Locus 6870

Sequence ID X_DroMel_CAF1
Location 17,156,689 – 17,156,806
Length 117
Max. P 0.895473
window11242 window11243

overview

Window 2

Location 17,156,689 – 17,156,806
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.51
Mean single sequence MFE -49.25
Consensus MFE -30.55
Energy contribution -29.92
Covariance contribution -0.63
Combinations/Pair 1.52
Mean z-score -2.13
Structure conservation index 0.62
SVM decision value 0.69
SVM RNA-class probability 0.823109
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17156689 117 + 22224390
CCUAUUUGAGCGCCUGGCCAUACGCGGCCGCCGCUGCCGCCCAAUCGCCCCAC---GGGGCCACGCCCUCCGCGAUCGAUAUCUAUUACCGCCAGGCAGCCGCUGCAGCGGCCAUGCAAA
.........(((((((((.....(((((.......)))))...(((((((...---.))))..(((.....)))...)))..........))))))).(((((....)))))...))... ( -49.10)
>DroVir_CAF1 2510 117 + 1
CCUAUUUGAGCGCCUGGCCGUAUGCAGCCGCUGCGGCAGCACAGACACCGCAC---GGUGCACCGCCCUCGGCCAUUGAUAUAUACUAUCGCCAAGCGGCAGCAGCCGCCGCACUCCAGA
.......(((.((..(((.((.(((.((((((..(((......(.((((....---)))))...(((...)))....((((.....))))))).)))))).))))).))))).))).... ( -42.00)
>DroPse_CAF1 14151 117 + 1
CCUAUCUGAGUGCCUGGCCAUAUGCGGCGGCCGCUGCCGCCCAGUCCCCGCAC---GGCGCCCCACCCUCGGCCAUCGAUAUCUACUACCGCCAGGCGGCGGCCGCCGCCGCCCUGCAGA
..........(((..(((.....(((((((((((((((((.........))..---((((((........)))....(....).......))).))))))))))))))).)))..))).. ( -52.60)
>DroGri_CAF1 2126 117 + 1
CCUACUUGAGCGCCUGGCCGUAUGCGGCAGCCGCCGCUGCCCAAUCGCCACAC---GGUGCACCUCCCUCGGCGAUUGAUAUUUAUUAUCGGCAAGCGGCCGCAGCCGCCGCGUUGCAGA
.....((((((((..((((((.(((((((((....))))))((((((((....---((.......))...)))))))).............))).))))))((....)).))))).))). ( -48.90)
>DroWil_CAF1 35328 120 + 1
CCUAUUUGAGUGCUUGGCCAUAUGCAGCCGCUGCUGCGACACAAUCACCGCAUGGCGGUGCCCCGCCCUCAGCAAUUGAUAUCUAUUAUCGUCAGGCAGCAGCGGCAGCUGCCCUGCAAA
..........(((..(((.....((.((((((((((((((.........((..(((((....)))))....))....((((.....)))))))..))))))))))).)).)))..))).. ( -50.30)
>DroPer_CAF1 9078 117 + 1
CCUAUCUGAGUGCCUGGCCAUAUGCGGCGGCCGCUGCCGCCCAGUCCCCGCAC---GGCGCCCCACCCUCGGCCAUCGAUAUCUACUACCGCCAGGCGGCGGCCGCCGCCGCCCUGCAGA
..........(((..(((.....(((((((((((((((((.........))..---((((((........)))....(....).......))).))))))))))))))).)))..))).. ( -52.60)
>consensus
CCUAUUUGAGCGCCUGGCCAUAUGCGGCCGCCGCUGCCGCCCAAUCACCGCAC___GGUGCCCCGCCCUCGGCCAUCGAUAUCUACUACCGCCAGGCGGCAGCAGCCGCCGCCCUGCAGA
....((((..((((((((.....(((((....)))))...........(((......)))..............................))))))))(((((....)))))....)))) (-30.55 = -29.92 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 17,156,689 – 17,156,806
