sequence MFE -30.58
Consensus MFE -17.87
Energy contribution -17.57
Covariance contribution -0.30
Combinations/Pair 1.38
Mean z-score -1.36
Structure conservation index 0.58
SVM decision value 0.09
SVM RNA-class probability 0.580233
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4495813 108 - 22407834
GCAUCAGCACAGAGCUUAUUGCUCAUGUCAUCCUGGUUAUACAGGUGAUGCCUUCAUGCGUUGCCAGUCCUUGCCUUCGCCCCAACCGAUUAGGGACUCACCAGUAAU
((....))(((((((.....)))).)))....(((((......((..((((......))))..))((((((((...(((.......))).)))))))).))))).... ( -34.20)
>DroVir_CAF1 10251 99 - 1
ACUACAUCACCGAGUUUAUUGCUCUUGCAUCCCCGGCCACACUGGCGAUGCAUUGGUGCGUUGUCGACCCAUACCUC------AGCCCGUUGUGG---CACGCGAACC
......(((((((((.....)))).((((((.((((.....)))).))))))..)))((((....((........))------.(((......))---)))))))... ( -28.40)
>DroGri_CAF1 12088 99 - 1
UCUACAUCACCGGGCCCAUUGCUCCUGUAUCCCCAGCCACACUGGCGAUCCCCUUGUGCGUUGUCAGCCCAUACCAC------AACCUGUUGUGG---CCCGCGAACC
......((...((((....(((....)))....((((((((..((.....))..)))).))))...))))...((((------((....))))))---.....))... ( -25.00)
>DroSec_CAF1 10295 108 - 1
GCAUCAGCACAGAGCUUAUUGCUCGUGUCAUCCUGGUUAUACAGGUGAUGCCUUCAUGCGCUGCCAGCCCUUGCCUCCGCCCCAACUGAUUAGGGACUCAGCAGUAAU
((((((((((.((((.....))))))))...((((......))))))))))........(((((.((((((....((.(......).))..)))).))..)))))... ( -34.60)
>DroEre_CAF1 11035 108 - 1
GCAUCAGCACAGAGCUUAUUGCUCGUGUCAUCCUGGCUAUACAGGUGAUGCCUUCAUGCGCUGCCAGUUCUUGCCUCCGCCCCAACCGAUUAGGGAUUCGCCAGUAAU
((((((((((.((((.....))))))))...((((......))))))))))........(((((.((((((((..((.(......).)).)))))))).).))))... ( -30.80)
>DroYak_CAF1 3634 108 - 1
GCAUCAGCACAGAGCUUAUUGCUCGUGUCAUCCUGGUUAUACAGGUGAUGCCUUCAUGCGUUGCCAACCCUUGCCUCCGCCCCAACCGAUUAGGGAUUCACCAGUAAU
......((((.((((.....))))))))....(((((......((..((((......))))..))..((((....((.(......).))..))))....))))).... ( -30.50)
>consensus
GCAUCAGCACAGAGCUUAUUGCUCGUGUCAUCCUGGCUAUACAGGUGAUGCCUUCAUGCGUUGCCAGCCCUUGCCUCCGCCCCAACCGAUUAGGGA_UCACCAGUAAU
......((...((((.....))))......((((((((.....((((((((......)))))))).......((....)).......))))))))........))... (-17.87 = -17.57 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,495,841 – 4,495,961
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.57
Mean single sequence MFE -39.97
Consensus MFE -21.19
Energy contribution -21.45
Covariance contribution 0.26
Combinations/Pair 1.46
Mean z-score -1.47
Structure conservation index 0.53
SVM decision value -0.05
SVM RNA-class probability 0.505774
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4495841 120 - 22407834
CUUGCGCGGGUGCUUGUGGUCAGAACGCUAUUUGUCGAGCGCAUCAGCACAGAGCUUAUUGCUCAUGUCAUCCUGGUUAUACAGGUGAUGCCUUCAUGCGUUGCCAGUCCUUGCCUUCGC
...(((.((((.....((((...(((((....((..(((.(((((((.(((((((.....)))).))))..((((......))))))))))))))).)))))))))......)))).))) ( -39.40)
>DroVir_CAF1 10273 117 - 1
CCUGUCCUGGUAGAUGUGGAUACAAUGCCAUCUGCCAAACACUACAUCACCGAGUUUAUUGCUCUUGCAUCCCCGGCCACACUGGCGAUGCAUUGGUGCGUUGUCGACCCAUACCUC---
...(((.(((((((((.(.((...)).))))))))))......(((.((((((((.....)))).((((((.((((.....)))).))))))..))))...))).))).........--- ( -37.30)
>DroPse_CAF1 11611 120 - 1
CGUGUCCAGGCGCUUGCGGGCAGAAUGCCAUUUGUCAGGCGCAUCAACACCGAGCCCUGUGCUCCUGUCCGCCCGGCUACACCGGCGAUGCCUUCACCCGAUGCCUGCCAUUACCUGCUC
......((((.....(((((((....(((........)))(((((......((((.....))))......(((.((.....))))))))))..........))))))).....))))... ( -39.50)
>DroGri_CAF1 12110 117 - 1
CAUGCCCAGGUGCCUGCGGAUACAAUGCAAUUUGCAAGGCUCUACAUCACCGGGCCCAUUGCUCCUGUAUCCCCAGCCACACUGGCGAUCCCCUUGUGCGUUGUCAGCCCAUACCAC---
..((((.(((((.(((.(((((((..(((((..((..((..........))..))..)))))...))))))).))).))).)))))).......((((.((.....)).))))....--- ( -35.40)
>DroSec_CAF1 10323 120 - 1
CUUGUGCGGGUGCUUGUGGUCAGAACGCCAUUUGUCGAGCGCAUCAGCACAGAGCUUAUUGCUCGUGUCAUCCUGGUUAUACAGGUGAUGCCUUCAUGCGCUGCCAGCCCUUGCCUCCGC
.....(((((((((((((((......)))).....)))))))..((((.((((((.....))))((((((.((((......)))))))))).....)).)))).............)))) ( -42.70)
>DroYak_CAF1 3662 120 - 1
CUUGCGCGGGUGCUUGUGGUCAGAACGCUAUUUGUCGAGCGCAUCAGCACAGAGCUUAUUGCUCGUGUCAUCCUGGUUAUACAGGUGAUGCCUUCAUGCGUUGCCAACCCUUGCCUCCGC
.....(((((.((..(.(((..((((((....((..(((.((((((((((.((((.....))))))))...((((......))))))))))))))).))))).)..))))..)).))))) ( -45.50)
>consensus
CUUGCCCGGGUGCUUGUGGUCAGAACGCCAUUUGUCAAGCGCAUCAGCACAGAGCUUAUUGCUCCUGUCAUCCCGGCUACACAGGCGAUGCCUUCAUGCGUUGCCAGCCCUUACCUCCGC
..(((....(((((((....((((......)))).)))))))....)))..((((.....))))...................((((((((......))))))))............... (-21.19 = -21.45 +   0.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:53 2006