Locus 5842

Sequence ID 2L_DroMel_CAF1
Location 16,563,201 – 16,563,302
Length 101
Max. P 0.969939
window9271 window9272

overview

Window 1

Location 16,563,201 – 16,563,302
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.80
Mean single sequence MFE -24.88
Consensus MFE -8.89
Energy contribution -8.89
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.61
Structure conservation index 0.36
SVM decision value 0.06
SVM RNA-class probability 0.563783
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16563201 101 + 22407834
CGUGCA--ACGUAACAAAUUU-ACCCGUAGACAGAUUGCACAUGUGUACCGUUUUGUAAUGUUAUAC-AAGUA-------ACACAUGCACACACUUUUGGCUACACCGCACA--------
.((((.--..((((.....))-))..((((.((((.((..(((((((.....((((((......)))-)))..-------)))))))..))....)))).))))...)))).-------- ( -24.90)
>DroSim_CAF1 16140 101 + 1
CGUGCA--ACGUAACAAAUUU-ACCCGUAGACAGAUUGCACAUGUGUACCGUUUUGUAAUGUUAUAC-AAGUA-------ACACAUGCACACACUUUUGGCUACACCGCACA--------
.((((.--..((((.....))-))..((((.((((.((..(((((((.....((((((......)))-)))..-------)))))))..))....)))).))))...)))).-------- ( -24.90)
>DroEre_CAF1 17089 116 + 1
CGUGCA--ACGUAACAAAUUU-ACCCGUAGACAGAUUGCACAUGUGUACCGUUUUGUAAUGUUAUAC-AAGUACGGGUAUACACAUGCACACACUUUUGUCUACACCGCACACAAACACA
.((((.--..((((.....))-))..(((((((((.((..((((((((((((((((((......)))-))).))))...))))))))..))....)))))))))...))))......... ( -37.30)
>DroWil_CAF1 20276 87 + 1
CGUGCAAAACGUAACAAAUUU-G-CAGCAGACAGAUUGCACAUGUGUAACGUUUUGUAAUGCUAUACCAUGUA-------ACACAGCGUCGGGUU-----------A-------------
..((((((((((.(((.((.(-(-((((.....).))))).)).))).))))))))))........((((((.-------.....)))).))...-----------.------------- ( -22.50)
>DroYak_CAF1 17631 101 + 1
CGUGCA--ACGUAACAAAUUU-ACCCGUAGACAGAUUGCACAUGUGUACCGUUUUGUAAUGUUAUAC-AAGUA-------ACACAUGCUCACGCUUUUAGCUACACCGCACA--------
.((((.--..((((.....))-))..((((.(.((..((.(((((((.....((((((......)))-)))..-------))))))).....))..)).)))))...)))).-------- ( -23.30)
>DroPer_CAF1 25591 86 + 1
CGUGCA--ACGUAACAAAUUUAACCCGUGGACAGAUUGCACAUGUGUACCGUUUUGUAAUGUUAUAC-AAGUA-------GCACACACACACACA-----------C-------------
.((((.--((................(((.(.....).))).((((((.((((....)))).)))))-).)).-------))))...........-----------.------------- ( -16.40)
>consensus
CGUGCA__ACGUAACAAAUUU_ACCCGUAGACAGAUUGCACAUGUGUACCGUUUUGUAAUGUUAUAC_AAGUA_______ACACAUGCACACACUUUUGGCUACACCGCACA________
.(((((....((..................))....)))))..(((((.((((....)))).)))))..................................................... ( -8.89 =  -8.89 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 16,563,201 – 16,563,302
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.80
Mean single sequence MFE -32.43
Consensus MFE -14.05
Energy contribution -15.05
Covariance contribution 1.00
Combinations/Pair 1.14
Mean z-score -3.25
Structure conservation index 0.43
SVM decision value 1.65
SVM RNA-class probability 0.969939
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16563201 101 - 22407834
--------UGUGCGGUGUAGCCAAAAGUGUGUGCAUGUGU-------UACUU-GUAUAACAUUACAAAACGGUACACAUGUGCAAUCUGUCUACGGGU-AAAUUUGUUACGU--UGCACG
--------.((((..((((((........((..(((((((-------.((((-(((......))))....))))))))))..))(((((....)))))-......)))))).--.)))). ( -36.20)
>DroSim_CAF1 16140 101 - 1
--------UGUGCGGUGUAGCCAAAAGUGUGUGCAUGUGU-------UACUU-GUAUAACAUUACAAAACGGUACACAUGUGCAAUCUGUCUACGGGU-AAAUUUGUUACGU--UGCACG
--------.((((..((((((........((..(((((((-------.((((-(((......))))....))))))))))..))(((((....)))))-......)))))).--.)))). ( -36.20)
>DroEre_CAF1 17089 116 - 1
UGUGUUUGUGUGCGGUGUAGACAAAAGUGUGUGCAUGUGUAUACCCGUACUU-GUAUAACAUUACAAAACGGUACACAUGUGCAAUCUGUCUACGGGU-AAAUUUGUUACGU--UGCACG
.........((((..(((.((((((....((..((((((((...((((..((-(((......))))).))))))))))))..))(((((....)))))-...))))))))).--.)))). ( -41.70)
>DroWil_CAF1 20276 87 - 1
-------------U-----------AACCCGACGCUGUGU-------UACAUGGUAUAGCAUUACAAAACGUUACACAUGUGCAAUCUGUCUGCUG-C-AAAUUUGUUACGUUUUGCACG
-------------.-----------........((((((.-------.......))))))....((((((((.(((.((.((((..........))-)-).)).))).)))))))).... ( -20.00)
>DroYak_CAF1 17631 101 - 1
--------UGUGCGGUGUAGCUAAAAGCGUGAGCAUGUGU-------UACUU-GUAUAACAUUACAAAACGGUACACAUGUGCAAUCUGUCUACGGGU-AAAUUUGUUACGU--UGCACG
--------.((((..((((((........((.((((((((-------.((((-(((......))))....))))))))))).))(((((....)))))-......)))))).--.)))). ( -33.10)
>DroPer_CAF1 25591 86 - 1
-------------G-----------UGUGUGUGUGUGUGC-------UACUU-GUAUAACAUUACAAAACGGUACACAUGUGCAAUCUGUCCACGGGUUAAAUUUGUUACGU--UGCACG
-------------(-----------((((..(((((((((-------(..((-(((......)))))...))))))))))..)((((((....)))))).............--.)))). ( -27.40)
>consensus
________UGUGCGGUGUAGCCAAAAGUGUGUGCAUGUGU_______UACUU_GUAUAACAUUACAAAACGGUACACAUGUGCAAUCUGUCUACGGGU_AAAUUUGUUACGU__UGCACG
..........................((((((((..(((........)))...(((......)))......))))))))(((((...(((..((((((...)))))).)))...))))). (-14.05 = -15.05 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:22 2006