Locus 5571

Sequence ID	3R_DroMel_CAF1
Location	14,733,290 – 14,733,490
Length	200
Max. P	0.985807

overview

Window 0

Location	14,733,290 – 14,733,410
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	95.50
Mean single sequence MFE	-42.47
Consensus MFE	-39.74
Energy contribution	-39.55
Covariance contribution	-0.19
Combinations/Pair	1.08
Mean z-score	-1.61
Structure conservation index	0.94
SVM decision value	2.02
SVM RNA-class probability	0.985807
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14733290 120 + 27905053
GAAGAAGCUCGGCGAGGACAACAGCGUGUUCGCGCAGGCGCUCGUCGAAUUCGGCGAAGCGCUGAAACAGAUGGCCGACGUCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUU
.((((((.((.(((((.((......)).)))))((.(((((((((((....))))).))))))......((((.....((((.(((....))).))))....))))..)).)).)))))) ( -44.90)
>DroPse_CAF1 3029 120 + 1
UAAGAAGCUCGGCGAGGACAACAGCGUGUUUGCGCAGGCGCUCGUCGAGUUUGGCGAGUCGCUGAAACAGAUGGCCGACGUCAAGUACUCGCUGGACGACAAUAUCAAGCAGAACUUUUU
......(((((((((((....(.((((....)))).).).))))))))(((..((((((.(((......((((.....)))).)))))))))..)))...........)).......... ( -39.80)
>DroGri_CAF1 304 120 + 1
UAAGAAGCUCGGCGAGGACAACAGCGUGUUUGCGCAGGCGCUCGUCGAAUUCGGCGAAGCGCUGAAACAAAUGGCCGACGUCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUU
......(((((((..........((((....)))).(((((((((((....))))).))))))..........)))))((((.(((....))).))))..........)).......... ( -40.70)
>DroWil_CAF1 304 120 + 1
UAAGAAGCUCGGCGAGGACAACAGCGUGUUCGCGCAGGCGCUCGUCGAAUUCGGCGAGGCGCUGAAGCAGAUGGCCGACGUCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUU
.((((((.((.(((((.((......)).)))))((.(((((((((((....)))))).)))))......((((.....((((.(((....))).))))....))))..)).)).)))))) ( -44.70)
>DroAna_CAF1 304 120 + 1
GAAGAAGCUCGGCGAGGACAACAGCGUGUUCGCGCAGGCGCUCGUCGAGUUCGGCGAGGCGCUAAAACAGAUGGCCGACGUCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUU
.((((((.((.(((((.((......)).)))))((.(((((((((((....)))))).)))))......((((.....((((.(((....))).))))....))))..)).)).)))))) ( -44.90)
>DroPer_CAF1 3060 120 + 1
UAAGAAGCUCGGCGAGGACAACAGCGUGUUUGCGCAGGCGCUCGUCGAGUUUGGCGAGUCGCUGAAACAGAUGGCCGACGUCAAGUACUCGCUGGACGACAAUAUCAAGCAGAACUUUUU
......(((((((((((....(.((((....)))).).).))))))))(((..((((((.(((......((((.....)))).)))))))))..)))...........)).......... ( -39.80)
>consensus
UAAGAAGCUCGGCGAGGACAACAGCGUGUUCGCGCAGGCGCUCGUCGAAUUCGGCGAGGCGCUGAAACAGAUGGCCGACGUCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUU
.((((((.((.(((((.((......)).)))))((.(((((((((((....)))))).)))))......((((.....((((.(((....))).))))....))))..)).)).)))))) (-39.74 = -39.55 +  -0.19)

alignment

secondary structure

dotplot

Window 1

Location	14,733,370 – 14,733,490
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	93.94
Mean single sequence MFE	-35.52
Consensus MFE	-33.46
Energy contribution	-33.47
Covariance contribution	0.00
Combinations/Pair	1.12
Mean z-score	-1.12
Structure conservation index	0.94
SVM decision value	0.75
SVM RNA-class probability	0.841252
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14733370 120 + 27905053
UCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUUGGAGCCACUGCAUCAUAUGCAGACCAAAGACCUCAAGGAGGUAAUGCAUCAUCGCAAGAAGCUGCAGGGCCGGCGGCUAG
(((((..((((((.((........)).))).)))...)))))((((.((((((...)))))).((.....((....)).(((..((((.(.((....)).).))))..))))).)))).. ( -35.80)
>DroVir_CAF1 384 120 + 1
UCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUUGGAGCCUCUGCAUCAUAUGCAGACCAAAGACCUAAAGGAGGUCAUGCACCAUCGAAAGAAGCUGCAGGGCCGGCGUCUCG
.........((((((.(((.....))..((((..((((((((.((.(((((((...))))))).....(((((.....)))))..)).)))..)))))...)))).)..))))))..... ( -37.40)
>DroPse_CAF1 3109 120 + 1
UCAAGUACUCGCUGGACGACAAUAUCAAGCAGAACUUUUUGGAGCCCCUGCAUCAUAUGCAGAUGAAAGACCUCAAGGAGGUUAUGCACCAUCGCAAGAAGCUGCAGGGCCGGCGCCUCG
.........((((((.(((.....))..((((.......(((.((..((((((...))))))......((((((...))))))..)).)))((....))..)))).)..))))))..... ( -34.70)
>DroWil_CAF1 384 120 + 1
UCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUUGGAGCCACUGCAUCAUAUGCAGACCAAAGACCUCAAAGAGGUAAUGCACCAUCGAAAGAAACUGCAGGGUCGGCGCCUCG
..((((.(..(((.((........)).)))..)))))...((.(((..(((((...)))))((((....(((((...)))))..((((...((....))...)))).))))))).))... ( -34.10)
>DroMoj_CAF1 384 120 + 1
UCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUUGGAGCCCCUGCAUCAUAUGCAGACCAAAGACCUUAAGGAGGUCAUGCACCAUCGAAAGAAGCUGCAGGGCCGGCGUCUCG
.........((((((.(((.....))..((((..((((((((.((..((((((...))))))......((((((...))))))..)).)))..)))))...)))).)..))))))..... ( -36.40)
>DroPer_CAF1 3140 120 + 1
UCAAGUACUCGCUGGACGACAAUAUCAAGCAGAACUUUUUGGAGCCCCUGCAUCAUAUGCAGAUGAAAGACCUCAAGGAGGUUAUGCACCAUCGCAAGAAGCUGCAGGGCCGGCGCCUCG
.........((((((.(((.....))..((((.......(((.((..((((((...))))))......((((((...))))))..)).)))((....))..)))).)..))))))..... ( -34.70)
>consensus
UCAAGUAUUCGCUGGACGACAACAUCAAGCAGAACUUUUUGGAGCCCCUGCAUCAUAUGCAGACCAAAGACCUCAAGGAGGUAAUGCACCAUCGAAAGAAGCUGCAGGGCCGGCGCCUCG
.........((((((.(((.....))..((((.......(((.((..((((((...))))))......((((((...))))))..)).)))((....))..)))).)..))))))..... (-33.46 = -33.47 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:22 2006