Locus 2841

Sequence ID	X_DroMel_CAF1
Location	7,571,923 – 7,572,021
Length	98
Max. P	0.608470

overview

Window 0

Location	7,571,923 – 7,572,021
Length	98
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	68.76
Mean single sequence MFE	-25.20
Consensus MFE	-9.42
Energy contribution	-8.90
Covariance contribution	-0.52
Combinations/Pair	1.56
Mean z-score	-1.77
Structure conservation index	0.37
SVM decision value	0.15
SVM RNA-class probability	0.608470
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7571923 98 + 22224390
CGCUCAUGGGGAUGAGCAGGGCAAUCUGUAGAGGUAAGCAA-------UCGAGUCAGA-------AAAGUAAAUAUUAGAAAAGCAGCUAUAAAUGCUAACCAGAGAGUGCA
.((((((....))))))...(((.(((.(...(((.((((.-------((......))-------...........(((........)))....)))).)))).))).))). ( -21.50)
>DroPse_CAF1 2406 110 + 1
CGCUCAUCGGAAUGAGCAGAGCGAUCUACAAAAACGAAUGAACGAUGAUCGAUUAGCAUUCUUCCAAUGU-AAUGUUGGAUGAGU-GCCAUGAGUGCUCACCAGGGAGUGAA
(((((...((..((((((...(((((....................)))))....((((((.((((((..-...)))))).))))-))......))))))))...))))).. ( -35.95)
>DroSec_CAF1 1840 98 + 1
CGCUCAUGGGGAUGAGCAGGGCAAUCUGUAGAGGUAAACAA-------UUGAGUCAUU-------AAAGUAAAUAAUAGAAAAGCAGAUAUAAAUGCUAACCAAAGAGUGCA
.((((((....))))))...(((.(((.....(((......-------((((....))-------))...............((((........)))).)))..))).))). ( -19.20)
>DroEre_CAF1 11400 94 + 1
CGCUCAUGGGGAUGAGAAGGGCAAUCUGUAG-GGCAAGCAA-------UUUAGUUAGA-------UAAGUAAAUA---AAAGGGCUGUUAUAACUGCUUACCAGAGAAUGCA
..(((((....)))))....(((.(((.(.(-(..(((((.-------....((((..-------..(((.....---.....)))....))))))))).))).))).))). ( -20.30)
>DroYak_CAF1 10008 98 + 1
CGCUCAUGGGUAUGAGUAGGGCAAUCUGUAGAGGCAAGUAA-------UUAAGUAAGA-------AAUGUAAAUAGUAGAAGCGCUAAUAUAACUGCUUACCAGAGAAUGCA
.((((((....))))))...(((.((((...(((((.((..-------.......(..-------..).....((((......)))).....)))))))..))))...))). ( -18.20)
>DroPer_CAF1 2385 109 + 1
CGCUCAUCGGAAUGAGCAGAGCGAUCUACAAAAACGAGUGAACGAUGAUCGAUUAGCAUUCUUCCAAUGU-AAUGUUGGAUGAGU-GCCAUUA-UGCUCACCAGGGAGUGAA
(((((...((..((((((...(((((....................)))))....((((((.((((((..-...)))))).))))-)).....-))))))))...))))).. ( -36.05)
>consensus
CGCUCAUGGGGAUGAGCAGGGCAAUCUGUAGAGGCAAGCAA_______UCGAGUAAGA_______AAAGUAAAUAUUAGAAGAGC_GCUAUAAAUGCUAACCAGAGAGUGCA
.((((((....))))))...(((.(((((........))..........................................((((..........)))).....))).))). ( -9.42 =  -8.90 +  -0.52)

alignment

secondary structure

dotplot

Window 1

Location	7,571,923 – 7,572,021
Length	98
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	68.76
Mean single sequence MFE	-20.97
Consensus MFE	-7.26
Energy contribution	-7.82
Covariance contribution	0.56
Combinations/Pair	1.28
Mean z-score	-1.83
Structure conservation index	0.35
SVM decision value	0.15
SVM RNA-class probability	0.605618
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7571923 98 - 22224390
UGCACUCUCUGGUUAGCAUUUAUAGCUGCUUUUCUAAUAUUUACUUU-------UCUGACUCGA-------UUGCUUACCUCUACAGAUUGCCCUGCUCAUCCCCAUGAGCG
.(((.(((..(((.((((....(((........)))...........-------((......))-------.)))).))).....))).)))...((((((....)))))). ( -17.30)
>DroPse_CAF1 2406 110 - 1
UUCACUCCCUGGUGAGCACUCAUGGC-ACUCAUCCAACAUU-ACAUUGGAAGAAUGCUAAUCGAUCAUCGUUCAUUCGUUUUUGUAGAUCGCUCUGCUCAUUCCGAUGAGCG
..........(((((.......((((-(.((.(((((....-...))))).)).))))).....)))))(((((((.(.....(((((....))))).....).))))))). ( -28.70)
>DroSec_CAF1 1840 98 - 1
UGCACUCUUUGGUUAGCAUUUAUAUCUGCUUUUCUAUUAUUUACUUU-------AAUGACUCAA-------UUGUUUACCUCUACAGAUUGCCCUGCUCAUCCCCAUGAGCG
.(((.(((.(((..((((........))))......(((((......-------))))).....-------..........))).))).)))...((((((....)))))). ( -16.00)
>DroEre_CAF1 11400 94 - 1
UGCAUUCUCUGGUAAGCAGUUAUAACAGCCCUUU---UAUUUACUUA-------UCUAACUAAA-------UUGCUUGCC-CUACAGAUUGCCCUUCUCAUCCCCAUGAGCG
.(((.(((..(((((((((((.............---..........-------........))-------)))))))))-....))).)))....(((((....))))).. ( -19.58)
>DroYak_CAF1 10008 98 - 1
UGCAUUCUCUGGUAAGCAGUUAUAUUAGCGCUUCUACUAUUUACAUU-------UCUUACUUAA-------UUACUUGCCUCUACAGAUUGCCCUACUCAUACCCAUGAGCG
.(((.(((..((((((.(((((.........................-------.......)))-------)).)))))).....))).)))....(((((....))))).. ( -15.45)
>DroPer_CAF1 2385 109 - 1
UUCACUCCCUGGUGAGCA-UAAUGGC-ACUCAUCCAACAUU-ACAUUGGAAGAAUGCUAAUCGAUCAUCGUUCACUCGUUUUUGUAGAUCGCUCUGCUCAUUCCGAUGAGCG
..........(((((...-...((((-(.((.(((((....-...))))).)).))))).....)))))(((((.(((.....(((((....)))))......)))))))). ( -28.80)
>consensus
UGCACUCUCUGGUAAGCAGUUAUAGC_GCUCUUCUAAUAUUUACAUU_______UCUUACUCAA_______UUACUUGCCUCUACAGAUUGCCCUGCUCAUCCCCAUGAGCG
.(((.(((..((((((..........................................................)))))).....))).)))...((((((....)))))). ( -7.26 =  -7.82 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:49 2006