Locus 548

Sequence ID	3R_DroMel_CAF1
Location	2,045,971 – 2,046,091
Length	120
Max. P	0.637469

overview

Window 3

Location	2,045,971 – 2,046,091
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.44
Mean single sequence MFE	-40.97
Consensus MFE	-23.39
Energy contribution	-23.45
Covariance contribution	0.06
Combinations/Pair	1.24
Mean z-score	-2.16
Structure conservation index	0.57
SVM decision value	0.21
SVM RNA-class probability	0.637469
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2045971 120 + 27905053
AUCAACACUAUUGCGGCUACCACGAAGGCAAUUUUGGACAGGAUCAGAGCCUUGAGAGUCAGGAGCCCCACCGCCUUUGCGGCCACCAUCGUCCACCCGAAUGUUGUGGCCGCCAGGUAC
...........((.((((.((.(((((....)))))(((....((((....))))..))).)))))).))..((((..(((((((((((((......)).)))..)))))))).)))).. ( -37.30)
>DroVir_CAF1 237945 120 + 1
AUCAGCACAAUGGCGGCCACGACAAAGGCUAUUUUGGAAAGGAUGAGCGCCUUGAGGGUCAGCAGGCCCACCGCCUUGGCGGCCACCAUGGUCCAGCCAAAGGUUGUCGCGGCCAGAUAC
(((.((......))((((.((((((((((((((((....))))))...)))))..(((((....)))))...((((((((((((.....)).)).))).)))))))))).)))).))).. ( -50.70)
>DroGri_CAF1 190365 120 + 1
AUCAGCACAAUGGCUGCAACAACAAAGGCAAUUUUAGACAGAAUGAGCGCCUUAAGAGUGAGUAAGCCAACCGCCUUGGCGGCCACCAUCGUCCAUCCGAAGGUUGUGGCUGCCAGAUAC
(((.((....(((((((.((....(((((.(((((....)))))....)))))....))..)).)))))...))..((((((((((.(((.((.....)).))).))))))))))))).. ( -37.60)
>DroWil_CAF1 189913 120 + 1
AUCAAGACUAUGGCAGCCACCACAAAGGCAAUUUUCGAUAGAAUCAAAGCUUUUAGAGUCAACAAUCCCACAGCUUUUGCUGCCACCAUUGUCCAACCGAAUGUUGUGGCUGCCAGAUAC
..........((((((((((.((((((((....(((....))).....)))))).......(((((....((((....)))).....)))))..........)).))))))))))..... ( -34.80)
>DroMoj_CAF1 194002 120 + 1
AUCAGCACGAUGGCUGCAACGACAAAGGCAAUUUUCGACAGGAUUAGAGCCUUGAGGGUCAGCAAACCCACCGCCUUGGCAGCCACCAUGGUCCAGCCAAAGGUUGAGGCAGCCAGAUAC
..........(((((((..((((.(((((.........((((........)))).((((......))))...)))))(((.(((.....)))...)))....))))..)))))))..... ( -41.40)
>DroAna_CAF1 166149 120 + 1
AUGAGCACUAUGGCAGCCACCACAAAGGCUAUUUUUGACAGGAUCAAAGCCUUCAAGGUAAGCAGGCCCACUGCCUUCGCAGCCACCAUGGUCCAGCCAAAGGUCGUGGCUGCCAAGUAC
......(((.((((((((((.((...((((..((((((.(((.......)))))))))...((((((.....))))..))))))....(((.....)))...)).))))))))))))).. ( -44.00)
>consensus
AUCAGCACUAUGGCAGCCACCACAAAGGCAAUUUUCGACAGGAUCAGAGCCUUGAGAGUCAGCAAGCCCACCGCCUUGGCGGCCACCAUGGUCCAGCCAAAGGUUGUGGCUGCCAGAUAC
..........(((((((.((.((.(((((.(((((....)))))....))))).................((((....))))....................)).)).)))))))..... (-23.39 = -23.45 +   0.06)

