Locus 6457

Sequence ID 2R_DroMel_CAF1
Location 20,188,715 – 20,188,829
Length 114
Max. P 0.974296
window10296 window10297

overview

Window 6

Location 20,188,715 – 20,188,808
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 83.12
Mean single sequence MFE -16.81
Consensus MFE -11.39
Energy contribution -12.26
Covariance contribution 0.87
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.68
SVM decision value 0.04
SVM RNA-class probability 0.553617
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20188715 93 - 20766785
UUAACCUGUCAUUCGAUUCCGAAUGGCGCACCUGAAAUGCAUUAAGAGACAUCCACCAAAAAAAGUGAUAACGAAACCUCAUGAAUUAUUACU
.......((((((((....))))))))(((.......))).......................((((((((..............)))))))) ( -15.14)
>DroSim_CAF1 12820 93 - 1
UUAACCUGUCAUUCGAGUCAGAAUGGCGCACCUGAAAUGCAUUAAGGGGCACCCGCCAAAAAAAGUGAUAACGAAACCCCAUGAAUUAUUACU
....((((((((((......)))))))(((.......)))....)))(((....)))......((((((((..............)))))))) ( -21.04)
>DroEre_CAF1 12540 87 - 1
UUAAGCUGCCAUUCUAUUCAGAAUGGCGCACCCAAAAUGCAUUAAGUUCCAGCCACCAAA-AAAGUGAUA-----ACGCCAUAAAUAAUUACU
....(((((((((((....))))))))(((.......)))..........))).......-..((((((.-----............)))))) ( -17.02)
>DroYak_CAF1 12765 92 - 1
UUAACCUGUCAAUCGAUGCGGAAUGCCGCACCCAAAGUGCAUUAAGUUCCAGCCACCAAA-AAAGUGAUAACAAAACGCCAUAAAUUAUUACU
.......(((....)))(((((((...((((.....)))).....))))).)).......-..((((((((..............)))))))) ( -14.04)
>consensus
UUAACCUGUCAUUCGAUUCAGAAUGGCGCACCCAAAAUGCAUUAAGUGCCAGCCACCAAA_AAAGUGAUAACGAAACCCCAUAAAUUAUUACU
.......(((((((......)))))))(((.......))).......................((((((((..............)))))))) (-11.39 = -12.26 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,188,736 – 20,188,829
Length 93
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 78.96
Mean single sequence MFE -19.77
Consensus MFE -15.15
Energy contribution -15.28
Covariance contribution 0.13
Combinations/Pair 1.25
Mean z-score -2.16
Structure conservation index 0.77
SVM decision value 1.73
SVM RNA-class probability 0.974296
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20188736 93 - 20766785
AAAUUCCAAGUU------AAAGCCCUCUUAACCUGUCAUUCGAUUCCGAAUGGCGCACCUGAAAUGCAUUAAGAGACAUCCACCAAAAAAAGUGAUAAC
.........(((------(.....(((((((...((((((((....))))))))(((.......))).))))))).....(((........))).)))) ( -20.70)
>DroSim_CAF1 12841 93 - 1
AAACUCCAAGUU------AAAGCCCUCUUAACCUGUCAUUCGAGUCAGAAUGGCGCACCUGAAAUGCAUUAAGGGGCACCCGCCAAAAAAAGUGAUAAC
.........(((------(..((((.(((((...(((((((......)))))))(((.......))).)))))))))...(((........))).)))) ( -24.30)
>DroEre_CAF1 12558 96 - 1
GAAAUUCCAGUUCUAUAAAGACCCAGCUUAAGCUGCCAUUCUAUUCAGAAUGGCGCACCCAAAAUGCAUUAAGUUCCAGCCACCAAA-AAAGUGAUA--
.........................(((..((((((((((((....))))))))(((.......)))....))))..)))(((....-...)))...-- ( -19.50)
>DroYak_CAF1 12786 92 - 1
AAAACCCAAGUU------AGACACCUCUUAACCUGUCAAUCGAUGCGGAAUGCCGCACCCAAAGUGCAUUAAGUUCCAGCCACCAAA-AAAGUGAUAAC
.........(((------(..(((..........(((....)))(((((((...((((.....)))).....))))).)).......-...))).)))) ( -14.60)
>consensus
AAAAUCCAAGUU______AAACCCCUCUUAACCUGUCAUUCGAUUCAGAAUGGCGCACCCAAAAUGCAUUAAGUGCCAGCCACCAAA_AAAGUGAUAAC
........................(((((((...(((((((......)))))))(((.......))).))))))).....(((........)))..... (-15.15 = -15.28 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:26 2006