Locus 26

Sequence ID	X_DroMel_CAF1
Location	116,396 – 116,509
Length	113
Max. P	0.913124

overview

Window 0

Location	116,396 – 116,509
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.47
Mean single sequence MFE	-34.77
Consensus MFE	-22.67
Energy contribution	-24.67
Covariance contribution	2.00
Combinations/Pair	1.04
Mean z-score	-1.85
Structure conservation index	0.65
SVM decision value	0.12
SVM RNA-class probability	0.594059
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 116396 113 + 22224390
ACAAAUCAGGUAGAUAAGCAGCGCGCCGGCGAUCGAAAAAAGCGCAAGCAACUGGAAGCCCAACACCAGCAUGGUCAUUGCCUCCAUUAUGACAUCGCUGGAAUAGC-----AGAA--AA
....................((...((((((((.(......((....))...((((.((.....(((.....)))....)).))))......)))))))))....))-----....--.. ( -29.50)
>DroVir_CAF1 5151 111 + 1
GCAUAUCAGAUAGAUGAGCAGCGCGCCGGCGAUCGAGAAGAGCGCCAGCAGCUGAAAGGCCAAUACCAACAUGGUCAUUGGCUCCAUUUUGGCAUCUCUGUAAGUGC-----ACCA----
((((..((((..((((..((((..((.((((.((.....)).)))).)).))))...((((((((((.....))).))))))).........))))))))...))))-----....---- ( -42.20)
>DroGri_CAF1 5647 114 + 1
GCAUAUCAGAUAGAUGAGCAGCGCGCCGGCGAUCGAGAAGAGCGCCAGCAGCUGGAAGGCCAAUACCAACAUGGUCAUUGGCUCCAUUAUGUCAUUGCUGCAAAA-C-----ACAAAAUG
...((((.....)))).(((((((((.((((.((.....)).)))).)).))((((..(((((((((.....))).))))))))))..........)))))....-.-----........ ( -39.20)
>DroWil_CAF1 5660 113 + 1
GCAUAUCAAAUAGAUGAGCAGCGCACCGGCAAUCGAGAAGAGUGCCAGCAGCUGGAAGGCCAACACCAGCAUGGUCAUUGGCUCCAUUAUGACAUUUCUGUAAGAGA-----AAGA--AA
((.((((.....)))).))(((((...((((.((.....)).)))).)).)))(((..(((((.(((.....)))..)))))))).........(((((.....)))-----))..--.. ( -29.60)
>DroMoj_CAF1 5357 106 + 1
GCAUAUCAAAUAGAUCAACAGCGCGCCGGCUAUCGAGAAGAGCGCCAGCAGCUGGAAGGCCAAUACCAACAUGGUCAUUGGCUCCAUUAUGACAUUGCUGCAAGUG--------------
(((..(((..........((((..((.(((..((.....))..))).)).))))...((((((((((.....))).)))))))......)))...)))........-------------- ( -31.90)
>DroAna_CAF1 5142 118 + 1
GCAGAUCAUGUAGAUGAGCAGCGCGCCGGCGAUCGAGAAGAGGGCCAGCAGCUGGAAGGCCAAUACCAGCAUGGUCAUUGGCUCCAUUAUGACAUAGCUGGAGAGGAUUGACAAGA--AA
.(((...((((.((((..((((..((.(((..((.....))..))).)).))))...((((((((((.....))).))))))).))))...))))..)))................--.. ( -36.20)
>consensus
GCAUAUCAGAUAGAUGAGCAGCGCGCCGGCGAUCGAGAAGAGCGCCAGCAGCUGGAAGGCCAAUACCAACAUGGUCAUUGGCUCCAUUAUGACAUUGCUGCAAGAGC_____AAAA__AA
..................((((((((.((((.((.....)).)))).)).))((((..(((((((((.....))).))))))))))..........)))).................... (-22.67 = -24.67 +   2.00)

