Locus 3743

Sequence ID	2R_DroMel_CAF1
Location	12,361,038 – 12,361,135
Length	97
Max. P	0.993297

overview

Window 7

Location	12,361,038 – 12,361,135
Length	97
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	97.11
Mean single sequence MFE	-17.74
Consensus MFE	-17.06
Energy contribution	-17.26
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.55
Structure conservation index	0.96
SVM decision value	1.72
SVM RNA-class probability	0.973674
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12361038 97 + 20766785
CAAUUGAUGGCCCGCACAUUUGUCUUUCACUUGUCGCCUUGCCGUCUUGUCUUGCACCUUCAUCAGCCAUCUCUUUCAUUGUGCGCAUACCCAUCUC
.....((((((..(((((..((.....))..))).))...)))))).......((((.......................))))............. ( -16.20)
>DroSec_CAF1 19909 97 + 1
CAAUUGAUGGGCCGCACAUUUGUCUUUCACUUGUCGCCUUGCCGUCUUGUCUUGCACCUUCAUCAGCCAUCUCUUUCAUUGUGCGCAUACCCAUCUC
.....((((((.((((((..........((..(.((......)).)..))...((..........))............))))))....)))))).. ( -18.10)
>DroSim_CAF1 20354 96 + 1
CAAUUGAUGGGCCGCACAUUUGUCUUUCACUUGUCGCCUUGCCGUCUUGUCUUGCAC-UUCAUCAGCCAUCUCUUUCAUUGUGCGCAUACCCAUCUC
.....((((((.((((((..........((..(.((......)).)..))...((..-.......))............))))))....)))))).. ( -18.20)
>DroEre_CAF1 20168 97 + 1
CAAUUGAUGGGCCGCACAUUUGUCUUUCACUUGUCGCCUUGCCGUCUUGUCUUGCACCUUCACCAGCCAUCUCUUUCAUUGUGCGACUACCCAUCUC
.....((((((.((((((..........((..(.((......)).)..))...((..........))............))))))....)))))).. ( -18.10)
>DroYak_CAF1 20895 97 + 1
CAAUUGAUGGGCCGCACAUUUGUCUUUCACUUGUCGCCUUGCCGUCUUGUCUUGCACCUUCAUCAGCCAUCCCUUUCAUUGUGCGACUACCCAUCUC
.....((((((.((((((..........((..(.((......)).)..))...((..........))............))))))....)))))).. ( -18.10)
>consensus
CAAUUGAUGGGCCGCACAUUUGUCUUUCACUUGUCGCCUUGCCGUCUUGUCUUGCACCUUCAUCAGCCAUCUCUUUCAUUGUGCGCAUACCCAUCUC
.....((((((.((((((..........((..(.((......)).)..))...((..........))............))))))....)))))).. (-17.06 = -17.26 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	12,361,038 – 12,361,135
Length	97
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	97.11
Mean single sequence MFE	-23.96
Consensus MFE	-23.44
Energy contribution	-23.64
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.98
SVM decision value	2.39
SVM RNA-class probability	0.993297
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12361038 97 - 20766785
GAGAUGGGUAUGCGCACAAUGAAAGAGAUGGCUGAUGAAGGUGCAAGACAAGACGGCAAGGCGACAAGUGAAAGACAAAUGUGCGGGCCAUCAAUUG
..(((((.(...((((((............((((......((.....))....))))..(....)..............))))))).)))))..... ( -20.00)
>DroSec_CAF1 19909 97 - 1
GAGAUGGGUAUGCGCACAAUGAAAGAGAUGGCUGAUGAAGGUGCAAGACAAGACGGCAAGGCGACAAGUGAAAGACAAAUGUGCGGCCCAUCAAUUG
..(((((((...((((((............((((......((.....))....))))..(....)..............)))))))))))))..... ( -24.80)
>DroSim_CAF1 20354 96 - 1
GAGAUGGGUAUGCGCACAAUGAAAGAGAUGGCUGAUGAA-GUGCAAGACAAGACGGCAAGGCGACAAGUGAAAGACAAAUGUGCGGCCCAUCAAUUG
..(((((((...((((((............((((.....-((.....))....))))..(....)..............)))))))))))))..... ( -24.30)
>DroEre_CAF1 20168 97 - 1
GAGAUGGGUAGUCGCACAAUGAAAGAGAUGGCUGGUGAAGGUGCAAGACAAGACGGCAAGGCGACAAGUGAAAGACAAAUGUGCGGCCCAUCAAUUG
..(((((((...((((((............((((......((.....))....))))..(....)..............)))))))))))))..... ( -25.90)
>DroYak_CAF1 20895 97 - 1
GAGAUGGGUAGUCGCACAAUGAAAGGGAUGGCUGAUGAAGGUGCAAGACAAGACGGCAAGGCGACAAGUGAAAGACAAAUGUGCGGCCCAUCAAUUG
..(((((((...((((((............((((......((.....))....))))..(....)..............)))))))))))))..... ( -24.80)
>consensus
GAGAUGGGUAUGCGCACAAUGAAAGAGAUGGCUGAUGAAGGUGCAAGACAAGACGGCAAGGCGACAAGUGAAAGACAAAUGUGCGGCCCAUCAAUUG
..(((((((...((((((............((((......((.....))....))))..(....)..............)))))))))))))..... (-23.44 = -23.64 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:14 2006