Locus 2655

Sequence ID 2L_DroMel_CAF1
Location 7,425,939 – 7,426,072
Length 133
Max. P 0.972165
window4225 window4226 window4227 window4228

overview

Window 5

Location 7,425,939 – 7,426,036
Length 97
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 79.40
Mean single sequence MFE -25.65
Consensus MFE -22.70
Energy contribution -22.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.10
Structure conservation index 0.88
SVM decision value 1.39
SVM RNA-class probability 0.949694
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7425939 97 + 22407834
CGCCAG---AA-AUCCCAUGUGUAUCAACUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUGUCUCGUAACCCGGCACAUGUUGAAGUACAC
......---..-....((((.(...(....)...)--.)))).....(((((((((.((.(((((..((.((........))))))))).)).))))))))). ( -24.10)
>DroVir_CAF1 20844 93 + 1
CCUCAG------AUGGCAAACGUUUC--AUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUGACUUGUAACCCGGCACAUGUUGAAGUACAC
......------((((...((((...--))))...--))))......(((((((((.((.(((((..((.((........))))))))).)).))))))))). ( -26.00)
>DroPse_CAF1 20999 79 + 1
-------------UUCCAU---------GUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUGUCCUGUAACCCGGCACAUGUUGAAGUACAC
-------------...(((---------(......--.)))).....(((((((((.((.(((((..((.((........))))))))).)).))))))))). ( -24.10)
>DroGri_CAF1 21838 98 + 1
-CUCAGCAAACAUCGGCAAACAUUUC--AUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUCACUCGUAACCCGGCACAUGUUGAAGUACAC
-........((((.((...((((...--))))..)--).))))....(((((((((.((.(((((..(((..........))).))))).)).))))))))). ( -26.40)
>DroMoj_CAF1 26098 95 + 1
CGCCAG------AUGGCAAUCUACUU--GUGUCUCCCCCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUCAGUGGAAACCCGGCACAUGUUGAAGUACAC
.(((..------..))).........--...................(((((((((.((.(((((..(((.((....)).))).))))).)).))))))))). ( -29.20)
>DroPer_CAF1 22764 79 + 1
-------------UUCCAU---------GUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUGUCCUGUAACCCGGCACAUGUUGAAGUACAC
-------------...(((---------(......--.)))).....(((((((((.((.(((((..((.((........))))))))).)).))))))))). ( -24.10)
>consensus
___CAG______AUGCCAA_C_U_UC__GUGUCUC__CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUGACUUGUAACCCGGCACAUGUUGAAGUACAC
...............................................(((((((((.((.(((((..(((..........))).))))).)).))))))))). (-22.70 = -22.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 7,425,939 – 7,426,036
Length 97
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 79.40
Mean single sequence MFE -30.33
Consensus MFE -21.60
Energy contribution -21.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.93
Structure conservation index 0.71
SVM decision value 1.69
SVM RNA-class probability 0.972165
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7425939 97 - 22407834
GUGUACUUCAACAUGUGCCGGGUUACGAGACACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAGUUGAUACACAUGGGAU-UU---CUGGCG
.(((((((((.((.(((((.(((..........))).).)))).)).))))))))).....(((((--....).((....)).))))....-..---...... ( -26.70)
>DroVir_CAF1 20844 93 - 1
GUGUACUUCAACAUGUGCCGGGUUACAAGUCACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAU--GAAACGUUUGCCAU------CUGAGG
.(((((((((.((.(((((.(((..........))).).)))).)).))))))))).((((..(((--.((((..--.....)))).))))------)))... ( -30.00)
>DroPse_CAF1 20999 79 - 1
GUGUACUUCAACAUGUGCCGGGUUACAGGACACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAC---------AUGGAA-------------
.(((((((((.((.(((((.(((..........))).).)))).)).))))))))).....(((((--....).)---------)))...------------- ( -28.00)
>DroGri_CAF1 21838 98 - 1
GUGUACUUCAACAUGUGCCGGGUUACGAGUGACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAU--GAAAUGUUUGCCGAUGUUUGCUGAG-
.(((((((((.((.(((((((((((....)))).)).).)))).)).))))))))).(((((((.(--(((((((--...)))))).)).))))))).....- ( -37.30)
>DroMoj_CAF1 26098 95 - 1
GUGUACUUCAACAUGUGCCGGGUUUCCACUGACACCAGAGCACCUGAUGAAGUACAAUAGACAUGGGGGAGACAC--AAGUAGAUUGCCAU------CUGGCG
..((((((((.((.(((((.(((.((....)).))).).)))).)).))))))))(((..((.((..(....).)--).))..)))(((..------..))). ( -32.00)
>DroPer_CAF1 22764 79 - 1
GUGUACUUCAACAUGUGCCGGGUUACAGGACACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAC---------AUGGAA-------------
.(((((((((.((.(((((.(((..........))).).)))).)).))))))))).....(((((--....).)---------)))...------------- ( -28.00)
>consensus
GUGUACUUCAACAUGUGCCGGGUUACAAGACACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG__GAGACAC__GA_A_G_AUGCCAU______CUG___
.(((((((((.((.(((((.(((..........))).).)))).)).)))))))))............................................... (-21.60 = -21.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,425,961 – 7,426,072
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.00
Mean single sequence MFE -32.70
