Locus 8124

Sequence ID	3R_DroMel_CAF1
Location	21,828,275 – 21,828,407
Length	132
Max. P	0.942451

overview

Window 6

Location	21,828,275 – 21,828,374
Length	99
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	72.36
Mean single sequence MFE	-16.26
Consensus MFE	-12.80
Energy contribution	-12.80
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-0.72
Structure conservation index	0.79
SVM decision value	0.59
SVM RNA-class probability	0.792155
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21828275 99 - 27905053
UCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUAGU----UUU-UUUUUUCUGGC---C-ACGGUC-CCCGG---UCUUCAGUCUU---
..(((((.(((((((....((.....))....)))))))((((...(((...((........----...-.....)).)))---.-..))))-..)))---)).........--- ( -17.59)
>DroVir_CAF1 9709 101 - 1
UCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUU-----------UUUGUACUGCGCUCCGCUCCUCACCCUG---CCCCUCACCCUGUG
..(((((((.(((((....((.....))..))))).)))))))..(((.....(((...-----------..)))...))).................---.............. ( -14.80)
>DroGri_CAF1 5881 89 - 1
UCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUU----------UUUGUACUGUCC----CUCCAUACCGUC---UCC---------CG
..(((((((.(((((....((.....))..))))).))))))).................----------............----............---...---------.. ( -12.80)
>DroWil_CAF1 8507 93 - 1
UCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUCUGUC-------------UGU-------CAGUC-CCUUGUUGGCCCUACCCC-ACC
..(((((((.(((((....((.....))..))))).)))))))...(((.((((((........-------------)))-------)))..-.......)))........-... ( -18.30)
>DroYak_CAF1 4893 104 - 1
UCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUCGUUGUUUUUUUUUUUUCUGGC---C-ACGGUC-CCCGG---UCUCCGGUCUU---
..(((((((.(((((....((.....))....)))))((((...(((....)))....))))...................---)-))))))-.((((---...))))....--- ( -19.60)
>DroMoj_CAF1 6606 98 - 1
UCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUU-----------UUUGUACUGCUCGCC-CUCGUC-CCUUG---CGCCUUACCA-ACG
..(((((((.(((((....((.....))..))))).)))))))..(((....(((....-----------...(.....).....-...)))-....)---))........-... ( -14.46)
>consensus
UCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUU___________UUUGUACUGCC___C_CCCGUC_CCCUG___UCCCUAACCC__CG
..(((((((.(((((....((.....))..))))).)))))))........................................................................ (-12.80 = -12.80 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	21,828,303 – 21,828,407
Length	104
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	82.43
Mean single sequence MFE	-24.13
Consensus MFE	-20.70
Energy contribution	-20.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.45
Structure conservation index	0.86
SVM decision value	1.33
SVM RNA-class probability	0.942451
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21828303 104 - 27905053
-------ACACACACACACAUACAAAAAAGGGCAGGUGUGUCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUAGU----UUU-UUUUUU
-------...................(((...((((.(((..(((((((.(((((....((.....))..))))).)))))))..))).))))...)))...----...-...... ( -21.20)
>DroVir_CAF1 9745 94 - 1
-------ACACUUACACAU----AAAAAAGGGCAGGUGUGUCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUU-----------UUUGUA
-------..........((----((((((...((((.(((..(((((((.(((((....((.....))..))))).)))))))..))).))))...)))-----------))))). ( -26.30)
>DroGri_CAF1 5904 95 - 1
-------ACACAUACAUAU----AAAAAAGGGCAGGUGUGUCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUU----------UUUGUA
-------.........(((----(((((((..((((.(((..(((((((.(((((....((.....))..))))).)))))))..))).))))...))))----------)))))) ( -27.20)
>DroWil_CAF1 8536 99 - 1
ACAAAAAAAAGUAAAAAAAA-----AAAAGGGCAGGUGUGUCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUCUGUC------------
....................-----.......((((.(((..(((((((.(((((....((.....))..))))).)))))))..))).))))...........------------ ( -20.70)
>DroMoj_CAF1 6639 94 - 1
-------ACAAAUACAUAU----AAAAAAGGGCAGGUGUGUCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUU-----------UUUGUA
-------.........(((----((((((...((((.(((..(((((((.(((((....((.....))..))))).)))))))..))).))))...)))-----------)))))) ( -26.90)
>DroAna_CAF1 8241 109 - 1
-------ACUCACACACACACAUAAAAAAGGGCAGGUGUGUCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUUCUUUUCUUUUUUUUUUU
-------................(((((((((((((.(((..(((((((.(((((....((.....))..))))).)))))))..))).)))).........)))))))))..... ( -22.50)
>consensus
_______ACACAUACACAU____AAAAAAGGGCAGGUGUGUCGAUCGUGUGAGAACCACGUUCCAAACCAUUUUCUCACGAUCUUCGCUUCUGAUAUUU___________UUUGUA
................................((((.(((..(((((((.(((((....((.....))..))))).)))))))..))).))))....................... (-20.70 = -20.70 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:05 2006