Locus 6385

Sequence ID	X_DroMel_CAF1
Location	16,029,522 – 16,029,642
Length	120
Max. P	0.921605

overview

Window 2

Location	16,029,522 – 16,029,642
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	94.10
Mean single sequence MFE	-35.93
Consensus MFE	-34.72
Energy contribution	-34.83
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-2.06
Structure conservation index	0.97
SVM decision value	1.14
SVM RNA-class probability	0.921605
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16029522 120 + 22224390
AUUGAUUUUACACCCAUGUGUCCAAAGAGUCACGGUCUGGAGUAGCCGACCGAUUCGGAUUCGCUGGAAAUAAUGUCCAGUCGAUCCGUUUGCAAAUAUGUAUAUCUGGCUCAAUAAUAA
.........((((....)))).....(((((((((((.((.....)))))))...((((((.((((((.......)))))).))))))..((((....))))....))))))........ ( -35.50)
>DroEre_CAF1 97483 116 + 1
AUUGAUUCUACACCCAUGUGUCCAAAGAGUCACGGUCUGGAGUAGCCGACCGAUGCGGAUUCGCUGGAAAUAGUGUCCAGUCGAGCCGUUUGCAAAUA----UAUCUGGCUCAAUAAUAG
.........((((....)))).....(((((((((((.((.....)))))))..((((.(((((((((.......))))).)))))))).........----....))))))........ ( -35.00)
>DroYak_CAF1 80209 116 + 1
AUUGAUUCUACACCCAUGUGUCCAAAGAGUCACGGUCUGGAGUAGCCGACCGAUUCGGGUUCGCUGGAAAUAGUGUCCAGUCGACCCGUUUGCAAAUA----UAUCUGGCUCAAUAAUAA
.........((((....)))).....(((((((((((.((.....)))))))...((((((.((((((.......)))))).))))))..........----....))))))........ ( -37.30)
>consensus
AUUGAUUCUACACCCAUGUGUCCAAAGAGUCACGGUCUGGAGUAGCCGACCGAUUCGGAUUCGCUGGAAAUAGUGUCCAGUCGACCCGUUUGCAAAUA____UAUCUGGCUCAAUAAUAA
.........((((....)))).....(((((((((((.((.....)))))))...((((((.((((((.......)))))).))))))..................))))))........ (-34.72 = -34.83 +   0.11)

alignment

secondary structure

dotplot

Window 3

Location	16,029,522 – 16,029,642
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.10
Mean single sequence MFE	-33.00
Consensus MFE	-31.85
Energy contribution	-31.97
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.48
Structure conservation index	0.97
SVM decision value	0.15
SVM RNA-class probability	0.605852
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16029522 120 - 22224390
UUAUUAUUGAGCCAGAUAUACAUAUUUGCAAACGGAUCGACUGGACAUUAUUUCCAGCGAAUCCGAAUCGGUCGGCUACUCCAGACCGUGACUCUUUGGACACAUGGGUGUAAAAUCAAU
.....(((((.(((((................(((((((.(((((.......))))))).)))))...(((((((.....)).)))))......)))))((((....))))....))))) ( -32.70)
>DroEre_CAF1 97483 116 - 1
CUAUUAUUGAGCCAGAUA----UAUUUGCAAACGGCUCGACUGGACACUAUUUCCAGCGAAUCCGCAUCGGUCGGCUACUCCAGACCGUGACUCUUUGGACACAUGGGUGUAGAAUCAAU
......(((((((.....----...........)))))))(((((.......))))).((.((..((((((((((.....)).))))(((.((....)).)))...))))..)).))... ( -31.59)
>DroYak_CAF1 80209 116 - 1
UUAUUAUUGAGCCAGAUA----UAUUUGCAAACGGGUCGACUGGACACUAUUUCCAGCGAACCCGAAUCGGUCGGCUACUCCAGACCGUGACUCUUUGGACACAUGGGUGUAGAAUCAAU
.....(((((.(((((..----..........(((((((.(((((.......))))))).)))))...(((((((.....)).)))))......)))))((((....))))....))))) ( -34.70)
>consensus
UUAUUAUUGAGCCAGAUA____UAUUUGCAAACGGAUCGACUGGACACUAUUUCCAGCGAAUCCGAAUCGGUCGGCUACUCCAGACCGUGACUCUUUGGACACAUGGGUGUAGAAUCAAU
.....(((((.(((((................(((((((.(((((.......))))))).)))))...(((((((.....)).)))))......)))))((((....))))....))))) (-31.85 = -31.97 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:23 2006