Consensus MFE -25.27
Energy contribution -25.27
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.77
SVM decision value 1.30
SVM RNA-class probability 0.939573
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7425961 111 + 22407834
--AACUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUGU-CUCGUAACCCGGCACAUGUUGAAGUACACUCAAUAUGAGGCGAUUUGCAUACGAAAGCGACCGAU----
--....(((.(--((((((..(.(((((((((.((.(((((..((.((..-......))))))))).)).))))))))).)..))))).)).)))((((........)))).....---- ( -33.10)
>DroVir_CAF1 20864 108 + 1
----AUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUGA-CUUGUAACCCGGCACAUGUUGAAGUACACUCAAUAUGCGUUGAUUUGCAUUUGCU---G--UUUGGGUU
----......(--(((.......(((((((((.((.(((((..((.((..-......))))))))).)).)))))))))..(((.(((((......))))))))..---.--..)))).. ( -32.20)
>DroGri_CAF1 21863 110 + 1
----AUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUCA-CUCGUAACCCGGCACAUGUUGAAGUACACUCAAUAUGCGGUGAUUGGCAUUUGCU---GCGUUUUAAUU
----..(((.(--((((((..(.(((((((((.((.(((((..(((....-......))).))))).)).))))))))).)..))))).)).))).(((....)))---........... ( -33.20)
>DroWil_CAF1 23731 100 + 1
----UUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUCCGUUUGUAACCCGGCACAUGUUGAAGUACACUCAAUAUGUGGCGAUCUUCAUCUAUA--------------
----..(((.(--((((((..(.(((((((((.((.(((((..(((...........))).))))).)).))))))))).)..))))).)).)))...........-------------- ( -30.70)
>DroMoj_CAF1 26118 110 + 1
----GUGUCUCCCCCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUCA-GUGGAAACCCGGCACAUGUUGAAGUACACUCAAUAUGCGGUGAUUUGCAGUUGCU---G--UUUCGGCC
----(((..((((.(((((..(.(((((((((.((.(((((..(((.((.-...)).))).))))).)).))))))))).)..))))).)).))..)))....(((---(--...)))). ( -35.20)
>DroAna_CAF1 21859 110 + 1
AAAUAUGUCUC--CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUCC-ACCGUAACCCGGCACAUGUUGAAGUACACUCAAUAUGAGGCGAAUGUCAAACGAA---GAGUUCU----
......(((((--..((((..(.(((((((((.((.(((((..(((....-......))).))))).)).))))))))).)..)))))))))((((.((....)).---..)))).---- ( -31.80)
>consensus
____AUGUCUC__CCAUGUCUAUUGUACUUCAUCAGGUGCUCUGGUGUCA_CUCGUAACCCGGCACAUGUUGAAGUACACUCAAUAUGCGGCGAUUUGCAUUUGCA___G__UUUU____
..............(((((..(.(((((((((.((.(((((..(((...........))).))))).)).))))))))).)..)))))................................ (-25.27 = -25.27 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 7,425,961 – 7,426,072
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.00
Mean single sequence MFE -32.08
Consensus MFE -24.17
Energy contribution -24.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.75
SVM decision value 1.40
SVM RNA-class probability 0.950482
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7425961 111 - 22407834
----AUCGGUCGCUUUCGUAUGCAAAUCGCCUCAUAUUGAGUGUACUUCAACAUGUGCCGGGUUACGAG-ACACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAGUU--
----....(((((........)).......(((((.((...(((((((((.((.(((((.(((......-....))).).)))).)).)))))))))...)).))))--).)))....-- ( -33.10)
>DroVir_CAF1 20864 108 - 1
AACCCAAA--C---AGCAAAUGCAAAUCAACGCAUAUUGAGUGUACUUCAACAUGUGCCGGGUUACAAG-UCACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAU----
..((((..--.---..(((((((........)))).)))..(((((((((.((.(((((.(((......-....))).).)))).)).))))))))).......)))--)......---- ( -31.80)
>DroGri_CAF1 21863 110 - 1
AAUUAAAACGC---AGCAAAUGCCAAUCACCGCAUAUUGAGUGUACUUCAACAUGUGCCGGGUUACGAG-UGACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAU----
.........((---(.....)))...((.((.(((.((...(((((((((.((.(((((((((((....-)))).)).).)))).)).)))))))))...)).))))--).))...---- ( -33.00)
>DroWil_CAF1 23731 100 - 1
--------------UAUAGAUGAAGAUCGCCACAUAUUGAGUGUACUUCAACAUGUGCCGGGUUACAAACGGACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAA----
--------------............((.((.(((.((...(((((((((.((.((((((((((.......))).)).).)))).)).)))))))))...)).))))--).))...---- ( -29.20)
>DroMoj_CAF1 26118 110 - 1
GGCCGAAA--C---AGCAACUGCAAAUCACCGCAUAUUGAGUGUACUUCAACAUGUGCCGGGUUUCCAC-UGACACCAGAGCACCUGAUGAAGUACAAUAGACAUGGGGGAGACAC----
........--.---.((....))...((.((.(((.((...(((((((((.((.(((((.(((.((...-.)).))).).)))).)).)))))))))...)).))).)))).....---- ( -34.00)
>DroAna_CAF1 21859 110 - 1
----AGAACUC---UUCGUUUGACAUUCGCCUCAUAUUGAGUGUACUUCAACAUGUGCCGGGUUACGGU-GGACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG--GAGACAUAUUU
----....(((---((.(((((........(((.....)))(((((((((.((.((((((((((.....-.))).)).).)))).)).))))))))).)))))..))--)))........ ( -31.40)
>consensus
____AAAA__C___AGCAAAUGCAAAUCACCGCAUAUUGAGUGUACUUCAACAUGUGCCGGGUUACGAG_UGACACCAGAGCACCUGAUGAAGUACAAUAGACAUGG__GAGACAU____
................................(((.((...(((((((((.((.((((((((((.......))).)).).)))).)).)))))))))...)).))).............. (-24.17 = -24.50 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:57 2006