Locus 3198

Sequence ID X_DroMel_CAF1
Location 8,468,922 – 8,469,033
Length 111
Max. P 0.989834
window5248 window5249

overview

Window 8

Location 8,468,922 – 8,469,033
Length 111
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 67.24
Mean single sequence MFE -21.27
Consensus MFE -10.99
Energy contribution -11.00
Covariance contribution 0.01
Combinations/Pair 1.19
Mean z-score -2.18
Structure conservation index 0.52
SVM decision value 2.18
SVM RNA-class probability 0.989834
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8468922 111 + 22224390
CUACAUCGGUGCAAGACCUGAUGAGCACCCCCUAUAUGGUGCCCCCUGUUUCACUCCCCCUAUUUCACUACCCUU---------UACGUAUCCUUGCACUAUCCAUAGAUUUUCUUGGGU
.......((((((((.........(((((........)))))..........................(((....---------...)))..))))))))(((((.((.....))))))) ( -21.80)
>DroSec_CAF1 11693 120 + 1
CUACAUCGGUGCAAGACCCGAUGAGCACCCCCUAUAUGGUGCCCCCUGUUUCACUAACCCUAUUUCACUCCCCCUAUUUCAAACUACGUAUCCUUGCACUGUCCAUAGAUUUUCUUGCGU
(((...((((((((((..((....(((((........))))).....(((.....)))............................))..).)))))))))....)))............ ( -21.80)
>DroYak_CAF1 18351 85 + 1
CUACAUCGGUGCCAGACUUUAGGAGCACCCCCUAUAUAGUAG------------------------GUACCCCC----------UAUGCCUCCUUGCACUAUUCGUAGAUUUUCUU-UUU
((((...((((((..(((.((((.......))))...))).)------------------------)))))...----------..(((......)))......))))........-... ( -20.20)
>consensus
CUACAUCGGUGCAAGACCUGAUGAGCACCCCCUAUAUGGUGCCCCCUGUUUCACU__CCCUAUUUCACUCCCCCU_________UACGUAUCCUUGCACUAUCCAUAGAUUUUCUUGCGU
.......(((((............)))))..(((((((((((.....................................................)))))))..))))............ (-10.99 = -11.00 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,468,922 – 8,469,033
Length 111
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 67.24
Mean single sequence MFE -27.17
Consensus MFE -15.98
Energy contribution -16.73
Covariance contribution 0.76
Combinations/Pair 1.14
Mean z-score -1.53
Structure conservation index 0.59
SVM decision value 1.19
SVM RNA-class probability 0.928380
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8468922 111 - 22224390
ACCCAAGAAAAUCUAUGGAUAGUGCAAGGAUACGUA---------AAGGGUAGUGAAAUAGGGGGAGUGAAACAGGGGGCACCAUAUAGGGGGUGCUCAUCAGGUCUUGCACCGAUGUAG
..(((((.....)).)))...((((((((.(((...---------....)))........................(((((((........)))))))......))))))))........ ( -25.60)
>DroSec_CAF1 11693 120 - 1
ACGCAAGAAAAUCUAUGGACAGUGCAAGGAUACGUAGUUUGAAAUAGGGGGAGUGAAAUAGGGUUAGUGAAACAGGGGGCACCAUAUAGGGGGUGCUCAUCGGGUCUUGCACCGAUGUAG
.(....).....(((((..(.((((((((...((............................(((.....)))...(((((((........)))))))..))..)))))))).).))))) ( -27.40)
>DroYak_CAF1 18351 85 - 1
AAA-AAGAAAAUCUACGAAUAGUGCAAGGAGGCAUA----------GGGGGUAC------------------------CUACUAUAUAGGGGGUGCUCCUAAAGUCUGGCACCGAUGUAG
...-........(((((....((((....((((...----------((((((((------------------------(..((....))..)))))))))...)))).))))...))))) ( -28.50)
>consensus
ACACAAGAAAAUCUAUGGAUAGUGCAAGGAUACGUA_________AGGGGGAGUGAAAUAGGG__AGUGAAACAGGGGGCACCAUAUAGGGGGUGCUCAUCAGGUCUUGCACCGAUGUAG
............(((((....((((((((.....................................(.....)...(((((((........)))))))......))))))))...))))) (-15.98 = -16.73 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:36 2006