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.51
Mean single sequence MFE -60.03
Consensus MFE -36.77
Energy contribution -36.92
Covariance contribution 0.14
Combinations/Pair 1.42
Mean z-score -2.47
Structure conservation index 0.61
SVM decision value 0.99
SVM RNA-class probability 0.895473
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17156689 117 - 22224390
UUUGCAUGGCCGCUGCAGCGGCUGCCUGGCGGUAAUAGAUAUCGAUCGCGGAGGGCGUGGCCCC---GUGGGGCGAUUGGGCGGCAGCGGCGGCCGCGUAUGGCCAGGCGCUCAAAUAGG
...((..((((((....))))))(((((((.(((.......((((((((.....))...((((.---...))))))))))(((((.......))))).))).)))))))))......... ( -57.80)
>DroVir_CAF1 2510 117 - 1
UCUGGAGUGCGGCGGCUGCUGCCGCUUGGCGAUAGUAUAUAUCAAUGGCCGAGGGCGGUGCACC---GUGCGGUGUCUGUGCUGCCGCAGCGGCUGCAUACGGCCAGGCGCUCAAAUAGG
....((((((.(((((((((((..((((((((((.....))))....))))))(((((((((((---....)))))....)))))))))))))))))...(.....)))))))....... ( -58.00)
>DroPse_CAF1 14151 117 - 1
UCUGCAGGGCGGCGGCGGCCGCCGCCUGGCGGUAGUAGAUAUCGAUGGCCGAGGGUGGGGCGCC---GUGCGGGGACUGGGCGGCAGCGGCCGCCGCAUAUGGCCAGGCACUCAGAUAGG
..(((..(((.(((((((((.((((((..((((....(....)....)))).)))))).(((((---((.((....).).))))).))))))))))).....)))..))).......... ( -63.90)
>DroGri_CAF1 2126 117 - 1
UCUGCAACGCGGCGGCUGCGGCCGCUUGCCGAUAAUAAAUAUCAAUCGCCGAGGGAGGUGCACC---GUGUGGCGAUUGGGCAGCGGCGGCUGCCGCAUACGGCCAGGCGCUCAAGUAGG
.((((...(((((((((...((((((.(((((((.....))))((((((((.((........))---...)))))))).))))))))))))))))))....(((.....)))...)))). ( -57.30)
>DroWil_CAF1 35328 120 - 1
UUUGCAGGGCAGCUGCCGCUGCUGCCUGACGAUAAUAGAUAUCAAUUGCUGAGGGCGGGGCACCGCCAUGCGGUGAUUGUGUCGCAGCAGCGGCUGCAUAUGGCCAAGCACUCAAAUAGG
..(((..(((.((.(((((((((((..(((((((.....))))(((..(((..(((((....)))))...)))..)))..)))))))))))))).)).....)))..))).......... ( -59.30)
>DroPer_CAF1 9078 117 - 1
UCUGCAGGGCGGCGGCGGCCGCCGCCUGGCGGUAGUAGAUAUCGAUGGCCGAGGGUGGGGCGCC---GUGCGGGGACUGGGCGGCAGCGGCCGCCGCAUAUGGCCAGGCACUCAGAUAGG
..(((..(((.(((((((((.((((((..((((....(....)....)))).)))))).(((((---((.((....).).))))).))))))))))).....)))..))).......... ( -63.90)
>consensus
UCUGCAGGGCGGCGGCGGCCGCCGCCUGGCGAUAAUAGAUAUCAAUGGCCGAGGGCGGGGCACC___GUGCGGCGACUGGGCGGCAGCGGCGGCCGCAUAUGGCCAGGCACUCAAAUAGG
((((...((((((....))))))(((((((((((.....))))....((..........((((....))))........((((((....)))))))).....)))))))...)))).... (-36.77 = -36.92 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:51 2006