Locus 6600

Sequence ID 2L_DroMel_CAF1
Location 18,535,118 – 18,535,216
Length 98
Max. P 0.996556
window10537 window10538

overview

Window 7

Location 18,535,118 – 18,535,216
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 89.30
Mean single sequence MFE -26.47
Consensus MFE -21.72
Energy contribution -21.88
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -2.65
Structure conservation index 0.82
SVM decision value 2.60
SVM RNA-class probability 0.995640
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18535118 98 + 22407834
UUAAUUACGCUCCAAUUGGCAGACAGGCCGAAGAGAAACUGCCAAAAAAAAAAAAAAUGGGAAAAUGUGGCAGUAGUGGCCAGGGCGGAAGCUGGGAA
....((((.(((...(((((......))))).)))..(((((((.......................))))))).))))((..(((....))).)).. ( -25.80)
>DroSec_CAF1 12353 91 + 1
UUAAUUACGCUCCAAUUGGCAGACAGGCCGAAGAAAAACUGCCGAA-------AAAAUGGGAAAAUGUGGCAGUGGCCACGGGGGCGGAAGCUGGGAA
.......((((((..(((((((................))))))).-------............((((((....))))))))))))........... ( -28.69)
>DroSim_CAF1 12346 91 + 1
UUAAUUACGCUCCAAUUGGCAGACAGGCCGAAGAAAAACUGCCGAA-------AAAAUGGGAAAAUGUGGCAGUGGCCACGGGGGCGGAAGCUGGGAA
.......((((((..(((((((................))))))).-------............((((((....))))))))))))........... ( -28.69)
>DroEre_CAF1 12515 88 + 1
UUAAUUACGCUCCAAUUGGCAGACAGGCCGAGGAAAAAGUGCCGAA-------AAAAUGGGAAAAUGUGGCAGCGGCCA---GAGCGGAAGCUGGGAA
.......((((((..(((((......)))))))).....(((((..-------...((......)).)))))))).((.---.(((....))).)).. ( -25.30)
>DroYak_CAF1 12377 88 + 1
UUAAUUACGCUCCAAUUGGCAGACAGGCCGAAGAAAAACUGCCGAA-------AAAAUAGGAAAAUGUGGCAGCGGCCA---UGGCGGAAGCUGGGAA
..........(((............(((((........((((((..-------..............))))))))))).---.(((....))).))). ( -23.89)
>consensus
UUAAUUACGCUCCAAUUGGCAGACAGGCCGAAGAAAAACUGCCGAA_______AAAAUGGGAAAAUGUGGCAGUGGCCAC__GGGCGGAAGCUGGGAA
..........(((..(((((((.....(....).....))))))).....................(((((....)))))...(((....))).))). (-21.72 = -21.88 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,535,118 – 18,535,216
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 89.30
Mean single sequence MFE -22.07
Consensus MFE -18.76
Energy contribution -19.96
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.85
SVM decision value 2.71
SVM RNA-class probability 0.996556
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18535118 98 - 22407834
UUCCCAGCUUCCGCCCUGGCCACUACUGCCACAUUUUCCCAUUUUUUUUUUUUUUGGCAGUUUCUCUUCGGCCUGUCUGCCAAUUGGAGCGUAAUUAA
......(((((.....((((.......))))......................(((((((.....(....).....)))))))..)))))........ ( -21.80)
>DroSec_CAF1 12353 91 - 1
UUCCCAGCUUCCGCCCCCGUGGCCACUGCCACAUUUUCCCAUUUU-------UUCGGCAGUUUUUCUUCGGCCUGUCUGCCAAUUGGAGCGUAAUUAA
......(((((.......(((((....))))).............-------...(((((.....(....).....)))))....)))))........ ( -24.90)
>DroSim_CAF1 12346 91 - 1
UUCCCAGCUUCCGCCCCCGUGGCCACUGCCACAUUUUCCCAUUUU-------UUCGGCAGUUUUUCUUCGGCCUGUCUGCCAAUUGGAGCGUAAUUAA
......(((((.......(((((....))))).............-------...(((((.....(....).....)))))....)))))........ ( -24.90)
>DroEre_CAF1 12515 88 - 1
UUCCCAGCUUCCGCUC---UGGCCGCUGCCACAUUUUCCCAUUUU-------UUCGGCACUUUUUCCUCGGCCUGUCUGCCAAUUGGAGCGUAAUUAA
...........(((((---..(....((((...............-------...))))..........(((......)))..)..)))))....... ( -17.77)
>DroYak_CAF1 12377 88 - 1
UUCCCAGCUUCCGCCA---UGGCCGCUGCCACAUUUUCCUAUUUU-------UUCGGCAGUUUUUCUUCGGCCUGUCUGCCAAUUGGAGCGUAAUUAA
......(((((.....---((((....))))..............-------...(((((.....(....).....)))))....)))))........ ( -21.00)
>consensus
UUCCCAGCUUCCGCCC__GUGGCCACUGCCACAUUUUCCCAUUUU_______UUCGGCAGUUUUUCUUCGGCCUGUCUGCCAAUUGGAGCGUAAUUAA
......(((((.......(((((....))))).......................(((((.....(....).....)))))....)))))........ (-18.76 = -19.96 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:19 2006