Locus 7436

Sequence ID 2L_DroMel_CAF1
Location 20,633,388 – 20,633,515
Length 127
Max. P 0.981559
window11952 window11953 window11954

overview

Window 2

Location 20,633,388 – 20,633,478
Length 90
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 75.06
Mean single sequence MFE -19.32
Consensus MFE -13.47
Energy contribution -14.00
Covariance contribution 0.53
Combinations/Pair 1.24
Mean z-score -2.03
Structure conservation index 0.70
SVM decision value 1.89
SVM RNA-class probability 0.981559
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20633388 90 + 22407834
AUAGCGACCAAGUUGGCCAUCCUCACUUUCAGUAUUUUUUGCAGAGUUUAUUUGGUGCACAAGCACCGGUAGUCAAUAUAAU-UAUAAUUA
...........((((((...((..((((((((......))).)))))......(((((....)))))))..)))))).....-........ ( -19.20)
>DroSec_CAF1 191631 90 + 1
AUAGCGACCAAGUUGGCCAUCCUCACAUUCAGUAUUUUUUGCAGAAUUUAUUUGGUGCACAAGCACCGGUAGUCAAUAUAAU-UAUAAUUA
...........((((((...((....((((.(((.....))).))))......(((((....)))))))..)))))).....-........ ( -18.30)
>DroSim_CAF1 184772 90 + 1
AUAGCGACCAAGUUGGCCAUCCUCACAUUCAGUAUUUUUUGCAGAAUUUAUUUGGUGCACAAGCACCGGUAGUCAAUAUAAU-UAUAAUUA
...........((((((...((....((((.(((.....))).))))......(((((....)))))))..)))))).....-........ ( -18.30)
>DroYak_CAF1 136904 90 + 1
AAUGCGACCAAGUUGGCCUUCCCUAGUUUCAGUAUUUUUCGCAGAAUUUAUUUGGUGCACUAGCACCGGUUGUCAAUAUAAU-UAUAAUUA
...((((((.....((.....))..............................(((((....))))))))))).........-........ ( -16.10)
>DroAna_CAF1 151076 69 + 1
AAACCG--CGAGUUGGCAUCACC---GUUCAC----------------UAUUUGGUGCACAAGCACCGGUUGCCAAUAUAAU-UAUAAUUA
......--...(((((((..(((---(....)----------------.....(((((....))))))))))))))).....-........ ( -19.20)
>DroPer_CAF1 214547 72 + 1
AUACCCAACGUGUUGGCAGCUC-------------------CGUAAAUUAUUUGGUGCACAAGCACCGGUUGCCAAUACAAUUUAUAAAUA
.........((((((((((((.-------------------............(((((....)))))))))))))))))............ ( -24.81)
>consensus
AUAGCGACCAAGUUGGCCAUCCUCACAUUCAGUAUUUUUUGCAGAAUUUAUUUGGUGCACAAGCACCGGUAGUCAAUAUAAU_UAUAAUUA
...........((((((.(((..........(((.....)))...........(((((....)))))))).)))))).............. (-13.47 = -14.00 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 20,633,424 – 20,633,515
Length 91
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 76.69
Mean single sequence MFE -14.82
Consensus MFE -9.10
Energy contribution -9.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.24
Structure conservation index 0.61
SVM decision value 1.66
SVM RNA-class probability 0.970530
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20633424 91 + 22407834
UUUUGCAGAGUUUAUUUGGUGCACAAGCACCGGUAGUCAAUAUAAU-UAUAAUUACAUUAAACC-ACCUAAAACAAGCUGAUCAACCGCAAUC
..((((...(((((..((((((....))))))(((((..(((....-))).)))))..)))))(-(.((......)).)).......)))).. ( -16.00)
>DroPse_CAF1 209274 84 + 1
-----CGUAAAUUAUUUGGUGCACAAGCACCGGUUGCCAAUACAAUUUAUAAAUAUUUUUACAC-AAAUAAAACAACUA---UAGCUAUAAUC
-----.(((((.((((((((((....)))))(((((......)))))...)))))..)))))..-..............---........... ( -13.70)
>DroSim_CAF1 184808 91 + 1
UUUUGCAGAAUUUAUUUGGUGCACAAGCACCGGUAGUCAAUAUAAU-UAUAAUUACAUUAAACC-ACCUAAAACAAGCUGAUCAACCGCAAUC
