Locus 876

Sequence ID	X_DroMel_CAF1
Location	2,458,351 – 2,458,499
Length	148
Max. P	0.800404

overview

Window 5

Location	2,458,351 – 2,458,459
Length	108
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	74.91
Mean single sequence MFE	-36.90
Consensus MFE	-16.80
Energy contribution	-18.00
Covariance contribution	1.20
Combinations/Pair	1.43
Mean z-score	-2.04
Structure conservation index	0.46
SVM decision value	0.61
SVM RNA-class probability	0.800404
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2458351 108 + 22224390
UGUAAUUUCCUAUUCCUGUCCUGCAGGGUGCGCACCUGUUCCUUAAGCCGCUGGAUCUCGGCUGCAUUGGCCAUUGAACCAGCUAGUGACUCCUC------ACAGGGAAUGGCA
.........((((((((.....(((((.......)))))..........(((((.((..((((.....))))...)).)))))..((((....))------)).)))))))).. ( -34.60)
>DroPse_CAF1 5644 111 + 1
UGUAGCUUACGGGUCUUCUCCUGCAGCGUCUUUACCAAAUCCUUUAGACCCUGUUGGUCAGCAGCA---GCCGUAGAGGAUGCUGAUGUACCAUCAGCGCCACUUGGCAGCGGA
....(((..((((......)))).))).......((..((((((((....((((((.....)))))---)...))))))))(((((((...)))))))(((....)))...)). ( -37.40)
>DroSec_CAF1 2421 108 + 1
UGUAAUUUCCUAUUCCUGUCCUGCAGGGUGCGCACCUGAUUCUUAAGCAGCUGGAUCUCGGCCGCAUUGGCCAUUGAACCAGCUAGUGAAUCCUC------ACAGGAAAUGGCA
.((.(((((((...((((.....))))(((.(.....(((((....((((((((.((..((((.....))))...)).)))))).)))))))).)------))))))))).)). ( -38.30)
>DroSim_CAF1 3249 108 + 1
UGUAAUUUCCUAUUCCUGUCCUGCAGGCUACGCACCUGAUCCUUAAGCAGCUGGAUCUCGGCCGCAUUGGCCAUUGAACCAGCUAGUGAAUCCUC------ACAGGAAAUGGCA
.((.(((((((...((((.....)))).....................((((((.((..((((.....))))...)).)))))).((((....))------))))))))).)). ( -35.50)
>DroEre_CAF1 17894 108 + 1
UGUAGUUUUUUAAUCCUGUCCUGCAGGGUGCGCACUUCUUCCUUGUGGCGCUUAUACUCGGCUUCAUUGGCUACUGAACCAGCUAGUGAAUCCCC------ACAGGGAAUCUCA
.(.(((......((((((.....))))))....))).)((((((((((.(((.......)))((((((((((........))))))))))...))------))))))))..... ( -35.00)
>DroYak_CAF1 16302 108 + 1
UGCAGUUUCCUGUUCCUGUCCAGCAGGGUGCGCACCUGUUCCUUGACGCGCUGGUACUCGGCUGCAUUGGCCAUUGAACCAGCUAGUGACUCCUC------ACAGGGAAUAGCA
(((.((.(((((((.......))))))).))))).(((((((((.....((((((.(..((((.....))))...).))))))..((((....))------))))))))))).. ( -40.60)
>consensus
UGUAAUUUCCUAUUCCUGUCCUGCAGGGUGCGCACCUGAUCCUUAAGCCGCUGGAUCUCGGCUGCAUUGGCCAUUGAACCAGCUAGUGAAUCCUC______ACAGGGAAUGGCA
.((.(((((((..(((((.....))))).....................(((((.....((((.....))))......)))))....................))))))).)). (-16.80 = -18.00 +   1.20)

alignment

secondary structure

dotplot

Window 6

Location	2,458,391 – 2,458,499
Length	108
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	74.91
Mean single sequence MFE	-38.20
Consensus MFE	-14.14
Energy contribution	-15.95
Covariance contribution	1.81
Combinations/Pair	1.30
Mean z-score	-2.23
Structure conservation index	0.37
SVM decision value	0.48
SVM RNA-class probability	0.752788
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2458391 108 + 22224390
CCUUAAGCCGCUGGAUCUCGGCUGCAUUGGCCAUUGAACCAGCUAGUGACUC------CUCACAGGGAAUGGCACCCAAGCCUGCGGCUCCAACAGCGCUAAUUAAGGAACUGC
((((((((((((((.((..((((.....))))...)).)))))..((((...------.)))).......))).....((((((.(....)..))).)))..))))))...... ( -35.20)
>DroSec_CAF1 2461 108 + 1
UCUUAAGCAGCUGGAUCUCGGCCGCAUUGGCCAUUGAACCAGCUAGUGAAUC------CUCACAGGAAAUGGCACCCAAGCCUACGGCUCCAACAGCGCUGGUUAAGGAACUGC
((((((.(((((((.((..((((.....))))...)).)))(((.((((...------.)))).(((...(((......)))......)))...))))))).))))))...... ( -36.80)
>DroSim_CAF1 3289 107 + 1
CCUUAAGCAGCUGGAUCUCGGCCGCAUUGGCCAUUGAACCAGCUAGUGAAUC------CUCACAGGAAAUGGCACCCAAGCCUACGGCUCCAACAGCGCUGGUUAA-GAACUAC
.(((((.(((((((.((..((((.....))))...)).)))(((.((((...------.)))).(((...(((......)))......)))...))))))).))))-)...... ( -36.40)
>DroEre_CAF1 17934 108 + 1
CCUUGUGGCGCUUAUACUCGGCUUCAUUGGCUACUGAACCAGCUAGUGAAUC------CCCACAGGGAAUCUCACCCAAGCCAGCUAUUUCAACAGCUCUACUUAUAGAGCUGG
((((((((.(((.......)))((((((((((........))))))))))..------.))))))))..........................((((((((....)))))))). ( -36.80)
>DroYak_CAF1 16342 108 + 1
CCUUGACGCGCUGGUACUCGGCUGCAUUGGCCAUUGAACCAGCUAGUGACUC------CUCACAGGGAAUAGCACCCAAGCCAGCGGCUCCAACUGCACUAGUUAUAGAGCUGC
.......((((((((.(..((((.....))))...).))))))..((((...------.)))).(((.......)))..))..(((((((.(((((...)))))...))))))) ( -35.70)
>DroAna_CAF1 17254 114 + 1
CCUUCAGCCGCUUGAUCUCCUCGGCCUGGGCAGCGGAUCCUGAAAGGGAAUCGGCCUCCGAACUCGGCACAGAACUCAACCCAGCAGAGCCCAUGGCACUGGUGAUCGAGCUGC
......((.((((((((.((...((((((((.((.((((((....))).))).))..(((....))).....................))))).)))...)).)))))))).)) ( -48.30)
>consensus
CCUUAAGCCGCUGGAUCUCGGCUGCAUUGGCCAUUGAACCAGCUAGUGAAUC______CUCACAGGGAAUGGCACCCAAGCCAGCGGCUCCAACAGCGCUAGUUAAAGAACUGC
.........((((......((((((...(((..............((((..........)))).(((.......)))..))).))))))....))))................. (-14.14 = -15.95 +   1.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:05 2006