Locus 1236

Sequence ID 2R_DroMel_CAF1
Location 4,851,295 – 4,851,495
Length 200
Max. P 0.972630
window2147 window2148

overview

Window 7

Location 4,851,295 – 4,851,415
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -30.73
Consensus MFE -28.21
Energy contribution -28.87
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.92
SVM decision value 0.08
SVM RNA-class probability 0.573796
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4851295 120 + 20766785
UUAAAAUCAAUUAGAGAUUCGGUCGAAACAUGCACUCAGGUAAACGAUGCUUAACUGCCAGGCUAUCUAAUCUGAUUUUAAUUAAGCUGAUAGUCUGCUAUUUGCAGGCGCCCUGCAAUC
(((((((((((((((.....((((.......(((.(.(((((.....))))).).)))..)))).)))))).)))))))))....((.....((((((.....)))))).....)).... ( -29.10)
>DroEre_CAF1 7779 120 + 1
UUAAAAUCAAUUAGAGAUUCGCUCGCAACAUGCACUCAGGUAAACGAUGCUUAACUGACAGGGUAUCUAAUCUGAUUUUAAUUAAGCUGAUAGUCUGCUCUGUGCAGGCGCACUGCAAUC
(((((((((((((((.....((((((.....))..((((.(((.......))).))))..)))).)))))).)))))))))....((.....((((((.....)))))).....)).... ( -31.20)
>DroYak_CAF1 12155 120 + 1
UUAAAAUCAAUUAGAGAUUCGGUCGAAACGUGCACUCAGGUAAACGAUGCUUAACUGCCAGGGUAUCUAAUCUGAUUUUAAUUAAGCUGAUAGUCUGCUCUUUGCAGGCGCACUGCAAUC
(((((((((((((((.((((.((((..((.((....)).))...))))((......))..)))).)))))).)))))))))....((.....((((((.....)))))).....)).... ( -31.90)
>consensus
UUAAAAUCAAUUAGAGAUUCGGUCGAAACAUGCACUCAGGUAAACGAUGCUUAACUGCCAGGGUAUCUAAUCUGAUUUUAAUUAAGCUGAUAGUCUGCUCUUUGCAGGCGCACUGCAAUC
(((((((((((((((.(((((((........(((.((........)))))......))).)))).)))))).)))))))))....((.....((((((.....)))))).....)).... (-28.21 = -28.87 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,851,375 – 4,851,495
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 71.15
Mean single sequence MFE -24.00
Consensus MFE -15.20
Energy contribution -15.20
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.63
SVM decision value 1.70
SVM RNA-class probability 0.972630
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4851375 120 + 20766785
AUUAAGCUGAUAGUCUGCUAUUUGCAGGCGCCCUGCAAUCCGGCACUGGAAAAAACUCGGUAUCCUUUAUAAACAUACCUAUCACAUAACAAAUAAAUUAACGCAGCAAAAUAAAUAUUA
.....((((.((((..(((..(((((((...)))))))...)))))))..........(((((...........)))))........................))))............. ( -22.40)
>DroEre_CAF1 7859 104 + 1
AUUAAGCUGAUAGUCUGCUCUGUGCAGGCGCACUGCAAUCCGGCACUGGAAAAAACUGUGCAGCCU-CAUGGAGAUG--CCUCACGUAACAAGGAAUGGAAUAUAA----A---------
.....((.....((((((.....)))))).....))..((((((((.(.......).))))..(((-.((((((...--.))).)))....)))..))))......----.--------- ( -26.50)
>DroYak_CAF1 12235 117 + 1
AUUAAGCUGAUAGUCUGCUCUUUGCAGGCGCACUGCAAUCCGGCACUGCAAAAAUCUAUGCAUAAA-UGUAUGUACG--UAUCACAUAUCAAAUAAUUCAAUACAACAAAAUAUAUAUUA
.......(((((((((((.....))))))(((.(((......))).))).........((((((..-..))))))..--.......)))))............................. ( -23.10)
>consensus
AUUAAGCUGAUAGUCUGCUCUUUGCAGGCGCACUGCAAUCCGGCACUGGAAAAAACUAUGCAUCCU_UAUAAACAUG__UAUCACAUAACAAAUAAUUCAAUACAACAAAAUA_AUAUUA
.....((((...((((((.....))))))((...))....))))............................................................................ (-15.20 = -15.20 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:44 2006