Locus 5987

Sequence ID	X_DroMel_CAF1
Location	15,390,697 – 15,390,816
Length	119
Max. P	0.626561

overview

Window 6

Location	15,390,697 – 15,390,816
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.62
Mean single sequence MFE	-29.18
Consensus MFE	-23.26
Energy contribution	-23.58
Covariance contribution	0.32
Combinations/Pair	1.14
Mean z-score	-1.48
Structure conservation index	0.80
SVM decision value	0.19
SVM RNA-class probability	0.626561
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15390697 119 + 22224390
AUUUUGAAAACAUAACUCGAUUCUCCACUGACCGUUGAUUUCGGUCAACGAAAUGGAAAUUCGUGCAACAAAAAGCCAAA-AAUUAUUGGCGGUCCUACCCAAAUCAACUGGCGACUGGA
.......................((((.((.((((((((((.(((..(((((.(....))))))..........(((((.-.....)))))......))).)))))))).))))..)))) ( -26.20)
>DroSec_CAF1 33205 119 + 1
AUUUUGGAAACAUAACUCGAUUCUCCACUGACCGUUGAUUUCGGUCCACGAAAUGGAAAUUCGUGCAACCAAAAGCCAAA-AAUUAUUGGCGGUCCUACCCGAAUCAACUGGCGACUGGA
....((....))...........((((.((.((((((((((.(((.((((((.(....))))))).........(((((.-.....)))))......))).)))))))).))))..)))) ( -31.10)
>DroSim_CAF1 31330 119 + 1
AUUUUGGAAACAUAACUCGAUUCUCCACUGGCCGUUGAUUUCGGUCCACGAAAUGGAAAUUCGUGCAACAAAAAGCCAAA-AAUUAUUGGCGGUCCUACCCGAAUCAACUGGCGACUGGA
....((....))...........((((.(.(((((((((((.(((.((((((.(....))))))).........(((((.-.....)))))......))).)))))))).))).).)))) ( -36.50)
>DroEre_CAF1 27712 120 + 1
AUUUUGGAAACAUAACUCGAUUCUCCACUGACCGUUGAUUACGGACCACGGAAAGGAAAUUCGUGCAACAAAAAACGAGACCAUAAUUGGCGGCCCUACCCGAAUCAACUGGCAACUGGA
....((....))...........((((.((.(((((((((.(((..((((((.......)))))).............(.(((....))))........)))))))))).))))..)))) ( -27.20)
>DroYak_CAF1 19621 119 + 1
AUUUUGGAAACAUAACUCAAUUCUCCACCAACUGUUGAUUUCGGACCAAGGAAAGGAAAUUCGUGCAAUAAAAAGCCAAA-AAUUAUUGGCGGCCCUACCCGAAUCAACUGGCGACUGGA
....((....))...........(((((((...(((((((.(((.((.......))..................(((((.-.....)))))........)))))))))))))....)))) ( -24.90)
>consensus
AUUUUGGAAACAUAACUCGAUUCUCCACUGACCGUUGAUUUCGGUCCACGAAAUGGAAAUUCGUGCAACAAAAAGCCAAA_AAUUAUUGGCGGUCCUACCCGAAUCAACUGGCGACUGGA
....((....))...........((((....((((((((((.((..((((((.......)))))).........(((((.......))))).......)).)))))))).))....)))) (-23.26 = -23.58 +   0.32)

alignment

secondary structure

dotplot

Window 7

Location	15,390,697 – 15,390,816
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.62
Mean single sequence MFE	-33.72
Consensus MFE	-28.18
Energy contribution	-28.94
Covariance contribution	0.76
Combinations/Pair	1.14
Mean z-score	-1.31
Structure conservation index	0.84
SVM decision value	0.10
SVM RNA-class probability	0.585498
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15390697 119 - 22224390
UCCAGUCGCCAGUUGAUUUGGGUAGGACCGCCAAUAAUU-UUUGGCUUUUUGUUGCACGAAUUUCCAUUUCGUUGACCGAAAUCAACGGUCAGUGGAGAAUCGAGUUAUGUUUUCAAAAU
((((.(.(((.((((((((.(((......(((((.....-.)))))..........(((((.......)))))..))).))))))))))).).)))).....(((.......)))..... ( -34.30)
>DroSec_CAF1 33205 119 - 1
UCCAGUCGCCAGUUGAUUCGGGUAGGACCGCCAAUAAUU-UUUGGCUUUUGGUUGCACGAAUUUCCAUUUCGUGGACCGAAAUCAACGGUCAGUGGAGAAUCGAGUUAUGUUUCCAAAAU
((((.(.(((.((((((((((....(((((((((.....-.)))))....)))).((((((.......))))))..))).)))))))))).).))))....................... ( -38.20)
>DroSim_CAF1 31330 119 - 1
UCCAGUCGCCAGUUGAUUCGGGUAGGACCGCCAAUAAUU-UUUGGCUUUUUGUUGCACGAAUUUCCAUUUCGUGGACCGAAAUCAACGGCCAGUGGAGAAUCGAGUUAUGUUUCCAAAAU
((((.(.(((.((((((((((........(((((.....-.))))).........((((((.......))))))..))).)))))))))).).))))....................... ( -37.40)
>DroEre_CAF1 27712 120 - 1
UCCAGUUGCCAGUUGAUUCGGGUAGGGCCGCCAAUUAUGGUCUCGUUUUUUGUUGCACGAAUUUCCUUUCCGUGGUCCGUAAUCAACGGUCAGUGGAGAAUCGAGUUAUGUUUCCAAAAU
((((.(.(((.(((((((((((..((((((.......))))))............((((((......)).)))).)))).)))))))))).).))))....................... ( -30.60)
>DroYak_CAF1 19621 119 - 1
UCCAGUCGCCAGUUGAUUCGGGUAGGGCCGCCAAUAAUU-UUUGGCUUUUUAUUGCACGAAUUUCCUUUCCUUGGUCCGAAAUCAACAGUUGGUGGAGAAUUGAGUUAUGUUUCCAAAAU
.......(((((((((((......((((((((((.....-.)))))............(((......)))...)))))..)))))))...))))(((((...........)))))..... ( -28.10)
>consensus
UCCAGUCGCCAGUUGAUUCGGGUAGGACCGCCAAUAAUU_UUUGGCUUUUUGUUGCACGAAUUUCCAUUUCGUGGACCGAAAUCAACGGUCAGUGGAGAAUCGAGUUAUGUUUCCAAAAU
((((.(.(((.((((((((((........(((((.......))))).........((((((.......))))))..))).)))))))))).).))))....................... (-28.18 = -28.94 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:30 2006