Locus 3207

Sequence ID 3R_DroMel_CAF1
Location 8,532,107 – 8,532,227
Length 120
Max. P 0.836377
window5193 window5194

overview

Window 3

Location 8,532,107 – 8,532,227
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.17
Mean single sequence MFE -42.77
Consensus MFE -15.25
Energy contribution -15.75
Covariance contribution 0.50
Combinations/Pair 1.29
Mean z-score -2.34
Structure conservation index 0.36
SVM decision value 0.57
SVM RNA-class probability 0.785533
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8532107 120 + 27905053
AACAGAGCCUUAUCCUGAGACAUGUGGGCAAGGAUCCGCAUCUCCAGCUGACAGAAGUCAGCCGACAAAAGACAUCGGCUCUCAUCCGUGGGCAUGAAUGGUGACCUACAGGAUAUGUGG
.((((((((.......((((..((((((......))))))))))..((((((....))))))..............)))))..((((((((((((.....))).))))).)))).))).. ( -41.10)
>DroVir_CAF1 17135 120 + 1
AGCAGCGCCUUGUCCUGCGACAGAUGCGCCAAGAUGCGCAUCUCCAGCUGACAAAAGUCUGCCGAAAGCAGGCAAUGCUUCUCGUUCGACGACACAAAUGCGCUGCGACAGGAUAUGUUA
.(((((((.(((((..((...((((((((......))))))))...)).)))))..(((...((((((((.....))))).)))...))).........)))))))((((.....)))). ( -47.70)
>DroGri_CAF1 17931 120 + 1
AGCAGUGCCUGAUCCUGCGACAGGUGCGCUAAAAUGCGCAUCUCCAGCUGACAAAAAUCGGCGGAGAGCAGACACCGUUUCCCAUCCAUUGGUGCAAAGGCGCUGCGACACGAUAUAUUG
.(((((((((....((((......(((((......)))))(((((.(((((......)))))))))))))).(((((............)))))...))))))))).............. ( -50.30)
>DroMoj_CAF1 11204 120 + 1
AGCAGUGCCUUGUCCUGCGAGAGAUGCGCCAAGAUGCGCAUCUCCAGCUGACAGAAGUCUGCAGAGAUCAGGCAACGCUUCUCAUCCAUGGGCGCAAAGGCGCUGCGACACGAGAUCUUC
.((((((((((((((((.(((((((((((......)))))))))..((.(((....))).)).((((...(....)...)))).)))).))))...)))))))))).............. ( -52.90)
>DroAna_CAF1 10023 120 + 1
ACAAGUGCCUUGUCCUGCGAUAAAUGCGCCAAAAUUCGCAUCUCCAGCUGACAAAAGUCCGCCGACAACAGGCAACGCGUAGAAUCCAUGGGCAUGAAUGCGGAUCGGCAAGAUACAAUG
....(((.(((((((((((....((((.(((.....(((..........(((....))).(((.......)))...))).........)))))))...)))))...)))))).))).... ( -31.34)
>DroPer_CAF1 10425 120 + 1
ACCAGGGCCUUGUCCUGCGACAAAUGCGCCAAUAUGCGCAUCUCCAGCUGACAGAAGUCCGCCGAUAGCAGACAGCGCUUCUCGUCCAUGGACUUGAAUACUGAUCGACAGGAAAUACGA
........((((((((((.....((((((......)))))).....((.(((....))).)).....)))).(((...(((..(((....)))..)))..)))...))))))........ ( -33.30)
>consensus
AGCAGUGCCUUGUCCUGCGACAGAUGCGCCAAGAUGCGCAUCUCCAGCUGACAAAAGUCCGCCGACAGCAGACAACGCUUCUCAUCCAUGGGCACAAAUGCGCAGCGACAGGAUAUAUUG
....(((((((((((((.((...((((((......)))))).)))))..)))))..(((...........))).................)))))......................... (-15.25 = -15.75 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 8,532,107 – 8,532,227
