Locus 2602

Sequence ID	2L_DroMel_CAF1
Location	7,201,566 – 7,201,662
Length	96
Max. P	0.994818

overview

Window 3

Location	7,201,566 – 7,201,662
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	91.46
Mean single sequence MFE	-30.38
Consensus MFE	-28.00
Energy contribution	-27.84
Covariance contribution	-0.16
Combinations/Pair	1.12
Mean z-score	-1.87
Structure conservation index	0.92
SVM decision value	2.51
SVM RNA-class probability	0.994818
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7201566 96 + 22407834
UUUGAUACGGACACAUUGGAAAAGGGAUAUACGCGUCAGUUGAUGACGCUGGCAAGUGAAUUGCGGCUCAGUCUGGCGGGUGUCCAAGGAAAUGCA
........((((((.(..((...(((......((((((.....))))))..((((.....))))..)))..))..)...))))))........... ( -29.30)
>DroSec_CAF1 19133 96 + 1
UUUGAUACGGACACAUCGGAAAAGGGAUAUACGCGUCAGUUGAUGACGCUGGCAAGUGAAUUGCGGCUCAGUCUGGCGGGUGUCCAAGGAAAUGCA
........((((((.(((((...(((......((((((.....))))))..((((.....))))..)))..)))))...))))))........... ( -30.80)
>DroSim_CAF1 32336 96 + 1
UUUGAUACGGACACAUCGGAAAAGGGAUAUACGCGUCAGUUGAUGACGCUGGCAAGUGAAUUGCGGCUCAGUCUGGCGGGUGUCCAAGGAAAUGCA
........((((((.(((((...(((......((((((.....))))))..((((.....))))..)))..)))))...))))))........... ( -30.80)
>DroEre_CAF1 44091 96 + 1
UUUGAUACGGACACAUUGGAAAAGGGAUAUACGCGUCAUUUGAUGACGCAAGCAGCUGAGUUGCGGCUCAGUCUGUUGAGUGUCCAUGGAAAUGCA
........((((((..................(((((((...))))))).(((((((((((....)))))).)))))..))))))........... ( -34.50)
>DroYak_CAF1 34697 96 + 1
UUUGAUACGGACACAUCGGAAAAGGGAUAUUCGCGUCAUUUGAUGACGCUAGCAAGUGAAUGGCGGCUCUGUCUGGUAAGUGUUCAAGAAAUUGCA
........((((((((((((..((((.((((((((((((...)))))(....)..)))))))....)))).))))))..))))))........... ( -26.50)
>consensus
UUUGAUACGGACACAUCGGAAAAGGGAUAUACGCGUCAGUUGAUGACGCUGGCAAGUGAAUUGCGGCUCAGUCUGGCGGGUGUCCAAGGAAAUGCA
........((((((.(((((...(((......((((((.....))))))..((((.....))))..)))..)))))...))))))........... (-28.00 = -27.84 +  -0.16)

alignment

secondary structure

dotplot

Window 4

Location	7,201,566 – 7,201,662
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	91.46
Mean single sequence MFE	-22.24
Consensus MFE	-19.12
Energy contribution	-19.72
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.58
Structure conservation index	0.86
SVM decision value	1.00
SVM RNA-class probability	0.898649
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7201566 96 - 22407834
UGCAUUUCCUUGGACACCCGCCAGACUGAGCCGCAAUUCACUUGCCAGCGUCAUCAACUGACGCGUAUAUCCCUUUUCCAAUGUGUCCGUAUCAAA
...........((((((...............((((.....))))..((((((.....))))))..................))))))........ ( -21.40)
>DroSec_CAF1 19133 96 - 1
UGCAUUUCCUUGGACACCCGCCAGACUGAGCCGCAAUUCACUUGCCAGCGUCAUCAACUGACGCGUAUAUCCCUUUUCCGAUGUGUCCGUAUCAAA
...........((((((.((..(((..((...((((.....))))..((((((.....)))))).....))..)))..))..))))))........ ( -22.00)
>DroSim_CAF1 32336 96 - 1
UGCAUUUCCUUGGACACCCGCCAGACUGAGCCGCAAUUCACUUGCCAGCGUCAUCAACUGACGCGUAUAUCCCUUUUCCGAUGUGUCCGUAUCAAA
...........((((((.((..(((..((...((((.....))))..((((((.....)))))).....))..)))..))..))))))........ ( -22.00)
>DroEre_CAF1 44091 96 - 1
UGCAUUUCCAUGGACACUCAACAGACUGAGCCGCAACUCAGCUGCUUGCGUCAUCAAAUGACGCGUAUAUCCCUUUUCCAAUGUGUCCGUAUCAAA
.........((((((((....(((.(((((......))))))))...(((((((...)))))))..................))))))))...... ( -30.30)
>DroYak_CAF1 34697 96 - 1
UGCAAUUUCUUGAACACUUACCAGACAGAGCCGCCAUUCACUUGCUAGCGUCAUCAAAUGACGCGAAUAUCCCUUUUCCGAUGUGUCCGUAUCAAA
.........((((.....(((..((((.(..((..............(((((((...)))))))(((........))))).).)))).))))))). ( -15.50)
>consensus
UGCAUUUCCUUGGACACCCGCCAGACUGAGCCGCAAUUCACUUGCCAGCGUCAUCAACUGACGCGUAUAUCCCUUUUCCGAUGUGUCCGUAUCAAA
..........(((((((...............((((.....))))..((((((.....))))))..................)))))))....... (-19.12 = -19.72 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:37 2006