Locus 8869

Sequence ID 3R_DroMel_CAF1
Location 23,808,273 – 23,808,468
Length 195
Max. P 0.500000
window14236 window14237

overview

Window 6

Location 23,808,273 – 23,808,373
Length 100
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.04
Mean single sequence MFE -19.03
Consensus MFE -13.64
Energy contribution -13.97
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.14
Structure conservation index 0.72
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23808273 100 + 27905053
---CAUCACCCGCAUUUAGGCCAAGUUAUUCGUUCGAUUGCGGUU-UUGUUCGCCUAAAAUAUCGAAUUUCUUUUGGCAAA--AAUGCUUCUGCUACCCCACCAAC
---........((((((..((((((......(((((((.((((..-....)))).......)))))))....))))))..)--))))).................. ( -23.30)
>DroSec_CAF1 13552 85 + 1
---CAUCGCCCGCAUUUAGGCCAAGUUAUUCGUUCGAUUGCGGUU-UUGUUCGCCUGAAAUAUCGAAUUUCUUUUCGCAAA--AAUGCUUC---------------
---........((((((..((.(((..(((((((((...((((..-....)))).))))....)))))..)))...))..)--)))))...--------------- ( -18.60)
>DroSim_CAF1 13598 85 + 1
---CAACGCCCGCAUUUAGGCCAAGUUAUGCGUUCGAUUGCGGUU-UUGUUCGCCUGAAAUAUCGAAUUUCUUUUCGCAAA--AAUGCUUC---------------
---........((((((((((((((...((((......))))..)-)))...)))))))....((((......))))....--..)))...--------------- ( -17.70)
>DroEre_CAF1 13804 94 + 1
---AGCCACCCGCAUUUAGGCCAAGUUAUUCGUGCGAUUGCGGUUUUUGUUCGCCUAAAAUGUCGAAUUUCUUUUUGCAGA--AAUGCUCCUACUCCUC-------
---........((((((..((.(((..(((((.(((.((((((.......))))...)).))))))))..)))...))..)--)))))...........------- ( -19.00)
>DroYak_CAF1 14144 89 + 1
---AGCCACCCGCAUUUCAGCCAAGUUAUUCGUGCGAUUGCGGUU-UUGUUCGCCUAAAAUAUCGAAUUUCUUUUCGCAAA--AAUGCUUCUACU-----------
---........((((((..((.(((..(((((.......((((..-....)))).........)))))..)))...))..)--))))).......----------- ( -17.49)
>DroAna_CAF1 14174 90 + 1
AAAAACAAUCCGCAUUUAGGCUAAGUUAUUCGUGCAUUUGCGGUU-UUGUUCGCCUGAAAUAUCGAAUUUCUUUUCGCAAUUUAAUGGUUU---------------
...(((((.(((((.....((...(.....)..))...)))))..-))))).(((..((((..((((......))))..))))...)))..--------------- ( -18.10)
>consensus
___AACCACCCGCAUUUAGGCCAAGUUAUUCGUGCGAUUGCGGUU_UUGUUCGCCUAAAAUAUCGAAUUUCUUUUCGCAAA__AAUGCUUC_______________
...........(((((...((.(((..(((((.......((((.......)))).........)))))..)))...)).....))))).................. (-13.64 = -13.97 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 23,808,373 – 23,808,468
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 83.03
Mean single sequence MFE -15.20
Consensus MFE -11.89
Energy contribution -11.95
Covariance contribution 0.06
Combinations/Pair 1.11
Mean z-score -1.35
Structure conservation index 0.78
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23808373 95 + 27905053
CUCACCCCCGCCCCCUCCUGCCACCGGCUGCUGCAAAUAAUAAAACCGAUGUUAAUCCUUCAAGGACAUGCAGCCGGACAUAUGUUUGUCCAAAC
.........................((((((((....(((((.......))))).(((.....))))).))))))(((((......))))).... ( -22.40)
>DroSec_CAF1 13637 85 + 1
----------CCCCCUCAUGCCAGCGACUGCCAUAAAUAAUAAAACCGAUGUUAAUCUUUCAAGGACAUGCAGCCGGACAUAUGUUUGUCCAAAC
----------....((((((((.((....))................(((....)))......)).)))).))..(((((......))))).... ( -15.30)
>DroSim_CAF1 13683 85 + 1
----------CCCCCUCAUGCCAACGACUGCCAUAAAUAAUAAAACCGAUGUUAAUCUUUCAAGGACAUGCAGCCGGACAUAUGUUUGUCCAAAC
----------....((((((((...(.....)...............(((....)))......)).)))).))..(((((......))))).... ( -13.30)
>DroEre_CAF1 13898 88 + 1
-------CCUACUCCUCCCUCCUCCGCCUGCCAUAAAUAAUAAAACCGAUGUUAAUCUUUCAAGGACAUGCAGCCGGACAUAUGUUUGUCCAAAC
-------..................(.((((......(((((.......))))).(((.....)))...)))).)(((((......))))).... ( -12.50)
>DroYak_CAF1 14233 79 + 1
----------------CCCUCCACCGCCUGCCAUAAAUAAUAAAACCGAUGUUAAUCUUUCAAGGACAUGCAGACGGACAUAUGUUUGUCCAAAC
----------------.........(.((((......(((((.......))))).(((.....)))...)))).)(((((......))))).... ( -12.50)
>DroAna_CAF1 14264 78 + 1
----------C------CC-CCCACACCUGCCAUAAAUUAUAAAACCGAUGUUAAUCUUUCAAAGACAGGCAGCGGGACAUAUGUUUGUCCAAAC
----------.------..-......((((((...........(((....)))..(((.....)))..))))).)(((((......))))).... ( -15.20)
>consensus
__________CCCCCUCCCGCCACCGCCUGCCAUAAAUAAUAAAACCGAUGUUAAUCUUUCAAGGACAUGCAGCCGGACAUAUGUUUGUCCAAAC
.........................(.((((......(((((.......))))).(((.....)))...)))).)(((((......))))).... (-11.89 = -11.95 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:40 2006