Locus 561

Sequence ID	3R_DroMel_CAF1
Location	2,093,694 – 2,093,854
Length	160
Max. P	0.705756

overview

Window 1

Location	2,093,694 – 2,093,814
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	84.00
Mean single sequence MFE	-45.00
Consensus MFE	-28.80
Energy contribution	-29.92
Covariance contribution	1.12
Combinations/Pair	1.25
Mean z-score	-2.44
Structure conservation index	0.64
SVM decision value	-0.00
SVM RNA-class probability	0.533130
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2093694 120 - 27905053
UGCCAUUGUAGCGGGAAAGGCGCUUAUUGUGGGCAAGAUUGCGCUGAUCAUCAGUGCUAUAAUCGGUCUGAAAAAACUUGUGGGUCACGACGGCGGCGAGAAGACCACCUACGAGAUCGU
.((((((((((((.((..(((((...(((....)))....)))))..)).....))))))))).))).........(((((((((......(((........).)))))))))))..... ( -34.70)
>DroGri_CAF1 245125 120 - 1
UGCCAUUGUCGCUGGCAAGGCGCUGAUUGUGGGCAAAAUAGCGUUGAUCAUCAGCGCCAUCAUUGGAUUGAAGAAGCUCGUCAGUCACGAUGGCGGCGAGAAGACAACCUAUGAGAUUGU
.((((((((.((((((..(((((((((.((.(((........))).)).))))))))).(((......)))........)))))).)))))))).........((((.(.....).)))) ( -44.90)
>DroWil_CAF1 242238 120 - 1
UGCCAUUGUGGCGGGCAAGGCUCUGAUUGUGGGCAAAAUUGCUCUUAUCAUUAGCGCCAUCAUUGGCCUCAAGAAGCUUGUUAGCCACGAUGGCGGCGAAAAGACCACCUACGAAAUUGU
.(((((((((((..((((((((.((((...(((((....)))))..))))..)))((((....)))).........)))))..)))))))))))(((.....).)).............. ( -48.00)
>DroMoj_CAF1 249094 120 - 1
AGCCAUUGUGGCCGGCAAGGCGCUGAUCGUGGGCAAGAUCGCGCUGAUCAUCAGCGCCAUCAUCGGGCUGAAGAAGCUGGUCAGCCACGACGGCGGCGAGAAGACCACCUAUGAGAUUGU
.(((.(((((((.(((..(((((((((.((.(((........))).)).))))))))).......((((.....)))).))).))))))).)))(((.....).)).............. ( -51.00)
>DroAna_CAF1 212973 120 - 1
UGCCAUUGUGGCCGGCAAGGCGUUGAUAGUGGGAAAAAUAGCGCUAAUCAUUAGCGCCAUUAUCGGUUUAAAGAAACUUGUGGGCCACGACGGCGGUGAGAAGACCACAUACGAAAUCGU
.(((.((((((((.(((((.(.(((((((((.........((((((.....)))))))))))))))......)...))))).)))))))).)))(((......)))....(((....))) ( -45.00)
>DroPer_CAF1 214921 120 - 1
CGCCAUUGUGGCUGGCAAGGCUUUGAUUGUGGGCAAAAUAGCUCUCAUCAUCAGCGCCAUCAUCGGUCUGAAGAAGCUUGUUGGCCACGACGGGGGCGAGAAGACCACCUACGAAAUCGU
((((.(((((((..(((((.(((((((.(.((((......)))).)))).((((.(((......))))))).)))))))))..)))))))....))))............(((....))) ( -46.40)
>consensus
UGCCAUUGUGGCCGGCAAGGCGCUGAUUGUGGGCAAAAUAGCGCUGAUCAUCAGCGCCAUCAUCGGUCUGAAGAAGCUUGUCAGCCACGACGGCGGCGAGAAGACCACCUACGAAAUCGU
.(((.(((((((.((((((((((((((.((((((......)).)).)).))))))))).(((......)))......))))).))))))).)))(((.....).)).............. (-28.80 = -29.92 +   1.12)

