Locus 128

Sequence ID 3L_DroMel_CAF1
Location 409,239 – 409,350
Length 111
Max. P 0.726292
window180 window181

overview

Window 0

Location 409,239 – 409,350
Length 111
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 83.52
Mean single sequence MFE -25.74
Consensus MFE -18.40
Energy contribution -18.07
Covariance contribution -0.33
Combinations/Pair 1.25
Mean z-score -2.35
Structure conservation index 0.71
SVM decision value 0.41
SVM RNA-class probability 0.726292
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 409239 111 + 23771897
ACAAUCAGCAGCAGAGGAAAGAGGAAAGAAAUGGCUUAAUAGCGGGGGAAAAUCGGGUA----AAAUCUCUUCUGCUUGGCUGGAGGCCAAAAUAAGAGGAAGCGAAAGGGAAAA--
.......((.((((((((...(((..(....)..)))..((.(.((......)).).))----.....))))))))(((((.....)))))...........))...........-- ( -23.60)
>DroSec_CAF1 56138 109 + 1
ACAAUCAGCAGCAAAGGAAAAAGGAA--AAAUGGCUUAAUAGCCGGGGAAAAUCGGGUA----AAAUCUCUUCUGCUUGGCUGGAGGCCAAAAUAAGAGGAAGCCAAAGGGAAAA--
..........................--...((((((..((.((((......)))).))----...((((((.(..(((((.....))))).).)))))))))))).........-- ( -25.70)
>DroSim_CAF1 58252 109 + 1
ACAAUCAGCAGCAGAGGAAAGAGGAA--AAAUGGCUUAAUAGCCGGGGAAAAUCGGGUA----AAAUCUCUUCUGCUUGGCUGGAGGCCAAAAUAAGAGGAAGCCAAAGGGAAAA--
....((((((((((((((..((....--...(((((....))))).......))((...----...)))))))))))..))))).(((..............)))..........-- ( -28.28)
>DroEre_CAF1 60533 108 + 1
ACAAUCAGCAGCAGAGGAAAGAGGGA--AAAUGGCUUAAUAGCGGGGGAAAAUCGGGUA----AAAUCUCUUCUGCUUGGCUGGAGGCCA-AAUAAGAGGAAGCCGAAGGGAAAG--
....((((((((((((((..((....--...(.(((....))).).......))((...----...)))))))))))..)))))...((.-.......))...((....))....-- ( -25.44)
>DroYak_CAF1 60514 111 + 1
ACAAUCAGCAGCAGAGGAAAGAGGAA--AAAUGGCUUAAUAGCGGGGGAAAAUCGGGCC----AAAUCUCUUCUGCUUGGCUGCAGGCCAAAAUAAGAGGAAGCCAAAGGGAAAAAA
....((.(((((.(((...((((((.--...(((((..((..(....)...))..))))----)....)))))).))).))))).(((..............))).....))..... ( -28.24)
>DroAna_CAF1 50350 98 + 1
ACAAUCAGCAGCAGAAAA-----------------UUAAGGGGUCGAGCAUAUUGGGUGAGAGAAAUCUUUUCUGCUUGGCUAGAGGCCAAAAUGAAAGGAAGCGAGUGGAAUGA--
.((.((.((.(((((((.-----------------...(((..((...(((.....)))...))..))))))))))(((((.....)))))...........)))).))......-- ( -23.20)
>consensus
ACAAUCAGCAGCAGAGGAAAGAGGAA__AAAUGGCUUAAUAGCGGGGGAAAAUCGGGUA____AAAUCUCUUCUGCUUGGCUGGAGGCCAAAAUAAGAGGAAGCCAAAGGGAAAA__
.......(((((((((((...............(((....)))..((.....))..............)))))))))((((.....))))............))............. (-18.40 = -18.07 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 409,239 – 409,350
Length 111
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 83.52
Mean single sequence MFE -20.77
Consensus MFE -14.25
Energy contribution -14.75
Covariance contribution 0.50
Combinations/Pair 1.17
Mean z-score -2.41
Structure conservation index 0.69
SVM decision value 0.33
SVM RNA-class probability 0.689912
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 409239 111 - 23771897
--UUUUCCCUUUCGCUUCCUCUUAUUUUGGCCUCCAGCCAAGCAGAAGAGAUUU----UACCCGAUUUUCCCCCGCUAUUAAGCCAUUUCUUUCCUCUUUCCUCUGCUGCUGAUUGU
--......(..((((............((((.....))))((((((((((....----.....(.....)....(((....)))..........))))....)))))))).))..). ( -17.00)
>DroSec_CAF1 56138 109 - 1
--UUUUCCCUUUGGCUUCCUCUUAUUUUGGCCUCCAGCCAAGCAGAAGAGAUUU----UACCCGAUUUUCCCCGGCUAUUAAGCCAUUU--UUCCUUUUUCCUUUGCUGCUGAUUGU
--..........((((............))))..((((..((((((.((((...----.....(........)((((....))))....--......)))).))))))))))..... ( -21.80)
>DroSim_CAF1 58252 109 - 1
--UUUUCCCUUUGGCUUCCUCUUAUUUUGGCCUCCAGCCAAGCAGAAGAGAUUU----UACCCGAUUUUCCCCGGCUAUUAAGCCAUUU--UUCCUCUUUCCUCUGCUGCUGAUUGU
--..........((((............))))..((((..((((((((((....----.....(........)((((....))))....--...))))....))))))))))..... ( -24.30)
>DroEre_CAF1 60533 108 - 1
--CUUUCCCUUCGGCUUCCUCUUAUU-UGGCCUCCAGCCAAGCAGAAGAGAUUU----UACCCGAUUUUCCCCCGCUAUUAAGCCAUUU--UCCCUCUUUCCUCUGCUGCUGAUUGU
--........(((((...........-((((.....))))((((((((((....----.....(.....)....(((....))).....--...))))....))))))))))).... ( -21.40)
>DroYak_CAF1 60514 111 - 1
UUUUUUCCCUUUGGCUUCCUCUUAUUUUGGCCUGCAGCCAAGCAGAAGAGAUUU----GGCCCGAUUUUCCCCCGCUAUUAAGCCAUUU--UUCCUCUUUCCUCUGCUGCUGAUUGU
............((((............)))).(((((..((.(((.((((..(----(((..(((...........)))..))))..)--))).)))...))..)))))....... ( -24.00)
>DroAna_CAF1 50350 98 - 1
--UCAUUCCACUCGCUUCCUUUCAUUUUGGCCUCUAGCCAAGCAGAAAAGAUUUCUCUCACCCAAUAUGCUCGACCCCUUAA-----------------UUUUCUGCUGCUGAUUGU
--......((.((((............((((.....))))(((((((((........((.............))........-----------------))))))))))).)).)). ( -16.11)
>consensus
__UUUUCCCUUUGGCUUCCUCUUAUUUUGGCCUCCAGCCAAGCAGAAGAGAUUU____UACCCGAUUUUCCCCCGCUAUUAAGCCAUUU__UUCCUCUUUCCUCUGCUGCUGAUUGU
..........(((((............((((.....))))((((((.((((............(......)...(((....))).............)))).))))))))))).... (-14.25 = -14.75 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:18 2006