Locus 7774

Sequence ID 2L_DroMel_CAF1
Location 21,923,108 – 21,923,332
Length 224
Max. P 0.897720
window12467 window12468

overview

Window 7

Location 21,923,108 – 21,923,224
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.98
Mean single sequence MFE -26.77
Consensus MFE -14.52
Energy contribution -15.17
Covariance contribution 0.64
Combinations/Pair 1.41
Mean z-score -2.10
Structure conservation index 0.54
SVM decision value 1.00
SVM RNA-class probability 0.897720
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21923108 116 + 22407834
CACGCCAAUAAAUUUCAAAUGUGUGGCGCGGAUUGUCCAACGCCUCGCACUGCUCUUUCUCAAAGCAGGCGAAAUGAAAAAAAAAAAAAAA----UUGAAAAGGAAGACAAACCGGCAAC
...(((......((((((......((((.((.....))..))))((((.(((((.........)))))))))...................----)))))).((........)))))... ( -30.00)
>DroSec_CAF1 210489 108 + 1
CACGCCAAUAAAUUUCCAAUGUGUGGCGCGGAUUGUCCAACGCCUCGCACUGCUCUUUCCCAAAGCAGGCGAAAUGAAA--------AAAA----UUGAAAAGGAAGACAAACCGGCAAC
...(((......(((((.......((((.((.....))..))))((((.(((((.........))))))))).......--------....----.......))))).......)))... ( -28.62)
>DroSim_CAF1 155067 108 + 1
CACGCCAAUAAAUUUCCAAUGUGUGGCGCGGAUUGUCCAACGCCUCGCACUGCUCUUUCCCAAAGCAGGCGAAAUGAAA--------AAAA----UUGAAAAGGAAGACAAACCGGCAAC
...(((......(((((.......((((.((.....))..))))((((.(((((.........))))))))).......--------....----.......))))).......)))... ( -28.62)
>DroEre_CAF1 176702 105 + 1
CACGCCAAUAAAAUUCAAAUGUGUGGCACGGAUUGCCCAAUGCCUCACACAA---UGCCUCAAGGCAGUCGAAAUGAAA--------AAAU----UUGAAAAAGAAGACAAACCGGCAAC
...(((.......((((((((((.((((.((.....))..)))).)))....---((((....))))............--------..))----)))))......(......))))... ( -25.60)
>DroYak_CAF1 172564 105 + 1
CACGCCAAUACAAUUCAAAUGUGUGGUGUGGAUUGUCCAAUGCCUCGCACCA---UGCCUCAAGGCAGCCGAAAUGAAA--------AAAA----AUGAAAAGGAAGACAAACUGGCAAC
...((((...((.(((...((((.(((((((.....)).))))).))))...---((((....))))...))).))...--------....----.......(.....)....))))... ( -25.10)
>DroAna_CAF1 153498 99 + 1
CGAGCUAAUAAAAUUCAAAUGUGUGGCGCGGACUGUCCGCUGCCUGAUCUCGCAAAUUGUCAAAGCGGGCGAAAUGAGA--------AAAAAACCCUGAG--------CAAAAG-----G
...(((..................(((((((.....)))).)))...(((((....(((((......)))))..)))))--------...........))--------).....-----. ( -22.70)
>consensus
CACGCCAAUAAAAUUCAAAUGUGUGGCGCGGAUUGUCCAACGCCUCGCACUGCUCUUUCUCAAAGCAGGCGAAAUGAAA________AAAA____UUGAAAAGGAAGACAAACCGGCAAC
...(((.............((((.((((.((.....))..)))).))))((((...........))))..............................................)))... (-14.52 = -15.17 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,923,224 – 21,923,332
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.59
Mean single sequence MFE -29.97
Consensus MFE -18.26
Energy contribution -20.43
Covariance contribution 2.17
Combinations/Pair 1.08
Mean z-score -1.86
Structure conservation index 0.61
SVM decision value 0.12
SVM RNA-class probability 0.592710
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21923224 108 + 22407834
GCCAA-AAAUGUAAGGACAAAUUGAGGACGGACGACAGUCCGCCGAGCUGUCAAAGCGAGAGAAGUGGCGUGCAAAACAUGCAAAACUCAA----GCGGCGAGCGU-----AAGGAUU--
(((..-.........((((......((.(((((....)))))))....))))...((..(((.....(((((.....)))))....)))..----)))))...(..-----..)....-- ( -32.50)
>DroSec_CAF1 210597 108 + 1
GCCAA-AAAUGUAAGGACAAAUUGAGGACGGACGGCAGUCCGCCGAGCUGUCAAAGCGAAAGAAGUGGCGUGCAAAACAUGCAAAACUCAA----GCGGCGAGCGU-----AAGGGUU--
(((..-..((((.............((.(((((....)))))))..(((((((...(....)...))(((((.....))))).........----)))))..))))-----...))).-- ( -30.70)
>DroSim_CAF1 155175 108 + 1
GCCAA-AAAUGUAAGGACAAAUUGAGGACGGACGGCAGUCCGCCGAGCUGUCAAAGCGAGAGAAGUGGCGUGCAAAACAUGCAAAACUCAA----GCGGCGAGCGU-----AAGGGUU--
(((..-.........((((......((.(((((....)))))))....))))...((..(((.....(((((.....)))))....)))..----)))))...(..-----..)....-- ( -32.50)
>DroEre_CAF1 176807 109 + 1
GCCAAAAAAUGUAAGGACAAAUUGAGGACGGACGGCAGUCCGCCGAGCUGUCAAAGCGAGAGAAGUGGCGUGCGAAACAUGCAAAACUCGA----GCGGCAGGCGU-----AAAGGGU--
(((............((((......((.(((((....)))))))....))))...((..(((.....(((((.....)))))....)))..----)))))......-----.......-- ( -33.40)
>DroYak_CAF1 172669 107 + 1
GCCAA-AAAUGUAAGGACAAAUUGAGGACGGACGACAGUACGCCGAGCUGUCAAAGCGAGAGAAGUGGCGUGCGAAAAAUGUAAAACUCAA----GCGGCGAGUUU------AGGAGU--
(((..-...(((....)))..(((((.(((.......((((((((..((.((.....)).))...))))))))......)))....)))))----..)))......------......-- ( -30.02)
>DroAna_CAF1 153597 105 + 1
GCCAAACAAUAUAA-GACAAAGUGAGGACGG--------------AGCUGUCGAGGCGAGAGAAGUGCCACAGAAAACAUGCAAAAAUCAGUCCAGAGUCCAGAGAUGGAGAUGGGUUGU
..............-......(((.(.((..--------------..((.(((...))).))..)).)))).................((..(((...((((....))))..)))..)). ( -20.70)
>consensus
GCCAA_AAAUGUAAGGACAAAUUGAGGACGGACGGCAGUCCGCCGAGCUGUCAAAGCGAGAGAAGUGGCGUGCAAAACAUGCAAAACUCAA____GCGGCGAGCGU_____AAGGGUU__
(((......(((...((((......((.(((((....)))))))....))))...))).(((.....(((((.....)))))....)))........))).................... (-18.26 = -20.43 +   2.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:37 2006