Locus 909

Sequence ID 3R_DroMel_CAF1
Location 3,068,521 – 3,068,628
Length 107
Max. P 0.629969
window1441 window1442

overview

Window 1

Location 3,068,521 – 3,068,628
Length 107
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 74.83
Mean single sequence MFE -34.96
Consensus MFE -15.45
Energy contribution -15.95
Covariance contribution 0.50
Combinations/Pair 1.31
Mean z-score -1.91
Structure conservation index 0.44
SVM decision value 0.16
SVM RNA-class probability 0.614405
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3068521 107 + 27905053
ACCUGCACCAUAUCCAACAGCACCAGCCCUGCCACUUACUCCCGCUCCGGCUCCUACUGCAUAUGGAGCAGGCUUGUUUCCCUCACCCGCUGUUGGAUUUACGCCAA
....((.....((((((((((......................(((((.((.......))....)))))(((........))).....))))))))))....))... ( -29.20)
>DroPse_CAF1 55934 107 + 1
UCCGGGUGCGUAUCCCACAGGAACAGCCUUGCCUCUGACCCCCGCCCCCGCCACGACAGCCUAUGGAGCGGGUUUGUUCCCUUCUCCCGCUGUGGGCUACACGCCAA
....((((.(((.((((((((((((((...))........(((((((..((.......))....)).)))))..))))))..........)))))).))).)))).. ( -36.40)
>DroGri_CAF1 69713 104 + 1
ACCUGGGUCCUAUCCCACAGGCACAGCUCUGCCCCUGACGCCUGCGCCUGC---AACAGCCUACGGCGCUGGCCUGUUUCCAUCGCCAGCUGUGGGCUAUACGCCAA
...((((......))))(((((.((((((.......)).).))).))))).---...((((((((((..((((.((....))..))))))))))))))......... ( -39.50)
>DroYak_CAF1 57431 107 + 1
AGCAGUACCUUAUCCCACAGCACCAGCCCUACCACUUACUCCUGCUCCAACCACCACUGCAUAUGGGGCGGGGUUAUUCCCCUCACCCGCUGUUGGAUUUACGCCUA
.((.(((....((((.(((((....((((((...........(((.............)))..))))))((((.....))))......))))).)))).)))))... ( -31.24)
>DroAna_CAF1 71894 107 + 1
CCCAGGUCCCUAUCCGACAGCUGCUGCUCUACCCCUGACCCCGGCUCCGGCUACUACUGCCUACGGUGCGGGUUUGUUUCCGUCACCCGCCGUGGGGUUUACGCCUA
..((((((.......)))(((....)))......))).(((((((...(((.......)))...((((((((......)))).)))).)))).)))........... ( -35.10)
>DroPer_CAF1 55956 107 + 1
UCCGGGCGCGUAUCCCACAGGAACAGCCUUGCCUCUGACCCCCGCCCCCGCCACGACAGCCUAUGGAGCGGGUUUGUUCCCUUCUCCCGCUGUGGGCUACACGCCAA
....((((.(((.((((((((((((((...))........(((((((..((.......))....)).)))))..))))))..........)))))).))).)))).. ( -38.30)
>consensus
ACCAGGACCCUAUCCCACAGCAACAGCCCUGCCACUGACCCCCGCUCCCGCCACGACAGCCUAUGGAGCGGGUUUGUUCCCCUCACCCGCUGUGGGCUAUACGCCAA
.............(((((((.......................((.............))....((((.(((.......))).))))..)))))))........... (-15.45 = -15.95 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,068,521 – 3,068,628
Length 107
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 74.83
Mean single sequence MFE -43.63
Consensus MFE -22.14
Energy contribution -22.06
Covariance contribution -0.08
Combinations/Pair 1.41
Mean z-score -1.72
Structure conservation index 0.51
SVM decision value 0.20
SVM RNA-class probability 0.629969
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3068521 107 - 27905053
UUGGCGUAAAUCCAACAGCGGGUGAGGGAAACAAGCCUGCUCCAUAUGCAGUAGGAGCCGGAGCGGGAGUAAGUGGCAGGGCUGGUGCUGUUGGAUAUGGUGCAGGU
...((((..((((((((((((((...(....)..)))))).......(((.(((..((((..((....))...))))....))).)))))))))))...)))).... ( -37.80)
>DroPse_CAF1 55934 107 - 1
UUGGCGUGUAGCCCACAGCGGGAGAAGGGAACAAACCCGCUCCAUAGGCUGUCGUGGCGGGGGCGGGGGUCAGAGGCAAGGCUGUUCCUGUGGGAUACGCACCCGGA
..((.(((((.(((((..(....)..((((((...((((((((....(((.....))).))))))))((((........))))))))))))))).))))).)).... ( -48.80)
>DroGri_CAF1 69713 104 - 1
UUGGCGUAUAGCCCACAGCUGGCGAUGGAAACAGGCCAGCGCCGUAGGCUGUU---GCAGGCGCAGGCGUCAGGGGCAGAGCUGUGCCUGUGGGAUAGGACCCAGGU
((((.((....(((((..(((((..((....)).(((.(((((....((....---)).))))).))))))))(((((......)))))))))).....)))))).. ( -49.00)
>DroYak_CAF1 57431 107 - 1
UAGGCGUAAAUCCAACAGCGGGUGAGGGGAAUAACCCCGCCCCAUAUGCAGUGGUGGUUGGAGCAGGAGUAAGUGGUAGGGCUGGUGCUGUGGGAUAAGGUACUGCU
..........((((((.(((((((.(((......))))))))(((.....))))).))))))((((......((..((.(((....))).))..))......)))). ( -34.70)
>DroAna_CAF1 71894 107 - 1
UAGGCGUAAACCCCACGGCGGGUGACGGAAACAAACCCGCACCGUAGGCAGUAGUAGCCGGAGCCGGGGUCAGGGGUAGAGCAGCAGCUGUCGGAUAGGGACCUGGG
..(((....(((((...((((((...(....)..)))))).(((..(((.......))).....))).....)))))..(((....))))))...(((....))).. ( -37.30)
>DroPer_CAF1 55956 107 - 1
UUGGCGUGUAGCCCACAGCGGGAGAAGGGAACAAACCCGCUCCAUAGGCUGUCGUGGCGGGGGCGGGGGUCAGAGGCAAGGCUGUUCCUGUGGGAUACGCGCCCGGA
..((((((((.(((((..(....)..((((((...((((((((....(((.....))).))))))))((((........))))))))))))))).)))))))).... ( -54.20)
>consensus
UUGGCGUAAAGCCCACAGCGGGUGAAGGAAACAAACCCGCUCCAUAGGCAGUAGUGGCCGGAGCGGGGGUCAGAGGCAGGGCUGUUCCUGUGGGAUACGGACCAGGU
((((.......(((((((.(((....(....)...)))(((((....((.......)).))))).......................))))))).......)))).. (-22.14 = -22.06 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:10 2006