Locus 2086

Sequence ID 2L_DroMel_CAF1
Location 5,612,087 – 5,612,185
Length 98
Max. P 0.958246
window3372 window3373

overview

Window 2

Location 5,612,087 – 5,612,185
Length 98
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.60
Mean single sequence MFE -27.02
Consensus MFE -15.18
Energy contribution -15.32
Covariance contribution 0.14
Combinations/Pair 1.10
Mean z-score -2.60
Structure conservation index 0.56
SVM decision value 1.49
SVM RNA-class probability 0.958246
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5612087 98 + 22407834
-UUUU---G-G-----GUCCCA-GGGCGCUGUCAGCAUAAAGUAAGUAAUUACACCCAAGUGCCUGCUCAAUUAUCUUUGAGCG-GAACAUUGCUUAAUUGUGCACGGCA-------
-....---.-.-----(((...-.)))(((((..((((((..((((((((..(((....))).((((((((......)))))))-)...)))))))).))))))))))).------- ( -33.70)
>DroPse_CAF1 71677 100 + 1
-UUUC---C-C-----AACACACACACGAUGUCAGCAUAAAAUAAGUAAUUACACCCAAGUGCCUGCUCAAUUAUCUUUGAGCGGGAACAUCGCUUAAUUGUCCAUGGCA-------
-....---(-(-----((((......((((((....................(((....)))(((((((((......))))))))).))))))......)))...)))..------- ( -23.60)
>DroGri_CAF1 65540 105 + 1
GCACUGCCA-GAAA--AACUGA-ACAUACUGUCAGCAUAAAAUAAGUAAUUACACCCAAGUGCCUGCUCAAUUAUCUUUGAGCA-GAACAUCGCUUAAUUGUGCAAAGCG-------
((.....((-(...--..))).-...........((((((..(((((.....(((....))).((((((((......)))))))-)......))))).))))))...)).------- ( -25.80)
>DroMoj_CAF1 100344 99 + 1
GUUCU---G-GAAAAUAACCGA--AAUGCUGUCAGCAUAUAAUAAGUAAUUAUACCCAAGUGCCUGCUCAAUUAUCUUUAAGCA-GCAUAACGCUUAAUUGUGCAU-----------
....(---(-(...........--.((((.....))))...((((....))))..))).((((.((((.((......)).))))-))))...((........))..----------- ( -16.60)
>DroAna_CAF1 55978 106 + 1
-UUUU---GGG-----GUCCCA-GCAGGCUGUCAGCAUAAAGUAAGUAAUUACACCCAAGUGCCUGCUCAAUUAUCUUUGAGCG-GAACAUCGCUUAAUUGUGCACGGCAGCCCAAC
-..((---((.-----...)))-)..(((((((.((((((.((((....))))....(((((.((((((((......)))))))-).....)))))..))))))..))))))).... ( -38.80)
>DroPer_CAF1 71720 100 + 1
-UUUC---C-C-----AACACACACACGAUGUCAGCAUAAAAUAAGUAAUUACACCCAAGUGCCUGCUCAAUUAUCUUUGAGCGGGAACAUCGCUUAAUUGUCCAUGGCA-------
-....---(-(-----((((......((((((....................(((....)))(((((((((......))))))))).))))))......)))...)))..------- ( -23.60)
>consensus
_UUUU___G_G_____AACCCA_ACACGCUGUCAGCAUAAAAUAAGUAAUUACACCCAAGUGCCUGCUCAAUUAUCUUUGAGCG_GAACAUCGCUUAAUUGUGCAUGGCA_______
..................................(((((...(((((.....(((....)))(.(((((((......))))))).)......)))))..)))))............. (-15.18 = -15.32 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 5,612,087 – 5,612,185
Length 98
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 78.60
Mean single sequence MFE -27.90
Consensus MFE -16.85
Energy contribution -16.13
Covariance contribution -0.72
Combinations/Pair 1.38
Mean z-score -1.55
Structure conservation index 0.60
SVM decision value 0.17
SVM RNA-class probability 0.617009
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5612087 98 - 22407834
-------UGCCGUGCACAAUUAAGCAAUGUUC-CGCUCAAAGAUAAUUGAGCAGGCACUUGGGUGUAAUUACUUACUUUAUGCUGACAGCGCCC-UGGGAC-----C-C---AAAA-
-------.....(((........)))..((((-(((((((......)))))).(((.(((.(((((((.........))))))).).)).))).-.)))))-----.-.---....- ( -26.20)
>DroPse_CAF1 71677 100 - 1
-------UGCCAUGGACAAUUAAGCGAUGUUCCCGCUCAAAGAUAAUUGAGCAGGCACUUGGGUGUAAUUACUUAUUUUAUGCUGACAUCGUGUGUGUGUU-----G-G---GAAA-
-------..((...((((.....((((((((...((((((......)))))).((((..((((((....)))))).....)))))))))))).....))))-----.-)---)...- ( -29.20)
>DroGri_CAF1 65540 105 - 1
-------CGCUUUGCACAAUUAAGCGAUGUUC-UGCUCAAAGAUAAUUGAGCAGGCACUUGGGUGUAAUUACUUAUUUUAUGCUGACAGUAUGU-UCAGUU--UUUC-UGGCAGUGC
-------.((.((((.((..((((..((...(-(((((((......))))))))((((....)))).))..))))......(((((........-))))).--....-)))))).)) ( -27.10)
>DroMoj_CAF1 100344 99 - 1
-----------AUGCACAAUUAAGCGUUAUGC-UGCUUAAAGAUAAUUGAGCAGGCACUUGGGUAUAAUUACUUAUUAUAUGCUGACAGCAUU--UCGGUUAUUUUC-C---AGAAC
-----------.........(((.((..((((-(((((((......)))))).((((..((((((....)))))).....))))...))))).--.)).))).....-.---..... ( -21.80)
>DroAna_CAF1 55978 106 - 1
GUUGGGCUGCCGUGCACAAUUAAGCGAUGUUC-CGCUCAAAGAUAAUUGAGCAGGCACUUGGGUGUAAUUACUUACUUUAUGCUGACAGCCUGC-UGGGAC-----CCC---AAAA-
.(((((.(.((.....((((((((((......-))))......))))))(((((((...(.(((((((.........))))))).)..))))))-))).).-----)))---))..- ( -33.90)
>DroPer_CAF1 71720 100 - 1
-------UGCCAUGGACAAUUAAGCGAUGUUCCCGCUCAAAGAUAAUUGAGCAGGCACUUGGGUGUAAUUACUUAUUUUAUGCUGACAUCGUGUGUGUGUU-----G-G---GAAA-
-------..((...((((.....((((((((...((((((......)))))).((((..((((((....)))))).....)))))))))))).....))))-----.-)---)...- ( -29.20)
>consensus
_______UGCCAUGCACAAUUAAGCGAUGUUC_CGCUCAAAGAUAAUUGAGCAGGCACUUGGGUGUAAUUACUUAUUUUAUGCUGACAGCGUGU_UGGGUU_____C_C___AAAA_
..........(((((...................((((((......)))))).((((..((((((....)))))).....))))....)))))........................ (-16.85 = -16.13 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:15 2006