Locus 2213

Sequence ID	2R_DroMel_CAF1
Location	8,147,125 – 8,147,239
Length	114
Max. P	0.948122

overview

Window 6

Location	8,147,125 – 8,147,239
Length	114
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	79.54
Mean single sequence MFE	-34.10
Consensus MFE	-24.44
Energy contribution	-25.22
Covariance contribution	0.78
Combinations/Pair	1.17
Mean z-score	-2.36
Structure conservation index	0.72
SVM decision value	1.38
SVM RNA-class probability	0.948122
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8147125 114 + 20766785
UCAAAGGUUUAUAGCA---UGAUCUAUGCUGGGGAUUCCUUUCUUACCAGACACUUAUGCAGUUCGCUGAUCAGCGGGUGCUCCAGUUGCACAUUCGUUUGCUCCUGGAGCGCCCCA
.............(((---(((....(((((((((......)))..)))).)).)))))).....(((....)))(((((((((((..(((........)))..))))))))))).. ( -42.30)
>DroPse_CAF1 21364 99 + 1
GUAAAUC--ACUGAAA---U---------UACAGAG----UCAUUACCAGGUAUUUGUGCAGUUCACUGAUGAGCGGGUGCUCCAGUUUCACAUUUGUUUGUUCCUGAAGCGCCCCA
((..(((--(.((((.---.---------((((((.----.............))))))...)))).))))..))(((((((.(((....(((......)))..))).))))))).. ( -27.14)
>DroSec_CAF1 33647 114 + 1
UCAAAGGUUUUUAACA---UGAUCUAUGCUGGGGAUUCUUUUCUUACGAGACACUUAUGCAGUUCGCUGAUCAGCGGGUGCUCCAGUUGCACAUUCGUUUGCUCCUGAAGCGCUCCA
....(((((.......---.)))))..((((((((......))))..............(((....)))..))))(((((((.(((..(((........)))..))).))))).)). ( -28.80)
>DroSim_CAF1 24521 114 + 1
UCAAAGGUUUUUAACG---UGAUCUAUGCUGGGGAUUCCUUUCUUACCAGACACUUAUGCAGUUCGCUGAUCAGCGGGUGCUCCAGUUGCACAUUCGUUUGCUCCUGGAGCGCCCCA
................---(((((..(((((((((......)))..)))).)).....((.....)).)))))(.(((((((((((..(((........)))..)))))))))))). ( -39.30)
>DroEre_CAF1 23370 117 + 1
UCAAAGAAUUAUAAAAUUUUGAUCUAUGCUAGGCAUUCCUUACUUACCAGACACUUAUGCAGUUCGCUUAUCAGCGGGUGCUCCAGUUGCACAUUCGUCUGCUCCUGGAGCGCCCCA
.....(((((((((...((((......(..(((....)))..)....))))...)))))..))))(((....)))(((((((((((..(((........)))..))))))))))).. ( -33.20)
>DroYak_CAF1 33740 107 + 1
----------AAAACAUUUUGAUCUAUACUGGGCAUUCCUUACUUACCAGACACUUAUGCAGCUCGCUAAUCAGUGGGUGCUCCAGUUGCACAUUCGUCUGCUCCUGGAGCGCCCCA
----------.........((((.....((((..............))))........((.....))..))))(.(((((((((((..(((........)))..)))))))))))). ( -33.84)
>consensus
UCAAAGGUUUAUAACA___UGAUCUAUGCUGGGGAUUCCUUUCUUACCAGACACUUAUGCAGUUCGCUGAUCAGCGGGUGCUCCAGUUGCACAUUCGUUUGCUCCUGGAGCGCCCCA
.............................((((((.....))))))...................(((....)))(((((((((((..(((........)))..))))))))))).. (-24.44 = -25.22 +   0.78)

alignment

secondary structure

dotplot

Window 7

Location	8,147,125 – 8,147,239
Length	114
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	79.54
Mean single sequence MFE	-33.31
Consensus MFE	-25.69
Energy contribution	-26.75
Covariance contribution	1.06
Combinations/Pair	1.19
Mean z-score	-1.85
Structure conservation index	0.77
SVM decision value	1.06
SVM RNA-class probability	0.908676
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8147125 114 - 20766785
UGGGGCGCUCCAGGAGCAAACGAAUGUGCAACUGGAGCACCCGCUGAUCAGCGAACUGCAUAAGUGUCUGGUAAGAAAGGAAUCCCCAGCAUAGAUCA---UGCUAUAAACCUUUGA
..(((.(((((((..(((........)))..))))))).)))(((((((.((.....))....(((.((((..(........)..))))))).)))))---.))............. ( -40.10)
>DroPse_CAF1 21364 99 - 1
UGGGGCGCUUCAGGAACAAACAAAUGUGAAACUGGAGCACCCGCUCAUCAGUGAACUGCACAAAUACCUGGUAAUGA----CUCUGUA---------A---UUUCAGU--GAUUUAC
..(((.(((((((..(((......)))....))))))).)))....((((.((((.((((.................----...))))---------.---.)))).)--))).... ( -25.05)
>DroSec_CAF1 33647 114 - 1
UGGAGCGCUUCAGGAGCAAACGAAUGUGCAACUGGAGCACCCGCUGAUCAGCGAACUGCAUAAGUGUCUCGUAAGAAAAGAAUCCCCAGCAUAGAUCA---UGUUAAAAACCUUUGA
.((((((((((((..(((........)))..)))))))...((((....))))....)).........((....))......)))..(((((.....)---))))............ ( -27.70)
>DroSim_CAF1 24521 114 - 1
UGGGGCGCUCCAGGAGCAAACGAAUGUGCAACUGGAGCACCCGCUGAUCAGCGAACUGCAUAAGUGUCUGGUAAGAAAGGAAUCCCCAGCAUAGAUCA---CGUUAAAAACCUUUGA
..(((.(((((((..(((........)))..))))))).)))(((((((.((.....))....(((.((((..(........)..))))))).)))))---.))............. ( -37.60)
>DroEre_CAF1 23370 117 - 1
UGGGGCGCUCCAGGAGCAGACGAAUGUGCAACUGGAGCACCCGCUGAUAAGCGAACUGCAUAAGUGUCUGGUAAGUAAGGAAUGCCUAGCAUAGAUCAAAAUUUUAUAAUUCUUUGA
..(((.(((((((..(((.(....).)))..))))))).)))(((....)))...........((((..((((.........))))..))))......................... ( -34.60)
>DroYak_CAF1 33740 107 - 1
UGGGGCGCUCCAGGAGCAGACGAAUGUGCAACUGGAGCACCCACUGAUUAGCGAGCUGCAUAAGUGUCUGGUAAGUAAGGAAUGCCCAGUAUAGAUCAAAAUGUUUU----------
..(((((((((((..(((.(....).)))..))))))).((.(((.(((((...(((.....)))..))))).)))..))...))))....................---------- ( -34.80)
>consensus
UGGGGCGCUCCAGGAGCAAACGAAUGUGCAACUGGAGCACCCGCUGAUCAGCGAACUGCAUAAGUGUCUGGUAAGAAAGGAAUCCCCAGCAUAGAUCA___UGUUAUAAACCUUUGA
..(((.(((((((..(((........)))..))))))).)))(((((((((...(((.....)))..)))))......((....))))))........................... (-25.69 = -26.75 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:59 2006