Locus 48

Sequence ID sy_sa.0
Location 1,425,087 – 1,425,207
Length 120
Max. P 0.999745
window216 window217 window218

overview

Window 6

Location 1,425,087 – 1,425,205
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 73.46
Mean single sequence MFE -22.47
Consensus MFE -15.19
Energy contribution -15.30
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -2.47
Structure conservation index 0.68
SVM decision value 3.99
SVM RNA-class probability 0.999745
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1425087 118 + 2516575/0-120
AUAAAAAAACACCACAUUA-ACGCA-UACAUACUGUAAGGACGCGUUACCGUGGUGCCACCUUAGUUAACAAAUUCAUUGUUCACUUUCAUUGCUAUUAAUUUAGUACAUUUAAAAGCCC
.........((((((..((-((((.-(((.....))).....))))))..)))))).......(((.(((((.....))))).))).....(((((......)))))............. ( -21.90)
>sy_au.0 1395440 114 - 2809422/0-120
AUAAAAAGACACCACAU-A-ACGCA-UAUAC-CUGUAAGGACGCGUUACCGUGGUGCCACCUUAGUUAACAUAAUUCAUGUUCACUUUCAAAACU--CAUUCAAUUGUUUUCCAAAGUCC
.......(.((((((.(-(-((((.-....(-(.....))..))))))..)))))).).....(((.(((((.....))))).)))...(((((.--.........)))))......... ( -20.50)
>sy_ha.0 1583194 117 + 2685015/0-120
ACAUAAAAACACCACAGCAUACGCGCUUUACUCUAUAAGGACGCGUUACCGUGGUGCCACCUUAGUUAACA-AUACUUUGUUCACUCUUACU-UUAUUAAAGUUUAAAAUUCUAGA-CCC
.........((((((.(...((((((((((.....))))).)))))..).)))))).......(((.((((-(....))))).)))......-........(((((......))))-).. ( -25.00)
>consensus
AUAAAAAAACACCACAU_A_ACGCA_UAUAC_CUGUAAGGACGCGUUACCGUGGUGCCACCUUAGUUAACA_AUUCAUUGUUCACUUUCAAU_CUAUUAAUCUAUUAAAUUCAAAAGCCC
.........((((((.....((((..................))))....)))))).......(((.(((((.....))))).))).................................. (-15.19 = -15.30 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,425,087 – 1,425,205
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 73.46
Mean single sequence MFE -31.73
Consensus MFE -21.62
Energy contribution -21.29
Covariance contribution -0.33
Combinations/Pair 1.14
Mean z-score -2.38
Structure conservation index 0.68
SVM decision value 3.78
SVM RNA-class probability 0.999607
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1425087 118 + 2516575/0-120
GGGCUUUUAAAUGUACUAAAUUAAUAGCAAUGAAAGUGAACAAUGAAUUUGUUAACUAAGGUGGCACCACGGUAACGCGUCCUUACAGUAUGUA-UGCGU-UAAUGUGGUGUUUUUUUAU
..(((.((((.(......).)))).)))......(((.(((((.....))))).)))((((..((((((((.((((((((.(.........).)-)))))-)).))))))))..)))).. ( -31.10)
>sy_au.0 1395440 114 - 2809422/0-120
GGACUUUGGAAAACAAUUGAAUG--AGUUUUGAAAGUGAACAUGAAUUAUGUUAACUAAGGUGGCACCACGGUAACGCGUCCUUACAG-GUAUA-UGCGU-U-AUGUGGUGUCUUUUUAU
..((((((((((((.........--.))))).......((((((...))))))..)))))))(((((((((.((((((((((.....)-)...)-)))))-)-))))))))))....... ( -33.50)
>sy_ha.0 1583194 117 + 2685015/0-120
GGG-UCUAGAAUUUUAAACUUUAAUAA-AGUAAGAGUGAACAAAGUAU-UGUUAACUAAGGUGGCACCACGGUAACGCGUCCUUAUAGAGUAAAGCGCGUAUGCUGUGGUGUUUUUAUGU
...-...................((((-((....(((.(((((....)-)))).)))......(((((((((((((((((..((((...)))).)))))).))))))))))))))))).. ( -30.60)
>consensus
GGGCUUUAGAAUAUAAUAAAUUAAUAG_AAUGAAAGUGAACAAAGAAU_UGUUAACUAAGGUGGCACCACGGUAACGCGUCCUUACAG_GUAUA_UGCGU_U_AUGUGGUGUUUUUUUAU
..................................(((.(((((.....))))).))).....(((((((((...(((((................)))))....)))))))))....... (-21.62 = -21.29 +  -0.33) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 1,425,087 – 1,425,207
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 67.50
Mean single sequence MFE -21.66
Consensus MFE -17.82
Energy contribution -15.39
Covariance contribution -2.43
Combinations/Pair 1.40
Mean z-score -1.17
Structure conservation index 0.82
SVM decision value 2.40
SVM RNA-class probability 0.993499
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1425087 120 + 2516575/86-206
AUUUGAAAGAUAACGUAGCAAAUAUGUCAUGUAGCAAAAAGAAAGCUAAUGGUUGAUGAAAAUUAGCACUGCAUAUAUUGUGAAUUGGGCUUUUAAAUGUACUAAAUUAAUAGCAAUGAA
(((((((((........(((((((((((((.((((.........)))))))((((((....))))))...)))))).))))........)))))))))...................... ( -22.79)
>sy_au.0 1395440 118 - 2809422/86-206
UUUCUAAAGAAAUAGUAGCAGAUAUGAAACGUAGCAAAUAGAAAGCUAAUGGGUGAUGGGAAUUAGCACGCCAUAUCUUGUGAAUUGGACUUUGGAAAACAAUUGAAUG--AGUUUUGAA
(((((((((...((((.((((((((....((((((.........))).)))((((.((........))))))))))).)))..))))..)))))))))...........--......... ( -22.70)
>sy_ha.0 1583194 118 + 2685015/86-206
AUUCUAUGAAUGAAGUAGAUAAUAUGAUUUGUAGCAAAUAGAAAGCCAAUGGGUGAUGUAAAUUGGCACUACAUAUUAAUCGAAUUGGG-UCUAGAAUUUUAAACUUUAAUAA-AGUAAG
((((((.((.(.((...((((((((((((((...))))).....((((((...........))))))....)))))).)))...)).).-)))))))).....((((.....)-)))... ( -19.50)
>consensus
AUUCUAAAGAUAAAGUAGCAAAUAUGAAAUGUAGCAAAUAGAAAGCUAAUGGGUGAUGAAAAUUAGCACUACAUAUAUUGUGAAUUGGGCUUUAGAAUAUAAUAAAUUAAUAG_AAUGAA
(((((((((........(((((((((........(.....)...((((((...........))))))....)))))).)))........)))))))))...................... (-17.82 = -15.39 +  -2.43) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:53:36 2006