Locus 6038

Sequence ID	2L_DroMel_CAF1
Location	17,004,511 – 17,004,624
Length	113
Max. P	0.850331

overview

Window 5

Location	17,004,511 – 17,004,624
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.11
Mean single sequence MFE	-37.77
Consensus MFE	-13.94
Energy contribution	-15.13
Covariance contribution	1.20
Combinations/Pair	1.19
Mean z-score	-2.17
Structure conservation index	0.37
SVM decision value	-0.01
SVM RNA-class probability	0.529002
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17004511 113 + 22407834
UUAAG---AGUGAAAAUCAUUUUCGGGGCUCUGGCUUGCUGGCUAGUUGCCAAUCAGGUCACGAACUGUCGCUUCAGUCCA----GUUUCAGUUUUCGGGGCCCCUGAUUUUUCAUGUUU
.....---.((((((((((.....((((((((((((((.((((.....))))..))))))..((((((..(((.......)----))..))))))..))))))))))).))))))).... ( -40.20)
>DroPse_CAF1 124906 113 + 1
UUCAGUAGCGCCAAAAUCAUCUGAAGUCCGCUCUUUUUUUGGCUGCUUGCCAAUCAGGUCACGGAGUGUCGC------CCGGUGGCGUCCAGUUGUUGGGGCCACUGAUUUUUCAUGCU-
.(((((.((.((((...((.(((.(.((((..(((...(((((.....)))))..)))...)))).)(.(((------(....)))).)))).)))))).)).)))))...........- ( -36.80)
>DroEre_CAF1 114152 116 + 1
UUAAG---AGUGAAAAUCAUUUUCGGGCCCCUGGCUGGCUGGCUAGUUGCCAAUCAGGUCACGAACUGUCGCUUCAGUCCAGUCAGUUUCAGUUUUCGGGGCCCCUGAUUUUUCAUGUU-
.....---.((((((((((.....(((((((.((((((((((((.((.(((.....))).))(.((((......)))).))))))))..)))))...))))))).))).)))))))...- ( -43.50)
>DroYak_CAF1 114434 112 + 1
UUAAG---AGUGAAAAUCAUUUUCGGGGCUCUGGCUUGCUGGCUAGUUGCCAAUCAGGUCACGAACUGUCGCUUCAGUCCA----GUUUCAGUUUUCGGGGCCCCUGAUUUUUCAUGUU-
.....---.((((((((((.....((((((((((((((.((((.....))))..))))))..((((((..(((.......)----))..))))))..))))))))))).)))))))...- ( -40.20)
>DroAna_CAF1 103069 109 + 1
UUAAG---AGUGAAAAUCAUUUUCGGCGCUUUUCCUUUCGGGCUAGUUGCCAAUCAGGUCACGAACUGUCGCUUCAGUCCG----GCGUUUGG--UCCGGG-CCCUGAUUUUUCAUGUU-
.....---.((((((.........((((((..(((....)))..)).))))(((((((...(((....))).....(((((----((.....)--.)))))-))))))))))))))...- ( -32.10)
>DroPer_CAF1 134480 113 + 1
UUCAGUAGCGCCAAAAUCAUCUGCAGUCCUUCUUUUUUUCGGCUGCUUGCCAAUCAGGUCACGGAGUGUCGC------CCGGUGGCGUCCAGUUGUUGGGGCCACUGAUUUUUCAUGCU-
.(((((.((.((((...(....((((((............))))))..((((.((.(((.((.....)).))------).)))))).....)...)))).)).)))))...........- ( -33.80)
>consensus
UUAAG___AGUGAAAAUCAUUUUCGGGCCUCUGGCUUGCUGGCUAGUUGCCAAUCAGGUCACGAACUGUCGCUUCAGUCCA____GUUUCAGUUUUCGGGGCCCCUGAUUUUUCAUGUU_
.........(((((((......(((((.............(((.....))).....((((.(((((((.....................))))..))).))))))))).))))))).... (-13.94 = -15.13 +   1.20)

alignment

secondary structure

dotplot

Window 6

Location	17,004,511 – 17,004,624
Length	113
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.11
Mean single sequence MFE	-33.79
Consensus MFE	-14.76
Energy contribution	-16.07
Covariance contribution	1.31
Combinations/Pair	1.21
Mean z-score	-2.26
Structure conservation index	0.44
SVM decision value	0.79
SVM RNA-class probability	0.850331
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17004511 113 - 22407834
AAACAUGAAAAAUCAGGGGCCCCGAAAACUGAAAC----UGGACUGAAGCGACAGUUCGUGACCUGAUUGGCAACUAGCCAGCAAGCCAGAGCCCCGAAAAUGAUUUUCACU---CUUAA
.....((((((.((((((((...............----.((((((......)))))).((.(.((.(((((.....))))))).).))..))))).....)))))))))..---..... ( -28.30)
>DroPse_CAF1 124906 113 - 1
-AGCAUGAAAAAUCAGUGGCCCCAACAACUGGACGCCACCGG------GCGACACUCCGUGACCUGAUUGGCAAGCAGCCAAAAAAAGAGCGGACUUCAGAUGAUUUUGGCGCUACUGAA
-...........((((((((.((((((.(((((((((....)------)))....(((((.......(((((.....))))).......))))).))))).))...)))).)))))))). ( -41.14)
>DroEre_CAF1 114152 116 - 1
-AACAUGAAAAAUCAGGGGCCCCGAAAACUGAAACUGACUGGACUGAAGCGACAGUUCGUGACCUGAUUGGCAACUAGCCAGCCAGCCAGGGGCCCGAAAAUGAUUUUCACU---CUUAA
-....((((((.(((.(((((((.................((((((......)))))).....(((..((((.....))))..)))...))))))).....)))))))))..---..... ( -38.70)
>DroYak_CAF1 114434 112 - 1
-AACAUGAAAAAUCAGGGGCCCCGAAAACUGAAAC----UGGACUGAAGCGACAGUUCGUGACCUGAUUGGCAACUAGCCAGCAAGCCAGAGCCCCGAAAAUGAUUUUCACU---CUUAA
-....((((((.((((((((...............----.((((((......)))))).((.(.((.(((((.....))))))).).))..))))).....)))))))))..---..... ( -28.30)
>DroAna_CAF1 103069 109 - 1
-AACAUGAAAAAUCAGGG-CCCGGA--CCAAACGC----CGGACUGAAGCGACAGUUCGUGACCUGAUUGGCAACUAGCCCGAAAGGAAAAGCGCCGAAAAUGAUUUUCACU---CUUAA
-....((((((.(((((.-.((((.--.......)----)))......((((....))))..)))))(((((..((...((....))...)).)))))......))))))..---..... ( -29.50)
>DroPer_CAF1 134480 113 - 1
-AGCAUGAAAAAUCAGUGGCCCCAACAACUGGACGCCACCGG------GCGACACUCCGUGACCUGAUUGGCAAGCAGCCGAAAAAAAGAAGGACUGCAGAUGAUUUUGGCGCUACUGAA
-...........((((((((.((((.........((((.(((------(..((.....))..))))..))))..((((((...........)).))))........)))).)))))))). ( -36.80)
>consensus
_AACAUGAAAAAUCAGGGGCCCCGAAAACUGAAAC____CGGACUGAAGCGACAGUUCGUGACCUGAUUGGCAACUAGCCAGAAAGCCAGAGCCCCGAAAAUGAUUUUCACU___CUUAA
.....((((((.((((((....)................(((((((......)))))))...)))))(((((.....)))))......................)))))).......... (-14.76 = -16.07 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:25 2006