Locus 10145

Sequence ID	3R_DroMel_CAF1
Location	27,245,388 – 27,245,491
Length	103
Max. P	0.983879

overview

Window 6

Location	27,245,388 – 27,245,491
Length	103
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	72.51
Mean single sequence MFE	-22.65
Consensus MFE	-12.68
Energy contribution	-13.82
Covariance contribution	1.14
Combinations/Pair	1.11
Mean z-score	-1.92
Structure conservation index	0.56
SVM decision value	1.40
SVM RNA-class probability	0.950533
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27245388 103 + 27905053
GGAAUGAUUAAAUGAAUGUUUAUGCAGCGAUGUGGUGAAUGCUGUCGAUU-CGAAAUGACGUCACUGUGACGUCAA-GCA--CAAACCGCUUUUAUUUUAUUUAUUU
.((((((..((((((((((....))).....(((((...((((.(((...-)))..(((((((.....))))))))-)))--...))))).)))))))...)))))) ( -27.30)
>DroVir_CAF1 20415 87 + 1
ACAAUGAUUAAGUUAAUGUUUAUGCCUUGU------UAUUGCUGUCGAUGCCCAAAUGACGUCACAGUGACGUCAA-A-G--CGAUCCGCUUUUAUU----------
.(((((((...((..........))...))------)))))...............(((((((.....)))))))(-(-(--((...))))).....---------- ( -17.00)
>DroPse_CAF1 22931 92 + 1
ACAAUGAUUAAACGAAUGUUUAUGCAUUGUU----UGU---------AUG-CCAAAUGACGUCACAGUGACGUCAAAGCAACGAAACCGCUUUUAUU-UAUUUAUUU
.(((((..(((((....)))))..)))))((----(((---------.((-(....(((((((.....)))))))..))))))))............-......... ( -21.70)
>DroSim_CAF1 18485 103 + 1
GGAAUGAUUAAAUGAAUGUUUAUGCAGCGAUGUGGUGAAUGCUGUCGAUU-CGAAAUGACGUCACUGUGACGUCAA-GCA--CAAACCGCUUUUAUUUUAUUUAUUU
.((((((..((((((((((....))).....(((((...((((.(((...-)))..(((((((.....))))))))-)))--...))))).)))))))...)))))) ( -27.30)
>DroWil_CAF1 13820 89 + 1
ACAAUGAUUAAAUGAAUGUUUAUGCAUUGU-GUUCUCUAGCUUGUCAAUU-CCAAAUGACGUCACUAUGACGUCAA-A-G--CAGACCGCUUUUU------------
((((((..(((((....)))))..))))))-((..(((.((((.......-.....(((((((.....))))))))-)-)--))))..)).....------------ ( -20.90)
>DroPer_CAF1 22914 92 + 1
ACAAUGAUUAAACGAAUGUUUAUGCAUUGUU----UGU---------AUG-CCAAAUGACGUCACAGUGACGUCAAAGCAACGAAACCGCUUUUAUU-UAUUUAUUU
.(((((..(((((....)))))..)))))((----(((---------.((-(....(((((((.....)))))))..))))))))............-......... ( -21.70)
>consensus
ACAAUGAUUAAAUGAAUGUUUAUGCAUUGUU____UGAAUGCUGUCGAUG_CCAAAUGACGUCACAGUGACGUCAA_GCA__CAAACCGCUUUUAUU_UAUUUAUUU
((((((..(((((....)))))..))))))..........................(((((((.....)))))))................................ (-12.68 = -13.82 +   1.14)

alignment

secondary structure

dotplot

Window 7

Location	27,245,388 – 27,245,491
Length	103
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	72.51
Mean single sequence MFE	-21.32
Consensus MFE	-10.20
Energy contribution	-10.20
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.35
Structure conservation index	0.48
SVM decision value	1.96
SVM RNA-class probability	0.983879
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27245388 103 - 27905053
AAAUAAAUAAAAUAAAAGCGGUUUG--UGC-UUGACGUCACAGUGACGUCAUUUCG-AAUCGACAGCAUUCACCACAUCGCUGCAUAAACAUUCAUUUAAUCAUUCC
.................(((((.((--((.-.(((((((.....)))))))....(-((((....).))))..))))..)))))....................... ( -22.40)
>DroVir_CAF1 20415 87 - 1
----------AAUAAAAGCGGAUCG--C-U-UUGACGUCACUGUGACGUCAUUUGGGCAUCGACAGCAAUA------ACAAGGCAUAAACAUUAACUUAAUCAUUGU
----------.......((.(((.(--(-(-((((((((.....)))))))...)))))))....))....------.............................. ( -16.60)
>DroPse_CAF1 22931 92 - 1
AAAUAAAUA-AAUAAAAGCGGUUUCGUUGCUUUGACGUCACUGUGACGUCAUUUGG-CAU---------ACA----AACAAUGCAUAAACAUUCGUUUAAUCAUUGU
.........-...............((((((.(((((((.....)))))))...))-)).---------)).----.((((((..(((((....)))))..)))))) ( -23.00)
>DroSim_CAF1 18485 103 - 1
AAAUAAAUAAAAUAAAAGCGGUUUG--UGC-UUGACGUCACAGUGACGUCAUUUCG-AAUCGACAGCAUUCACCACAUCGCUGCAUAAACAUUCAUUUAAUCAUUCC
.................(((((.((--((.-.(((((((.....)))))))....(-((((....).))))..))))..)))))....................... ( -22.40)
>DroWil_CAF1 13820 89 - 1
------------AAAAAGCGGUCUG--C-U-UUGACGUCAUAGUGACGUCAUUUGG-AAUUGACAAGCUAGAGAAC-ACAAUGCAUAAACAUUCAUUUAAUCAUUGU
------------....(((.(((..--(-(-.(((((((.....)))))))...))-....)))..))).......-((((((..((((......))))..)))))) ( -20.50)
>DroPer_CAF1 22914 92 - 1
AAAUAAAUA-AAUAAAAGCGGUUUCGUUGCUUUGACGUCACUGUGACGUCAUUUGG-CAU---------ACA----AACAAUGCAUAAACAUUCGUUUAAUCAUUGU
.........-...............((((((.(((((((.....)))))))...))-)).---------)).----.((((((..(((((....)))))..)))))) ( -23.00)
>consensus
AAAUAAAUA_AAUAAAAGCGGUUUG__UGC_UUGACGUCACAGUGACGUCAUUUGG_AAUCGACAGCAUACA____AACAAUGCAUAAACAUUCAUUUAAUCAUUGU
................................(((((((.....)))))))........................................................ (-10.20 = -10.20 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:52 2006