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.17
Mean single sequence MFE -45.00
Consensus MFE -21.77
Energy contribution -22.50
Covariance contribution 0.73
Combinations/Pair 1.32
Mean z-score -2.02
Structure conservation index 0.48
SVM decision value 0.73
SVM RNA-class probability 0.836377
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8532107 120 - 27905053
CCACAUAUCCUGUAGGUCACCAUUCAUGCCCACGGAUGAGAGCCGAUGUCUUUUGUCGGCUGACUUCUGUCAGCUGGAGAUGCGGAUCCUUGCCCACAUGUCUCAGGAUAAGGCUCUGUU
.....(((((.((.(((..........))).)))))))((((((..((((((....((((((((....))))))))((.(((.((........)).))).))..)))))).))))))... ( -42.60)
>DroVir_CAF1 17135 120 - 1
UAACAUAUCCUGUCGCAGCGCAUUUGUGUCGUCGAACGAGAAGCAUUGCCUGCUUUCGGCAGACUUUUGUCAGCUGGAGAUGCGCAUCUUGGCGCAUCUGUCGCAGGACAAGGCGCUGCU
..............(((((((...(((.(((.....)))...)))((((((((..(((((.(((....))).)))))((((((((......))))))))...))))).))).))))))). ( -51.70)
>DroGri_CAF1 17931 120 - 1
CAAUAUAUCGUGUCGCAGCGCCUUUGCACCAAUGGAUGGGAAACGGUGUCUGCUCUCCGCCGAUUUUUGUCAGCUGGAGAUGCGCAUUUUAGCGCACCUGUCGCAGGAUCAGGCACUGCU
.........(((((((((((((.((...(((.....)))..)).)))).))))(((((((.(((....))).)).)))))(((((......)))))((((...))))....))))).... ( -43.40)
>DroMoj_CAF1 11204 120 - 1
GAAGAUCUCGUGUCGCAGCGCCUUUGCGCCCAUGGAUGAGAAGCGUUGCCUGAUCUCUGCAGACUUCUGUCAGCUGGAGAUGCGCAUCUUGGCGCAUCUCUCGCAGGACAAGGCACUGCU
.....((((((.(((..((((....))))...)))))))))((((.(((((..((.((((.(((....)))....((((((((((......)))))))))).))))))..))))).)))) ( -53.50)
>DroAna_CAF1 10023 120 - 1
CAUUGUAUCUUGCCGAUCCGCAUUCAUGCCCAUGGAUUCUACGCGUUGCCUGUUGUCGGCGGACUUUUGUCAGCUGGAGAUGCGAAUUUUGGCGCAUUUAUCGCAGGACAAGGCACUUGU
..........((((....(((((((((....)))))).....)))((((((((..(((((.(((....))).)))))(((((((........)))))))...))))).)))))))..... ( -36.30)
>DroPer_CAF1 10425 120 - 1
UCGUAUUUCCUGUCGAUCAGUAUUCAAGUCCAUGGACGAGAAGCGCUGUCUGCUAUCGGCGGACUUCUGUCAGCUGGAGAUGCGCAUAUUGGCGCAUUUGUCGCAGGACAAGGCCCUGGU
........((((((...((((.(((..(((....)))..)))..)))).((((..(((((.(((....))).)))))((((((((......))))))))...))))))).)))....... ( -42.50)
>consensus
CAAUAUAUCCUGUCGCACCGCAUUCAUGCCCAUGGAUGAGAAGCGUUGCCUGCUCUCGGCAGACUUCUGUCAGCUGGAGAUGCGCAUCUUGGCGCAUCUGUCGCAGGACAAGGCACUGCU
...........(((........((((......))))............(((((..(((((.(((....))).)))))((((((((......))))))))...)))))....)))...... (-21.77 = -22.50 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:42 2006