alignment

secondary structure

dotplot

Window 2

Location	2,093,734 – 2,093,854
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.06
Mean single sequence MFE	-40.85
Consensus MFE	-27.48
Energy contribution	-27.12
Covariance contribution	-0.36
Combinations/Pair	1.31
Mean z-score	-2.34
Structure conservation index	0.67
SVM decision value	0.36
SVM RNA-class probability	0.705756
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2093734 120 - 27905053
UGUUAAAGACCGCUAUUCUAAAGAUGGCAUACCACUCCAUUGCCAUUGUAGCGGGAAAGGCGCUUAUUGUGGGCAAGAUUGCGCUGAUCAUCAGUGCUAUAAUCGGUCUGAAAAAACUUG
......((((((((.((((...(((((((...........)))))))......)))).)))((((.....))))..((((((((((.....))))))...)))))))))........... ( -36.90)
>DroVir_CAF1 300996 120 - 1
UGCUAAAGACGGCCAUACUGAAAAUGGCCUACCAUUCGAUUGCCAUUGUGGCUGGCAAGGCGCUGAUUGUGGGCAAAAUCGCGCUGAUCAUCAGCGCCAUCAUUGGGCUAAAGAAGCUGG
.(((......((((((.......))))))..(((...((((((((.......))))))(((((((((.((.(((........))).)).))))))))).))..)))........)))... ( -45.40)
>DroGri_CAF1 245165 120 - 1
UCCUGAAGACUGCCAUACUUAAGAUGGCCUAUCAUUCGAUUGCCAUUGUCGCUGGCAAGGCGCUGAUUGUGGGCAAAAUAGCGUUGAUCAUCAGCGCCAUCAUUGGAUUGAAGAAGCUCG
((((((....(((((.......((((((..(((....))).)))))).....))))).(((((((((.((.(((........))).)).))))))))).)))..)))............. ( -39.90)
>DroWil_CAF1 242278 120 - 1
UGCUAAAAACAGCCAUUUUAAAGAUGGCCUAUCAUUCGAUUGCCAUUGUGGCGGGCAAGGCUCUGAUUGUGGGCAAAAUUGCUCUUAUCAUUAGCGCCAUCAUUGGCCUCAAGAAGCUUG
.(((((.....(((((......((((((..(((....))).)))))))))))((((((.((((.......))))....))))))......)))))((((....))))............. ( -38.80)
>DroMoj_CAF1 249134 120 - 1
UGCUCAAGACGGCCAUACUGAAGAUGGCCUAUCACUCGAUAGCCAUUGUGGCCGGCAAGGCGCUGAUCGUGGGCAAGAUCGCGCUGAUCAUCAGCGCCAUCAUCGGGCUGAAGAAGCUGG
.((((....(((((((......((((((.((((....)))))))))))))))))....(((((((((.((.(((........))).)).)))))))))......))))............ ( -51.70)
>DroAna_CAF1 213013 120 - 1
UUCUAAAAACAGCUAUCCUGAAAAUGGCCUACCAUUCGAUUGCCAUUGUGGCCGGCAAGGCGUUGAUAGUGGGAAAAAUAGCGCUAAUCAUUAGCGCCAUUAUCGGUUUAAAGAAACUUG
.............((..((((.((((.(((((...(((((.(((.((((.....))))))))))))..))))).......((((((.....)))))))))).))))..)).......... ( -32.40)
>consensus
UGCUAAAGACAGCCAUACUGAAGAUGGCCUACCAUUCGAUUGCCAUUGUGGCCGGCAAGGCGCUGAUUGUGGGCAAAAUAGCGCUGAUCAUCAGCGCCAUCAUCGGGCUGAAGAAGCUUG
.........(.(((((......((((((.............))))))))))).)....(((((((((.((.(((........))).)).)))))))))...................... (-27.48 = -27.12 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:06 2006