alignment

secondary structure

dotplot

Window 1

Location	116,396 – 116,509
Length	113
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.47
Mean single sequence MFE	-37.33
Consensus MFE	-31.44
Energy contribution	-32.13
Covariance contribution	0.70
Combinations/Pair	1.15
Mean z-score	-2.25
Structure conservation index	0.84
SVM decision value	1.09
SVM RNA-class probability	0.913124
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 116396 113 - 22224390
UU--UUCU-----GCUAUUCCAGCGAUGUCAUAAUGGAGGCAAUGACCAUGCUGGUGUUGGGCUUCCAGUUGCUUGCGCUUUUUUCGAUCGCCGGCGCGCUGCUUAUCUACCUGAUUUGU
..--....-----.......(((((.........(((((((....(((.....))).....)))))))...(((.(((.((.....)).))).))).)))))(..(((.....)))..). ( -28.10)
>DroVir_CAF1 5151 111 - 1
----UGGU-----GCACUUACAGAGAUGCCAAAAUGGAGCCAAUGACCAUGUUGGUAUUGGCCUUUCAGCUGCUGGCGCUCUUCUCGAUCGCCGGCGCGCUGCUCAUCUAUCUGAUAUGC
----....-----(((..(.((((((((((.....)).(((((((.((.....)))))))))....((((((((((((.((.....)).)))))))).))))..))))..)))))..))) ( -39.80)
>DroGri_CAF1 5647 114 - 1
CAUUUUGU-----G-UUUUGCAGCAAUGACAUAAUGGAGCCAAUGACCAUGUUGGUAUUGGCCUUCCAGCUGCUGGCGCUCUUCUCGAUCGCCGGCGCGCUGCUCAUCUAUCUGAUAUGC
........-----.-....(((((..........(((((((((((.((.....)))))))))..))))((.(((((((.((.....)).))))))))))))))..(((.....))).... ( -42.10)
>DroWil_CAF1 5660 113 - 1
UU--UCUU-----UCUCUUACAGAAAUGUCAUAAUGGAGCCAAUGACCAUGCUGGUGUUGGCCUUCCAGCUGCUGGCACUCUUCUCGAUUGCCGGUGCGCUGCUCAUCUAUUUGAUAUGC
..--...(-----(((.....))))((((((.((((((((((((.(((.....)))))))))....((((((((((((.((.....)).)))))))).))))....)))))))))))).. ( -38.10)
>DroMoj_CAF1 5357 106 - 1
--------------CACUUGCAGCAAUGUCAUAAUGGAGCCAAUGACCAUGUUGGUAUUGGCCUUCCAGCUGCUGGCGCUCUUCUCGAUAGCCGGCGCGCUGUUGAUCUAUUUGAUAUGC
--------------........(((.(((((.(((((((((((((.((.....)))))))))....(((((((((((..((.....))..))))))).))))....)))))))))))))) ( -39.80)
>DroAna_CAF1 5142 118 - 1
UU--UCUUGUCAAUCCUCUCCAGCUAUGUCAUAAUGGAGCCAAUGACCAUGCUGGUAUUGGCCUUCCAGCUGCUGGCCCUCUUCUCGAUCGCCGGCGCGCUGCUCAUCUACAUGAUCUGC
..--....((((((.....(((((...(((((..((....)))))))...))))).))))))....(((((((((((..((.....))..))))))).)))).((((....))))..... ( -36.10)
>consensus
UU__UCGU_____GCUCUUACAGCAAUGUCAUAAUGGAGCCAAUGACCAUGCUGGUAUUGGCCUUCCAGCUGCUGGCGCUCUUCUCGAUCGCCGGCGCGCUGCUCAUCUAUCUGAUAUGC
.........................((((((...((((((((((.(((.....)))))))))....((((((((((((.((.....)).)))))))).))))....))))..)))))).. (-31.44 = -32.13 +   0.70)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:40 2006