..((((...........(((((....)))))(((.((.(((.((((-....)))).)))..)).-)))...................)))).. ( -15.30)
>DroYak_CAF1 136940 92 + 1
UUUCGCAGAAUUUAUUUGGUGCACUAGCACCGGUUGUCAAUAUAAU-UAUAAUUACAUUAAACCCUCCUAAAACAAGCAAAUCAACGGCAAUC
....((...........(((((....)))))((((...(((.((((-....)))).))).))))............))............... ( -14.10)
>DroAna_CAF1 151103 79 + 1
------------UAUUUGGUGCACAAGCACCGGUUGCCAAUAUAAU-UAUAAUUACUUUUACAC-AAAUAAAACAAGCAAAACAACGGCAAUC
------------.....(((((....)))))(((((((.(((....-)))......(((((...-...))))).............))))))) ( -16.10)
>DroPer_CAF1 214569 87 + 1
-----CGUAAAUUAUUUGGUGCACAAGCACCGGUUGCCAAUACAAUUUAUAAAUAUUUUUACAC-AAAUAAAACAACUAAACUAGCUAUAAUC
-----.(((((.((((((((((....)))))(((((......)))))...)))))..)))))..-............................ ( -13.70)
>consensus
_____CAGAAUUUAUUUGGUGCACAAGCACCGGUUGCCAAUAUAAU_UAUAAUUACAUUAAAAC_AAAUAAAACAAGCAAAUCAACCGCAAUC
...............(((((((....)))))))............................................................ ( -9.10 =  -9.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,633,424 – 20,633,515
Length 91
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 76.69
Mean single sequence MFE -23.22
Consensus MFE -9.56
Energy contribution -9.28
Covariance contribution -0.28
Combinations/Pair 1.36
Mean z-score -2.94
Structure conservation index 0.41
SVM decision value 1.82
SVM RNA-class probability 0.978584
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20633424 91 - 22407834
GAUUGCGGUUGAUCAGCUUGUUUUAGGU-GGUUUAAUGUAAUUAUA-AUUAUAUUGACUACCGGUGCUUGUGCACCAAAUAAACUCUGCAAAA
..((((((......((.((((((..(((-((((.((((((((....-)))))))))))))))(((((....))))))))))).)))))))).. ( -30.00)
>DroPse_CAF1 209274 84 - 1
GAUUAUAGCUA---UAGUUGUUUUAUUU-GUGUAAAAAUAUUUAUAAAUUGUAUUGGCAACCGGUGCUUGUGCACCAAAUAAUUUACG-----
((((((.....---..((((((.(((..-.((((((....))))))....)))..)))))).(((((....)))))..))))))....----- ( -17.70)
>DroSim_CAF1 184808 91 - 1
GAUUGCGGUUGAUCAGCUUGUUUUAGGU-GGUUUAAUGUAAUUAUA-AUUAUAUUGACUACCGGUGCUUGUGCACCAAAUAAAUUCUGCAAAA
..((((((.................(((-((((.((((((((....-)))))))))))))))(((((....))))).........)))))).. ( -29.60)
>DroYak_CAF1 136940 92 - 1
GAUUGCCGUUGAUUUGCUUGUUUUAGGAGGGUUUAAUGUAAUUAUA-AUUAUAUUGACAACCGGUGCUAGUGCACCAAAUAAAUUCUGCGAAA
............(((((....((((....(((((((((((((....-))))))))))..)))(((((....)))))...))))....))))). ( -22.60)
>DroAna_CAF1 151103 79 - 1
GAUUGCCGUUGUUUUGCUUGUUUUAUUU-GUGUAAAAGUAAUUAUA-AUUAUAUUGGCAACCGGUGCUUGUGCACCAAAUA------------
(.((((((.(((.....((((.((((((-......))))))..)))-)..))).)))))).)(((((....))))).....------------ ( -19.10)
>DroPer_CAF1 214569 87 - 1
GAUUAUAGCUAGUUUAGUUGUUUUAUUU-GUGUAAAAAUAUUUAUAAAUUGUAUUGGCAACCGGUGCUUGUGCACCAAAUAAUUUACG-----
((((((.((((((.(((((....(((((-......)))))......))))).))))))....(((((....)))))..))))))....----- ( -20.30)
>consensus
GAUUGCAGUUGAUUUGCUUGUUUUAGGU_GGGUAAAAGUAAUUAUA_AUUAUAUUGACAACCGGUGCUUGUGCACCAAAUAAAUUCUG_____
.......((((((.......................................))))))....(((((....)))))................. ( -9.56 =  -9.28 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:49 2006