Locus 4755

Sequence ID	2R_DroMel_CAF1
Location	15,652,085 – 15,652,176
Length	91
Max. P	0.998426

overview

Window 0

Location	15,652,085 – 15,652,176
Length	91
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	70.44
Mean single sequence MFE	-30.07
Consensus MFE	-10.90
Energy contribution	-12.89
Covariance contribution	1.99
Combinations/Pair	1.26
Mean z-score	-2.71
Structure conservation index	0.36
SVM decision value	3.10
SVM RNA-class probability	0.998426
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15652085 91 + 20766785
-AAAAGGGUUGAGCUUGGCUG-C-CUACAAGGGCGAGUGCAAAGCGCGCUAUAAAAC----GUCUCUGAGCGCUUUUUGGCAGCCCAUUUAACCCGGC
-....((((((((...(((((-(-(...((((((((((((.....)))))......(----(....))..))))))).)))))))..))))))))... ( -36.60)
>DroSec_CAF1 529327 91 + 1
-AAAAGGUUCGAGCUUGGCUG-C-CAGCAAAGGCGAGUGCAGAGCGCGCUAUAAAAC----GUCUCUGAGUGCUUUUUGGCAGCCCAUUUAACCCGGC
-....((((.((....(((((-(-((..(((((((....(((((.(((........)----)))))))..)))))))))))))))..)).)))).... ( -34.90)
>DroSim_CAF1 426052 91 + 1
-AAAAGGGUUGAGCUUGGCUG-C-CAGCAAAGGCGAGUGCAGAGCGCGCUAUAAAAC----AUCUCUGAGUGCUUUUUGGCAGCCCAUUUAACCCGGC
-....((((((((...(((((-(-((..(((((((....(((((.............----..)))))..)))))))))))))))..))))))))... ( -37.46)
>DroWil_CAF1 824904 85 + 1
---AAGAGUUUAACUU-ACUCACUAUACAAGUAUGUAUGUUAAAUGC------AUAUGUCUGGCUCU---GCCUUUUUGGCAGCCCAUUUAACCCGAC
---..((((.......-)))).........((((((((.....))))------))))...(((..((---(((.....))))).)))........... ( -21.00)
>DroYak_CAF1 448414 70 + 1
AAAAAGGGUUGAGC------------------------ACAAAGCGCGCUAUAAAAC----GGCUCUGAGUGCUUUUUGGCAGCCCAUUUAACCCGGC
.....((((((..(------------------------(.((((((((((.......----))).....))))))).)).))))))............ ( -20.40)
>consensus
_AAAAGGGUUGAGCUUGGCUG_C_CAACAAAGGCGAGUGCAAAGCGCGCUAUAAAAC____GUCUCUGAGUGCUUUUUGGCAGCCCAUUUAACCCGGC
.....((((((.(((((.((..........)).))))).(((((.(((((..................))))).))))).))))))............ (-10.90 = -12.89 +   1.99)

alignment

secondary structure

dotplot

Window 1

Location	15,652,085 – 15,652,176
Length	91
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	70.44
Mean single sequence MFE	-28.47
Consensus MFE	-9.11
Energy contribution	-9.43
Covariance contribution	0.32
Combinations/Pair	1.29
Mean z-score	-2.39
Structure conservation index	0.32
SVM decision value	2.19
SVM RNA-class probability	0.989928
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15652085 91 - 20766785
GCCGGGUUAAAUGGGCUGCCAAAAAGCGCUCAGAGAC----GUUUUAUAGCGCGCUUUGCACUCGCCCUUGUAG-G-CAGCCAAGCUCAACCCUUUU-
...(((((.....(((((((..(((((((.(......----........).)))))))((....)).......)-)-)))))......)))))....- ( -31.74)
>DroSec_CAF1 529327 91 - 1
GCCGGGUUAAAUGGGCUGCCAAAAAGCACUCAGAGAC----GUUUUAUAGCGCGCUCUGCACUCGCCUUUGCUG-G-CAGCCAAGCUCGAACCUUUU-
..((((((.....((((((((.(((((...(((((.(----(((....))))..))))).....).))))..))-)-))))).))))))........- ( -32.50)
>DroSim_CAF1 426052 91 - 1
GCCGGGUUAAAUGGGCUGCCAAAAAGCACUCAGAGAU----GUUUUAUAGCGCGCUCUGCACUCGCCUUUGCUG-G-CAGCCAAGCUCAACCCUUUU-
...(((((.....((((((((.(((((...(((((.(----(((....))))..))))).....).))))..))-)-)))))......)))))....- ( -32.30)
>DroWil_CAF1 824904 85 - 1
GUCGGGUUAAAUGGGCUGCCAAAAAGGC---AGAGCCAGACAUAU------GCAUUUAACAUACAUACUUGUAUAGUGAGU-AAGUUAAACUCUU---
...(((((...(((.(((((.....)))---))..))).......------.....((((.(((.((((.....)))).))-).)))))))))..--- ( -22.80)
>DroYak_CAF1 448414 70 - 1
GCCGGGUUAAAUGGGCUGCCAAAAAGCACUCAGAGCC----GUUUUAUAGCGCGCUUUGU------------------------GCUCAACCCUUUUU
...((((....((((((((......)))..(((((((----(((....)))).)))))).------------------------)))))))))..... ( -23.00)
>consensus
GCCGGGUUAAAUGGGCUGCCAAAAAGCACUCAGAGAC____GUUUUAUAGCGCGCUUUGCACUCGCCCUUGCAG_G_CAGCCAAGCUCAACCCUUUU_
...((((....((((((((......))...(((((...................)))))........................))))))))))..... ( -9.11 =  -9.43 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:34 2006