Locus 255

Sequence ID	2L_DroMel_CAF1
Location	732,361 – 732,521
Length	160
Max. P	0.859824

overview

Window 8

Location	732,361 – 732,481
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.17
Mean single sequence MFE	-43.70
Consensus MFE	-38.96
Energy contribution	-39.68
Covariance contribution	0.72
Combinations/Pair	1.05
Mean z-score	-1.24
Structure conservation index	0.89
SVM decision value	0.16
SVM RNA-class probability	0.612085
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 732361 120 + 22407834
UUUUCCUGUGUGUCCGGAUGGAAAGGGGAUGGCGUUGAGAAUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGUGGCAGUGCAUCAUCCACUUGGCCAUUU
...((((.(...(((....))).).))))((((...(((....((((((((..(((.....(((((((((..((.....))..)))))).))))))...)).)))))).))).))))... ( -39.30)
>DroSec_CAF1 3865 120 + 1
UUUUCCUCUGUGUCCGGAUGGAAAGGGGAUGGCAUUGAGAAUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUU
...((((((...(((....))).))))))((((...(((....((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).)))))).))).))))... ( -46.20)
>DroSim_CAF1 3871 120 + 1
UUUUCCUCUGUGUCCGGAUGGAAAGGGGAUGGCGUUGAGAAUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUU
...((((((...(((....))).))))))((((...(((....((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).)))))).))).))))... ( -45.10)
>DroEre_CAF1 3950 120 + 1
UUUCCCGCCGUGUCCGGAUGGAAAGGGGAUGGCGUUGAGAAUGGGAUGGGUUGGCCUGAGGACGGACCGGGGAUGGACUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUU
......(((((.(((.........))).)))))((..((....((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).)))))).))..))..... ( -44.40)
>DroYak_CAF1 4159 120 + 1
UUUUCCUCCGUGUCCGGAUGGAAAGGGGAUGGCGUUGAGAAUGGGAUGGGUUGGCCCGAGGACGGACCGGGGAUGGACUGCAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUU
((((((((((....)))).)))))).(((((((...(((....((((.......((((.(......)))))((((.(((((..(.......)..))))).)))))))).))).))))))) ( -43.50)
>consensus
UUUUCCUCUGUGUCCGGAUGGAAAGGGGAUGGCGUUGAGAAUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUU
((((((((((....)))).)))))).(((((((...(((....((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).)))))).))).))))))) (-38.96 = -39.68 +   0.72)

alignment

secondary structure

dotplot

Window 9

Location	732,401 – 732,521
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.50
Mean single sequence MFE	-45.56
Consensus MFE	-40.28
Energy contribution	-41.80
Covariance contribution	1.52
Combinations/Pair	1.05
Mean z-score	-1.41
Structure conservation index	0.88
SVM decision value	0.82
SVM RNA-class probability	0.859824
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 732401 120 + 22407834
AUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGUGGCAGUGCAUCAUCCACUUGGCCAUUUGCCUGAUUGCGGUAUUUUGCUUCGGUCAGCUGGGUGGUGG
...((((((((..(((.....(((((((((..((.....))..)))))).))))))...)).)))))).....(((((..(.(((((((.(((.....))).))))))).)..))))).. ( -44.90)
>DroSec_CAF1 3905 120 + 1
AUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUUGCCUGAUUGCGGUAUUUUGCCUCGGUCAGCUGGGUGGUGG
...((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).)))))).....(((((..(.(((((((.(((.....))).))))))).)..))))).. ( -49.80)
>DroSim_CAF1 3911 120 + 1
AUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUUGCCUGAUUGCGGUAUUUUGCCUCGGUCAGCUGGGUGGUGG
...((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).)))))).....(((((..(.(((((((.(((.....))).))))))).)..))))).. ( -49.80)
>DroEre_CAF1 3990 108 + 1
AUGGGAUGGGUUGGCCUGAGGACGGACCGGGGAUGGACUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUUGCCUGAUUGCGGUAUUUUGCUUCGGUCA------------
...((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).))))))....(((.....))).(((((.(((.....))).))))).------------ ( -36.10)
>DroYak_CAF1 4199 120 + 1
AUGGGAUGGGUUGGCCCGAGGACGGACCGGGGAUGGACUGCAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUUGCCUGAUUGCGGUAUUUUGCCUCGGUCAGCUGGGUGGUGG
..(((.(((((...((((.(......)))))((((.(((((..(.......)..))))).)))))))))))).(((((..(.(((((((.(((.....))).))))))).)..))))).. ( -47.20)
>consensus
AUGGGAUGGGCUGGCCUGAGGACGGACCGGGGAUGGAUUGUAACUGGUCAUGAGGCAGUGCAUCAUCCACUUGGCCAUUUGCCUGAUUGCGGUAUUUUGCCUCGGUCAGCUGGGUGGUGG
...((((((((..((((.(.....((((((..((.....))..)))))).).))))...)).)))))).....(((((..(.(((((((.(((.....))).))))))).)..))))).. (-40.28 = -41.80 +   1.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:19 2006