Locus 6326

Sequence ID	2L_DroMel_CAF1
Location	17,637,530 – 17,637,634
Length	104
Max. P	0.930665

overview

Window 3

Location	17,637,530 – 17,637,634
Length	104
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	80.62
Mean single sequence MFE	-32.08
Consensus MFE	-20.69
Energy contribution	-21.17
Covariance contribution	0.48
Combinations/Pair	1.19
Mean z-score	-2.25
Structure conservation index	0.64
SVM decision value	1.21
SVM RNA-class probability	0.930665
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17637530 104 + 22407834
AGAAAAUUCAGACAGCAAUAAACUUUUGUUGCUGCAAUCCAUUUACCGACCCGG---UUUGCCAUAUAGCCAAGAUAUAUGAAUA----------CGACUGCCGGGCAGUUAUGGGG
..........(.(((((((((....))))))))))..(((((..((.(.(((((---((((.((((((.......))))))....----------)))..))))))).)).))))). ( -29.90)
>DroSec_CAF1 33110 104 + 1
AGAAAUUUCAGACAGCAAUAAACUUUUGUUGCUGCAAUCCAUUUACCGACCCGG---CUUACCAUAUAGCCAAGAUAUAUGAAUA----------CGACUGCCGGGCAGUUAUGGGG
..........(.(((((((((....))))))))))..(((((..((.(.(((((---(....((((((.......))))))....----------.....))))))).)).))))). ( -30.62)
>DroEre_CAF1 20724 101 + 1
--AAAAUUCAGACAGCAAUAAACUUUUGUUGCUGCAAUCCAUUUACCGGCCCGG---CUU-GCAUAUAGCCAAGAUAUAUGAAUA----------CGACUGCCGGGCAGUUAUGGGG
--........(.(((((((((....))))))))))..(((((..((..((((((---(..-.((((((.......))))))....----------.....))))))).)).))))). ( -33.90)
>DroYak_CAF1 34037 103 + 1
AGAAAACUCAGACAGCAAUAAACUUUUGUUGCUGCAAUCCAUUUACCGGCCCGG---UUG-CCAUAUAGCCAAGAUAUAUGAAUA----------CGAAUGCCGGGCAGUUAUGGGG
..........(.(((((((((....))))))))))..(((((..((..((((((---(..-(((((((.......))))))....----------.)...))))))).)).))))). ( -31.70)
>DroAna_CAF1 14397 115 + 1
--AAGGAGCAGGCAGCCAUAAACUUUUGUUGCUGCAAUUCAUUUACCGGGCUGCGAAAAUGCCUUAUAGCCUGGAUACGUAUGUGAGAGAGUGGCAGAGUGCCGGCCAGCUGUAAGG
--.........((((((.((((...((((....))))....))))...)))))).......(((((((((.(((.(((....)))......((((.....)))).)))))))))))) ( -34.30)
>consensus
AGAAAAUUCAGACAGCAAUAAACUUUUGUUGCUGCAAUCCAUUUACCGGCCCGG___CUU_CCAUAUAGCCAAGAUAUAUGAAUA__________CGACUGCCGGGCAGUUAUGGGG
..........(.(((((((((....))))))))))..(((((......((((((........((((((.......))))))....................))))))....))))). (-20.69 = -21.17 +   0.48)

alignment

secondary structure

dotplot

Window 4

Location	17,637,530 – 17,637,634
Length	104
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	80.62
Mean single sequence MFE	-29.44
Consensus MFE	-19.07
Energy contribution	-19.23
Covariance contribution	0.16
Combinations/Pair	1.24
Mean z-score	-1.83
Structure conservation index	0.65
SVM decision value	0.40
SVM RNA-class probability	0.719458
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17637530 104 - 22407834
CCCCAUAACUGCCCGGCAGUCG----------UAUUCAUAUAUCUUGGCUAUAUGGCAAA---CCGGGUCGGUAAAUGGAUUGCAGCAACAAAAGUUUAUUGCUGUCUGAAUUUUCU
..((((.(((((((((..((((----------((((((.......)))..)))))))...---))))).))))..))))...(((((((.((....)).)))))))........... ( -30.30)
>DroSec_CAF1 33110 104 - 1
CCCCAUAACUGCCCGGCAGUCG----------UAUUCAUAUAUCUUGGCUAUAUGGUAAG---CCGGGUCGGUAAAUGGAUUGCAGCAACAAAAGUUUAUUGCUGUCUGAAAUUUCU
..((((.((((((((((..(((----------((((((.......)))..))))))...)---))))).))))..))))...(((((((.((....)).)))))))........... ( -30.50)
>DroEre_CAF1 20724 101 - 1
CCCCAUAACUGCCCGGCAGUCG----------UAUUCAUAUAUCUUGGCUAUAUGC-AAG---CCGGGCCGGUAAAUGGAUUGCAGCAACAAAAGUUUAUUGCUGUCUGAAUUUU--
..((((.((((((((((...((----------((((((.......)))..))))).-..)---))))).))))..))))...(((((((.((....)).))))))).........-- ( -30.00)
>DroYak_CAF1 34037 103 - 1
CCCCAUAACUGCCCGGCAUUCG----------UAUUCAUAUAUCUUGGCUAUAUGG-CAA---CCGGGCCGGUAAAUGGAUUGCAGCAACAAAAGUUUAUUGCUGUCUGAGUUUUCU
..((((.(((((((((...(((----------((((((.......)))..))))))-...---))))).))))..))))...(((((((.((....)).)))))))........... ( -27.40)
>DroAna_CAF1 14397 115 - 1
CCUUACAGCUGGCCGGCACUCUGCCACUCUCUCACAUACGUAUCCAGGCUAUAAGGCAUUUUCGCAGCCCGGUAAAUGAAUUGCAGCAACAAAAGUUUAUGGCUGCCUGCUCCUU--
(((((.((((((..(((.....)))........((....))..))).))).))))).......((((((..((((((...(((......)))..)))))))))))).........-- ( -29.00)
>consensus
CCCCAUAACUGCCCGGCAGUCG__________UAUUCAUAUAUCUUGGCUAUAUGG_AAA___CCGGGCCGGUAAAUGGAUUGCAGCAACAAAAGUUUAUUGCUGUCUGAAUUUUCU
..((((.(((((((((...................(((((((.......))))))).......))))).))))..))))...(((((((.((....)).)))))))........... (-19.07 = -19.23 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:25 2006