Locus 3024

Sequence ID 3R_DroMel_CAF1
Location 8,075,879 – 8,075,996
Length 117
Max. P 0.700615
window4866 window4867

overview

Window 6

Location 8,075,879 – 8,075,996
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.11
Mean single sequence MFE -26.97
Consensus MFE -17.07
Energy contribution -18.07
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.16
Structure conservation index 0.63
SVM decision value 0.08
SVM RNA-class probability 0.572707
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8075879 117 + 27905053
CUGCUUGCCGCAUUUCAGAAAGAAAAAAAAACUUUUAUCAAAAAGAACGCG--CAGAUAACGGCGGGCAAACAGAACGAAUUUGC-CCGAAACUUAUUUACACUUAGCGGCAACAUUUGU
.((.(((((((.((((.....))))......(((((....))))).....(--.((((((.(.((((((((.........)))))-)))...))))))).).....)))))))))..... ( -29.00)
>DroSim_CAF1 21928 114 + 1
CUGCCUGCCGCAUUUCGGUAA--AAAAAAAACUUUUAUCAA-AAGAACGCG--CAGAUAACGGCGGGCAAACAGAACGAAUUUGC-CCGAAACUUAUUUACACUUAGCGGCAACAUUUGU
.....((((((.....(((((--((.......)))))))..-........(--.((((((.(.((((((((.........)))))-)))...))))))).).....))))))........ ( -29.70)
>DroEre_CAF1 20438 109 + 1
CUGCUUGCCGCAUUUCAG-------AAAAAACUUUUAUCAA-AAGAACGCG--CAGAUAACGGCGGGCAAACAGAACGAAUUUGC-CCGAAACUUAUUUACACUUAGCGGCAACAUUUGU
.((.(((((((.......-------......((((.....)-))).....(--.((((((.(.((((((((.........)))))-)))...))))))).).....)))))))))..... ( -27.60)
>DroYak_CAF1 20855 109 + 1
CUGCUUGCCGCAUUUCAG-------AAACAACUUUUAUCAA-AAGAACGCG--CAGAUAACGGCGGGCAAACAGAACGAAUUUGC-CCGAAACUUAUUUACACUUAGCGGCAACAUUUGU
.((.(((((((.......-------......((((.....)-))).....(--.((((((.(.((((((((.........)))))-)))...))))))).).....)))))))))..... ( -27.60)
>DroAna_CAF1 27298 112 + 1
CUGCUUACCGCAUUUUUGGA-----AAAUAACUUUUAUCAA-GAAAACACGGCGAGAUAACCGCGGGCAAACA-AACGAAUUUGC-CCGAAACUUAUUUACUUUUAGCGGCAACAUUCUG
.......((((.(((((((.-----(((.....))).))))-))).........((((((...((((((((..-......)))))-)))....)))))).......)))).......... ( -25.10)
>DroPer_CAF1 22068 97 + 1
CUGCUUGCCGCAUUUCAGCUU--UCAGAAAACUUUUAUCA--------GCG--AAGAUAACGGGAGACAAACAC----AAUUUGCCCCGAAACUUAUUUACAUUUAGCGGCAA-------
.....((((((.((((.....--...))))....(((((.--------...--..)))))((((.(.((((...----..))))))))).................)))))).------- ( -22.80)
>consensus
CUGCUUGCCGCAUUUCAG_A_____AAAAAACUUUUAUCAA_AAGAACGCG__CAGAUAACGGCGGGCAAACAGAACGAAUUUGC_CCGAAACUUAUUUACACUUAGCGGCAACAUUUGU
....(((((((....................((.(((((................))))).))((((((((.........))))).))).................)))))))....... (-17.07 = -18.07 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,075,879 – 8,075,996
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.11
Mean single sequence MFE -32.58
Consensus MFE -22.03
Energy contribution -21.64
Covariance contribution -0.39
Combinations/Pair 1.18
Mean z-score -2.32
Structure conservation index 0.68
SVM decision value 0.35
SVM RNA-class probability 0.700615
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8075879 117 - 27905053
ACAAAUGUUGCCGCUAAGUGUAAAUAAGUUUCGG-GCAAAUUCGUUCUGUUUGCCCGCCGUUAUCUG--CGCGUUCUUUUUGAUAAAAGUUUUUUUUUCUUUCUGAAAUGCGGCAAGCAG
.....(((((((((...(((((.((((....(((-((((((.......)))))))))...)))).))--)))...(((((....)))))......((((.....)))).))))).)))). ( -34.50)
>DroSim_CAF1 21928 114 - 1
ACAAAUGUUGCCGCUAAGUGUAAAUAAGUUUCGG-GCAAAUUCGUUCUGUUUGCCCGCCGUUAUCUG--CGCGUUCUU-UUGAUAAAAGUUUUUUUU--UUACCGAAAUGCGGCAGGCAG
.....(((((((((...(((((.((((....(((-((((((.......)))))))))...)))).))--)))....((-(((.((((((.....)))--))).))))).)))))).))). ( -37.00)
>DroEre_CAF1 20438 109 - 1
ACAAAUGUUGCCGCUAAGUGUAAAUAAGUUUCGG-GCAAAUUCGUUCUGUUUGCCCGCCGUUAUCUG--CGCGUUCUU-UUGAUAAAAGUUUUUU-------CUGAAAUGCGGCAAGCAG
.....(((((((((...(((((.((((....(((-((((((.......)))))))))...)))).))--)))......-.........(((((..-------..)))))))))).)))). ( -33.50)
>DroYak_CAF1 20855 109 - 1
ACAAAUGUUGCCGCUAAGUGUAAAUAAGUUUCGG-GCAAAUUCGUUCUGUUUGCCCGCCGUUAUCUG--CGCGUUCUU-UUGAUAAAAGUUGUUU-------CUGAAAUGCGGCAAGCAG
.....(((((((((...(((((.((((....(((-((((((.......)))))))))...)))).))--))).(((..-..((((.....)))).-------..)))..))))).)))). ( -33.50)
>DroAna_CAF1 27298 112 - 1
CAGAAUGUUGCCGCUAAAAGUAAAUAAGUUUCGG-GCAAAUUCGUU-UGUUUGCCCGCGGUUAUCUCGCCGUGUUUUC-UUGAUAAAAGUUAUUU-----UCCAAAAAUGCGGUAAGCAG
.....(((((((((.......((((((.(((.((-((((((.....-.))))))))(((((......)))))......-......))).))))))-----.........))))).)))). ( -32.49)
>DroPer_CAF1 22068 97 - 1
-------UUGCCGCUAAAUGUAAAUAAGUUUCGGGGCAAAUU----GUGUUUGUCUCCCGUUAUCUU--CGC--------UGAUAAAAGUUUUCUGA--AAGCUGAAAUGCGGCAAGCAG
-------(((((((...((....))..((((((((((((((.----..)))))))))...(((((..--...--------.))))).(((((.....--))))))))))))))))).... ( -24.50)
>consensus
ACAAAUGUUGCCGCUAAGUGUAAAUAAGUUUCGG_GCAAAUUCGUUCUGUUUGCCCGCCGUUAUCUG__CGCGUUCUU_UUGAUAAAAGUUUUUU_____U_CUGAAAUGCGGCAAGCAG
.......(((((((..................((.((((((.......))))))))((..(((((................)))))..))...................))))))).... (-22.03 = -21.64 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:28 2006