Locus 7472

Sequence ID 2L_DroMel_CAF1
Location 20,761,869 – 20,761,990
Length 121
Max. P 0.992291
window12011 window12012 window12013 window12014

overview

Window 1

Location 20,761,869 – 20,761,962
Length 93
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 76.16
Mean single sequence MFE -24.47
Consensus MFE -15.35
Energy contribution -15.90
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -2.74
Structure conservation index 0.63
SVM decision value 2.32
SVM RNA-class probability 0.992291
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20761869 93 + 22407834
-UGUCUGUAGAUUU--UCAGCAUUGCCCGUGU-----UGGGACAUAAAAA-----CUAAUGCCACCUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAU
-..(((((....(.--.((((((.....))))-----))..)........-----.....((....(((((((((((...)))))))))))....))))))).... ( -25.40)
>DroVir_CAF1 18715 83 + 1
AUGUCUUUAUGUU------CCA----------UUGGGCUGGGCAUAAAAC-----UUAAUGCCACAUGACACAUUGAGAUUUAACGUGUCAAUAUGCACA--AAAU
.............------...----------(((.(((((((((.....-----...))))).))((((((.((((...)))).))))))....)).))--)... ( -17.30)
>DroPse_CAF1 17790 101 + 1
-UGUCUGUUCAUUUAAUCGUCAUUGUCCAUGU----UUGGGGCAUAUAAAACAGCCUAAUGCCACAUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAU
-..(((((.(((...........((((((...----.)))(((((.............))))))))(((((((((((...)))))))))))..))).))))).... ( -25.92)
>DroEre_CAF1 13301 78 + 1
-UGUCUGUAU-----------------GGUGC-----UGGGACAUAAAAC-----CUAAUGCCACCUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGGAAAU
-..(((((.(-----------------(((..-----((((........)-----)))..))))..(((((((((((...)))))))))))......))))).... ( -24.90)
>DroAna_CAF1 13978 94 + 1
-UGUCUGUAGAUUU--UCAGCAUUGGCUGUGU-----UGGGACAUAAAAA----CCUAAUGCCACCUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAU
-..(((((.(....--.).((((.((..((((-----((((.........----))))))))..))(((((((((((...)))))))))))..))))))))).... ( -27.80)
>DroPer_CAF1 18047 101 + 1
-UGUCUGUUACUUUAAUCGCCAUUGUCCAUGU----UUGGGGCAUAUAAAACAGCCUAAUGCCACAUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAU
-..(((((.................((((...----.))))((((((......((.....))....(((((((((((...)))))))))))))))))))))).... ( -25.50)
>consensus
_UGUCUGUAGAUUU__UC_CCAUUG_CCGUGU_____UGGGACAUAAAAA_____CUAAUGCCACAUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAU
...(((((...............................((.(((.............)))))...(((((((((((...)))))))))))......))))).... (-15.35 = -15.90 +   0.56)