alignment

secondary structure

dotplot

Window 4

Location	2,045,971 – 2,046,091
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.44
Mean single sequence MFE	-43.79
Consensus MFE	-27.91
Energy contribution	-27.58
Covariance contribution	-0.33
Combinations/Pair	1.38
Mean z-score	-1.52
Structure conservation index	0.64
SVM decision value	-0.04
SVM RNA-class probability	0.515080
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2045971 120 - 27905053
GUACCUGGCGGCCACAACAUUCGGGUGGACGAUGGUGGCCGCAAAGGCGGUGGGGCUCCUGACUCUCAAGGCUCUGAUCCUGUCCAAAAUUGCCUUCGUGGUAGCCGCAAUAGUGUUGAU
..(((((((((((((.....(((......)))..))))))))....(((((((((((..((.....)).))))))...............((((.....)))))))))..))).)).... ( -41.50)
>DroVir_CAF1 237945 120 - 1
GUAUCUGGCCGCGACAACCUUUGGCUGGACCAUGGUGGCCGCCAAGGCGGUGGGCCUGCUGACCCUCAAGGCGCUCAUCCUUUCCAAAAUAGCCUUUGUCGUGGCCGCCAUUGUGCUGAU
((((.((((((((((((.....(((((((....((((..((((..((.(((.((....)).))).))..))))..))))...))).....)))).)))))))))))).....)))).... ( -47.10)
>DroGri_CAF1 190365 120 - 1
GUAUCUGGCAGCCACAACCUUCGGAUGGACGAUGGUGGCCGCCAAGGCGGUUGGCUUACUCACUCUUAAGGCGCUCAUUCUGUCUAAAAUUGCCUUUGUUGUUGCAGCCAUUGUGCUGAU
((((.((((.((.((((((....).(((((((((((((((((....))))))(.((((........)))).))).))))..)))))...........))))).)).))))..)))).... ( -36.50)
>DroWil_CAF1 189913 120 - 1
GUAUCUGGCAGCCACAACAUUCGGUUGGACAAUGGUGGCAGCAAAAGCUGUGGGAUUGUUGACUCUAAAAGCUUUGAUUCUAUCGAAAAUUGCCUUUGUGGUGGCUGCCAUAGUCUUGAU
.....((((((((((.(((...(((.......((((((.((..((((((...(((........)))...))))))..))))))))......)))..))).)))))))))).......... ( -39.42)
>DroMoj_CAF1 194002 120 - 1
GUAUCUGGCUGCCUCAACCUUUGGCUGGACCAUGGUGGCUGCCAAGGCGGUGGGUUUGCUGACCCUCAAGGCUCUAAUCCUGUCGAAAAUUGCCUUUGUCGUUGCAGCCAUCGUGCUGAU
...((..(((............)))..)).((((((((((((...(((((.(((((....))))).)(((((.....((.....)).....)))))))))...))))))))))))..... ( -43.80)
>DroAna_CAF1 166149 120 - 1
GUACUUGGCAGCCACGACCUUUGGCUGGACCAUGGUGGCUGCGAAGGCAGUGGGCCUGCUUACCUUGAAGGCUUUGAUCCUGUCAAAAAUAGCCUUUGUGGUGGCUGCCAUAGUGCUCAU
(((((((((((((((.((....(((.((.((......(((((....))))).)))).)))......((((((((((((...)))))....))))))))).)))))))))).))))).... ( -54.40)
>consensus
GUAUCUGGCAGCCACAACCUUCGGCUGGACCAUGGUGGCCGCCAAGGCGGUGGGCCUGCUGACCCUCAAGGCUCUGAUCCUGUCCAAAAUUGCCUUUGUGGUGGCAGCCAUAGUGCUGAU
((((.(((((((.((.((..(((((.((((....)).(((((....)))))...)).))))).....(((((...................))))).)).)).)))))))..)))).... (-27.91 = -27.58 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:48 2006