Locus 5134

Sequence ID	2R_DroMel_CAF1
Location	16,712,800 – 16,712,898
Length	98
Max. P	0.941960

overview

Window 0

Location	16,712,800 – 16,712,898
Length	98
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	79.40
Mean single sequence MFE	-25.18
Consensus MFE	-17.10
Energy contribution	-17.43
Covariance contribution	0.33
Combinations/Pair	1.21
Mean z-score	-1.26
Structure conservation index	0.68
SVM decision value	0.13
SVM RNA-class probability	0.597542
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16712800 98 + 20766785
GGCGGACAUUAAGAAGCAUUUGCCAUUUGUGUACAAUGUGACGGCUUAUGCCUCGUACUGUUAUCUGCCCGCCUUCAAACAGUAAGUUCGCUAUCU-CU------------
(((((((.....((.((((..(((..(((....)))......)))..)))).)).(((((((...............))))))).)))))))....-..------------ ( -26.46)
>DroVir_CAF1 25236 103 + 1
CGCAGAUAUCAAGAAGCAUUUGCCCUUUGUCUAUAAUGUGACAGCCUAUGCUUCCUACUGCUACUUGCCUGCGUUCAAACAGUAAGUGGGCCAUGCACU-------GCA-A
.((((.......(((((((..((....((((........))))))..)))))))....(((.....(((..(...(.....)...)..)))...)))))-------)).-. ( -30.60)
>DroPse_CAF1 23211 108 + 1
GGCGGACAUCAAGAAGCAUUUGCCAUUCGUGUACAAUGUGACGGCCUAUGCCUCCUACUGCUAUCUGCCCGCCUUCAAACAGUAAGUCGACCAUCC-CAACCCCCUCCC--
(((((.......((.((((..(((..(((..(...)..))).)))..)))).)).....((.....))))))).......................-............-- ( -22.10)
>DroMoj_CAF1 27106 102 + 1
CGCAGAUAUCAAGAAGCAUUUGCCAUUUGUCUACAACGUGACGGCCUAUGCUUCCUAUUGCUAUUUGCCCGCAUUCAAACAGUAAGUC---CGUGGAUGAU-----CUA-G
.(((((((.((((((((((..(((....(((........))))))..)))))))...))).)))))))...((((((.((.....)).---..))))))..-----...-. ( -28.50)
>DroAna_CAF1 26664 103 + 1
GGCGGACAUCAAGAAGCACUUGCCAUUUGUUUACAAUGUGACGGCCUAUGCCUCCUACUGCUAUCUGCCCGCCUUCAAACAGUAAGUUC-CUAUCA-CC------UCCCAG
(((((......(((((((.....((((((....))).)))..(((....)))......)))).)))..)))))................-......-..------...... ( -18.80)
>DroPer_CAF1 22479 108 + 1
GGCGGACAUCAAGAAGCAUUUGCCAUUCGUCUACAAUGUGACGGCCUAUGCCUCCUACUGCUAUCUGCCCGCCUUCAAACAGUAAGUUGACCAUCC-CAACCCCCUCCA--
(((((.......((.((((..(((....(((........))))))..)))).)).....((.....)))))))............((((.......-))))........-- ( -24.60)
>consensus
GGCGGACAUCAAGAAGCAUUUGCCAUUUGUCUACAAUGUGACGGCCUAUGCCUCCUACUGCUAUCUGCCCGCCUUCAAACAGUAAGUUG_CCAUCC_CA_______CCA__
(((((.......((.((((..(((....(((........))))))..)))).)).....((.....)))))))...................................... (-17.10 = -17.43 +   0.33)

alignment

secondary structure

dotplot

Window 1

Location	16,712,800 – 16,712,898
Length	98
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	79.40
Mean single sequence MFE	-34.18
Consensus MFE	-28.52
Energy contribution	-27.67
Covariance contribution	-0.86
Combinations/Pair	1.35
Mean z-score	-2.07
Structure conservation index	0.83
SVM decision value	1.32
SVM RNA-class probability	0.941960
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16712800 98 - 20766785
------------AG-AGAUAGCGAACUUACUGUUUGAAGGCGGGCAGAUAACAGUACGAGGCAUAAGCCGUCACAUUGUACACAAAUGGCAAAUGCUUCUUAAUGUCCGCC
------------..-......(((((.....)))))..((((((((........((.(((((((..(((((....(((....))))))))..))))))).)).)))))))) ( -31.70)
>DroVir_CAF1 25236 103 - 1
U-UGC-------AGUGCAUGGCCCACUUACUGUUUGAACGCAGGCAAGUAGCAGUAGGAAGCAUAGGCUGUCACAUUAUAGACAAAGGGCAAAUGCUUCUUGAUAUCUGCG
.-.((-------((......((..((((.((((......))))..)))).))..((((((((((..((((((........)))....)))..))))))))))....)))). ( -30.30)
>DroPse_CAF1 23211 108 - 1
--GGGAGGGGGUUG-GGAUGGUCGACUUACUGUUUGAAGGCGGGCAGAUAGCAGUAGGAGGCAUAGGCCGUCACAUUGUACACGAAUGGCAAAUGCUUCUUGAUGUCCGCC
--...((..(((((-(.....))))))..)).......((((((((........((((((((((..(((((....(((....))))))))..)))))))))).)))))))) ( -39.20)
>DroMoj_CAF1 27106 102 - 1
C-UAG-----AUCAUCCACG---GACUUACUGUUUGAAUGCGGGCAAAUAGCAAUAGGAAGCAUAGGCCGUCACGUUGUAGACAAAUGGCAAAUGCUUCUUGAUAUCUGCG
.-...-----........((---(((.....)))))...((((((.....))..((((((((((..(((((....(((....))))))))..))))))))))....)))). ( -29.30)
>DroAna_CAF1 26664 103 - 1
CUGGGA------GG-UGAUAG-GAACUUACUGUUUGAAGGCGGGCAGAUAGCAGUAGGAGGCAUAGGCCGUCACAUUGUAAACAAAUGGCAAGUGCUUCUUGAUGUCCGCC
......------..-.(((((-.......)))))....((((((((........((((((((((..(((((....(((....))))))))..)))))))))).)))))))) ( -35.10)
>DroPer_CAF1 22479 108 - 1
--UGGAGGGGGUUG-GGAUGGUCAACUUACUGUUUGAAGGCGGGCAGAUAGCAGUAGGAGGCAUAGGCCGUCACAUUGUAGACGAAUGGCAAAUGCUUCUUGAUGUCCGCC
--...((..(((((-(.....))))))..)).......((((((((........((((((((((..(((((....(((....))))))))..)))))))))).)))))))) ( -39.50)
>consensus
__UGG_______AG_GGAUGG_CAACUUACUGUUUGAAGGCGGGCAGAUAGCAGUAGGAGGCAUAGGCCGUCACAUUGUAGACAAAUGGCAAAUGCUUCUUGAUGUCCGCC
......................................((((((((........((((((((((..(((((....(((....))))))))..)))))))))).)))))))) (-28.52 = -27.67 +  -0.86)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:25 2006