alignment

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secondary structure

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Window 2

Location 20,761,869 – 20,761,962
Length 93
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 76.16
Mean single sequence MFE -24.52
Consensus MFE -17.08
Energy contribution -17.52
Covariance contribution 0.44
Combinations/Pair 1.14
Mean z-score -2.97
Structure conservation index 0.70
SVM decision value 2.32
SVM RNA-class probability 0.992251
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20761869 93 - 22407834
AUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAG-----UUUUUAUGUCCCA-----ACACGGGCAAUGCUGA--AAAUCUACAGACA-
....(((((((...((((((((((.......))))))))))...)).((((-----(.....(((((..-----....)))))..)))))--......)))))..- ( -27.50)
>DroVir_CAF1 18715 83 - 1
AUUU--UGUGCAUAUUGACACGUUAAAUCUCAAUGUGUCAUGUGGCAUUAA-----GUUUUAUGCCCAGCCCAA----------UGG------AACAUAAAGACAU
((((--.((((....(((((((((.......)))))))))....)))).))-----))((((((.(((......----------)))------..))))))..... ( -21.20)
>DroPse_CAF1 17790 101 - 1
AUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAUGUGGCAUUAGGCUGUUUUAUAUGCCCCAA----ACAUGGACAAUGACGAUUAAAUGAACAGACA-
....(((((.(((..(((((((((.......)))))))))((((((((((((....)))).)))))(((.----...))))))...........))).)))))..- ( -24.00)
>DroEre_CAF1 13301 78 - 1
AUUUCCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAG-----GUUUUAUGUCCCA-----GCACC-----------------AUACAGACA-
.......((((....(((((((((.......)))))))))((.(((((...-----.....))))))).-----)))).-----------------.........- ( -22.90)
>DroAna_CAF1 13978 94 - 1
AUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAGG----UUUUUAUGUCCCA-----ACACAGCCAAUGCUGA--AAAUCUACAGACA-
....(((((((...((((((((((.......))))))))))...))).((((----((((..(((....-----)))((((....)))))--)))))))))))..- ( -26.90)
>DroPer_CAF1 18047 101 - 1
AUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAUGUGGCAUUAGGCUGUUUUAUAUGCCCCAA----ACAUGGACAAUGGCGAUUAAAGUAACAGACA-
....(((((.(((((.((((((((.......)))))))))))))((....(((..........)))(((.----...)))......))..........)))))..- ( -24.60)
>consensus
AUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAG_____UUUUUAUGCCCCA_____ACACGG_CAAUGC_GA__AAAUAUACAGACA_
....(((((......(((((((((.......)))))))))((.(((((.............)))))))..............................)))))... (-17.08 = -17.52 +   0.44)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,761,898 – 20,761,990
Length 92
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 82.49
Mean single sequence MFE -20.64
Consensus MFE -13.12
Energy contribution -13.28
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.64
SVM decision value 0.57
SVM RNA-class probability 0.784419
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20761898 92 + 22407834
--------UGGGACAUAAAAA-----CUAAUGCCACCUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAUUUAUAUCUAGCC-ACAUAAAUAAUCGAAA-
--------..(((.(((((..-----....(((....(((((((((((...)))))))))))....))).......))))).)))....-................- ( -16.62)
>DroPse_CAF1 17821 98 + 1
-------UUGGGGCAUAUAAAACAGCCUAAUGCCACAUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAUUUAUAUCGCGCC-ACAUAAAUAAUCGAAA-
-------.(((.(((((((((.....((..(((....(((((((((((...)))))))))))....))).))....))))))).)).))-)...............- ( -24.00)
>DroEre_CAF1 13315 92 + 1
--------UGGGACAUAAAAC-----CUAAUGCCACCUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGGAAAUUUAUAUCUAGCC-ACAUAAAUAAUCGAAG-
--------..(((.(((((.(-----((..(((....(((((((((((...)))))))))))....))).)))...))))).)))....-................- ( -19.50)
>DroMoj_CAF1 15711 97 + 1
GGAUGGGGCUGGGCCUAAAAC-----UUAAUGCCACAUGACACAUUGAGAUUUAAUAUGUCAAUAGGCACA--AAAUUUAUAUACGUCCAGCAGA--GAAAGGAAA-
(((((((((...)))).....-----....((((...(((((.(((((...))))).)))))...))))..--...........)))))......--.........- ( -22.70)
>DroAna_CAF1 14007 94 + 1
--------UGGGACAUAAAAA----CCUAAUGCCACCUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAUUUAUAUCUAGUC-ACAUAAAUAAUAGAAUA
--------..(((.(((((..----.....(((....(((((((((((...)))))))))))....))).......))))).)))....-................. ( -17.04)
>DroPer_CAF1 18078 98 + 1
-------UUGGGGCAUAUAAAACAGCCUAAUGCCACAUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAUUUAUAUCGCGCC-ACAUAAAUAAUCGAAA-
-------.(((.(((((((((.....((..(((....(((((((((((...)))))))))))....))).))....))))))).)).))-)...............- ( -24.00)
>consensus
________UGGGACAUAAAAA_____CUAAUGCCACAUGACACAUUGAGAUUUAAUGUGUCAAUAUGCACAGAAAAUUUAUAUCUAGCC_ACAUAAAUAAUCGAAA_
..............................(((....(((((((((((...)))))))))))....)))...................................... (-13.12 = -13.28 +   0.17)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,761,898 – 20,761,990
Length 92
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 82.49
Mean single sequence MFE -26.52
Consensus MFE -14.83
Energy contribution -14.47
Covariance contribution -0.36
Combinations/Pair 1.18
Mean z-score -3.70
Structure conservation index 0.56
SVM decision value 1.10
SVM RNA-class probability 0.914399
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20761898 92 - 22407834
-UUUCGAUUAUUUAUGU-GGCUAGAUAUAAAUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAG-----UUUUUAUGUCCCA--------
-...............(-((...((((((((..((..((((...((((((((((.......))))))))))...)))).))-----..)))))))))))-------- ( -24.60)
>DroPse_CAF1 17821 98 - 1
-UUUCGAUUAUUUAUGU-GGCGCGAUAUAAAUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAUGUGGCAUUAGGCUGUUUUAUAUGCCCCAA-------
-...............(-((.((.(((((((...(((((((....(((((((((.......)))))))))....))).))))....))))))))).))).------- ( -26.30)
>DroEre_CAF1 13315 92 - 1
-CUUCGAUUAUUUAUGU-GGCUAGAUAUAAAUUUCCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAG-----GUUUUAUGUCCCA--------
-...............(-((...((((((((...(((((((...((((((((((.......))))))))))...))).)))-----).)))))))))))-------- ( -28.00)
>DroMoj_CAF1 15711 97 - 1
-UUUCCUUUC--UCUGCUGGACGUAUAUAAAUUU--UGUGCCUAUUGACAUAUUAAAUCUCAAUGUGUCAUGUGGCAUUAA-----GUUUUAGGCCCAGCCCCAUCC
-.........--...(((((.(.((...((((((--.(((((...(((((((((.......)))))))))...))))).))-----)))))).).)))))....... ( -28.90)
>DroAna_CAF1 14007 94 - 1
UAUUCUAUUAUUUAUGU-GACUAGAUAUAAAUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAGG----UUUUUAUGUCCCA--------
.................-.....((((((((...(((((((...((((((((((.......))))))))))...))).))))----..))))))))...-------- ( -25.00)
>DroPer_CAF1 18078 98 - 1
-UUUCGAUUAUUUAUGU-GGCGCGAUAUAAAUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAUGUGGCAUUAGGCUGUUUUAUAUGCCCCAA-------
-...............(-((.((.(((((((...(((((((....(((((((((.......)))))))))....))).))))....))))))))).))).------- ( -26.30)
>consensus
_UUUCGAUUAUUUAUGU_GGCUAGAUAUAAAUUUUCUGUGCAUAUUGACACAUUAAAUCUCAAUGUGUCAGGUGGCAUUAG_____UUUUUAUGCCCCA________
..................(((...(............((((....(((((((((.......)))))))))....))))............)..)))........... (-14.83 = -14.47 +  -0.36)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:42 2006