Locus 243

Sequence ID 2R_DroMel_CAF1
Location 1,629,441 – 1,629,570
Length 129
Max. P 0.871658
window522 window523

overview

Window 2

Location 1,629,441 – 1,629,539
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.01
Mean single sequence MFE -42.15
Consensus MFE -17.86
Energy contribution -17.50
Covariance contribution -0.36
Combinations/Pair 1.30
Mean z-score -2.05
Structure conservation index 0.42
SVM decision value 0.16
SVM RNA-class probability 0.613050
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1629441 98 - 20766785
------GUUGCAACUGCAAUUGUUGAGCAGGGCUGCAGUGACGUCAUCUCGA--------GCGAUUCGUGCUCGCCUUUGGUCGUUGCCGUGGCACUGACCUCGUGCCAAAU--------
------..((((.((((.........))))...))))(..((((((...(((--------(((.....))))))....))).)))..)..((((((.......))))))...-------- ( -33.10)
>DroPse_CAF1 40406 115 - 1
AUCCCCCUUUCGGCUGCAAUUGUGCAGC--GGUCGCGGUGACGUCACCCGGUCUGGGUCUUCGUUUCGUGGCAGCCUUCGG---UUGCUGUGGAACUGACCUCGUGCCAAAUGCAGCACU
............((((((.(((.(((..--(..((.((((....))))))..).(((((...((((((..((((((...))---))))..)))))).)))))..)))))).))))))... ( -53.00)
>DroSec_CAF1 15335 98 - 1
------GUUGCAACUGCAAUUGUUGAGCAGGGCUGCGGUGACGUCAUCUCGA--------GCGAUUCGUGCUCGCCUUUGGUCGUUGCCGUGGCACUGACCUCGUGCCAAAU--------
------(((((....)))))....((((((.((..(((..((((((...(((--------(((.....))))))....))).)))..)))..)).)))..))).........-------- ( -38.80)
>DroSim_CAF1 13772 98 - 1
------GUUGCAACUGCAACUGUUGAGCAGGGCUGCGGUGACGUCAUCUCGA--------GCGAUUCGUGCUCGCCUUUGGUCGUUGCCGUGGCACUGACCUCGUGCCAAAU--------
------(((((....)))))....((((((.((..(((..((((((...(((--------(((.....))))))....))).)))..)))..)).)))..))).........-------- ( -41.20)
>DroEre_CAF1 17808 98 - 1
------GUUGCAACUGCAAUUGUUGGGCAGGGCUGCAGUGACGUCAUCUCAA--------GCGAUUCGUGCUCGCCUUUGGUCGUUGCUGUGGCACUGACCUCGUGCCAAAU--------
------(((((....))))).((.((((((.((..(((..((((((......--------((((.......))))...))).)))..)))..)).))).)))...)).....-------- ( -33.80)
>DroPer_CAF1 34944 114 - 1
-CCCCCCUUUCGGCUGCAAUUGUGCAGC--GGUCGCGGUGACGUCACCCGGUCUGGGUCUUCGUUUCGUGGCAGCCUUCGG---UUGCUGUGGAACUGACCUCGUGCCAAAUGCAGCACU
-...........((((((.(((.(((..--(..((.((((....))))))..).(((((...((((((..((((((...))---))))..)))))).)))))..)))))).))))))... ( -53.00)
>consensus
______GUUGCAACUGCAAUUGUUGAGCAGGGCUGCGGUGACGUCAUCUCGA________GCGAUUCGUGCUCGCCUUUGGUCGUUGCCGUGGCACUGACCUCGUGCCAAAU________
............((.(((((..(..((...(((((.((((....)))).)).........(((.....)))..)))))..)..))))).))(((((.......)))))............ (-17.86 = -17.50 +  -0.36)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 1,629,473 – 1,629,570
Length 97
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 97.28
Mean single sequence MFE -34.20
Consensus MFE -33.50
Energy contribution -33.88
Covariance contribution 0.38
Combinations/Pair 1.06
Mean z-score -1.92
Structure conservation index 0.98
SVM decision value 0.87
SVM RNA-class probability 0.871658
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1629473 97 - 20766785
CUUCGGCUCUCGACUC-UCGCUUCCUGUUUGUGUUGCAACUGCAAUUGUUGAGCAGGGCUGCAGUGACGUCAUCUCGAGCGAUUCGUGCUCGCCUUUG
....(((....(((..-((((((((((((((.(((((....)))))...)))))))))....))))).))).....(((((.....)))))))).... ( -33.20)
>DroSec_CAF1 15367 98 - 1
CUUCGGCUCUCGACUCUUCGCUUCCUGUUUGUGUUGCAACUGCAAUUGUUGAGCAGGGCUGCGGUGACGUCAUCUCGAGCGAUUCGUGCUCGCCUUUG
....(((....(((((.((((.(((((((((.(((((....)))))...)))))))))..)))).)).))).....(((((.....)))))))).... ( -36.90)
>DroSim_CAF1 13804 98 - 1
CUUCGGCUCUCGACUCUUCGCUUCCUGUUUGUGUUGCAACUGCAACUGUUGAGCAGGGCUGCGGUGACGUCAUCUCGAGCGAUUCGUGCUCGCCUUUG
....(((....(((((.((((.(((((((((.(((((....)))))...)))))))))..)))).)).))).....(((((.....)))))))).... ( -38.40)
>DroEre_CAF1 17840 98 - 1
CUUCGGCUCUCGACUCUUCGCUUCCUGUUUGUGUUGCAACUGCAAUUGUUGGGCAGGGCUGCAGUGACGUCAUCUCAAGCGAUUCGUGCUCGCCUUUG
....(((....(((((...((.((((((..(.(((((....)))))...)..))))))..))...)).)))......((((.....)))).))).... ( -28.30)
>consensus
CUUCGGCUCUCGACUCUUCGCUUCCUGUUUGUGUUGCAACUGCAAUUGUUGAGCAGGGCUGCAGUGACGUCAUCUCGAGCGAUUCGUGCUCGCCUUUG
....(((....(((((.((((.(((((((((.(((((....)))))...)))))))))..)))).)).))).....(((((.....)))))))).... (-33.50 = -33.88 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:20 2006