Locus 4826

Sequence ID	2L_DroMel_CAF1
Location	13,748,559 – 13,748,748
Length	189
Max. P	0.979467

overview

Window 0

Location	13,748,559 – 13,748,669
Length	110
Sequences	4
Columns	112
Reading direction	reverse
Mean pairwise identity	91.13
Mean single sequence MFE	-31.63
Consensus MFE	-22.90
Energy contribution	-24.71
Covariance contribution	1.81
Combinations/Pair	1.03
Mean z-score	-2.63
Structure conservation index	0.72
SVM decision value	0.56
SVM RNA-class probability	0.780458
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13748559 110 - 22407834
ACACGUGCACAUAUACAGAACAUUCAAUGUGUGUGUGUGUGUGUGGAGGAGCAUCUUGUGGCUGGUU--UCCUGGUCCAAUGUUGACUGCUUGUUUUUAUUCCAUUUUUUUU
(((((..((((((((((..........))))))))))..)))))(((((((((((...((((..(..--..)..).))).....)).))))).......))))......... ( -35.11)
>DroSec_CAF1 12243 107 - 1
ACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU----GUGUGUGGAGGAGCAUCUUGUGGCUGGUU-UUCCUUGUCCAAUGUUGACUGCUUGUUUUUAUUCCAUUUUUUUU
.......((((((((((((.(((...))))))))----)))))))((.(((((((...((((.((..-..))..).))).....)).))))).))................. ( -28.00)
>DroSim_CAF1 14272 107 - 1
ACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU----GUGUGUGGAGGAGCAUCUUGUGGCUGGUU-UUCCUUGUCCAAUGUUGACUGCUUGUUUUUAUUCCAUUUUUUUU
.......((((((((((((.(((...))))))))----)))))))((.(((((((...((((.((..-..))..).))).....)).))))).))................. ( -28.00)
>DroEre_CAF1 14135 109 - 1
ACACGUCCACACAUACAGGCCAUUGCAUGUGUGUGUGAGUGUGUGGAGGAGCAUCUUGUGGCUGGUUUUUCCUUGUCCAAUGUUGACUGCUUGUUUUUAUUCCAUUUUU---
(((((..((((((((((.((....)).))))))))))..)))))(((((((((((...((((.((.....))..).))).....)).))))).......))))......--- ( -35.41)
>consensus
ACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU____GUGUGUGGAGGAGCAUCUUGUGGCUGGUU_UUCCUUGUCCAAUGUUGACUGCUUGUUUUUAUUCCAUUUUUUUU
(((((..((((((((((..........))))))))))..)))))(((((((((((...((((.((.....))..).))).....)).))))).......))))......... (-22.90 = -24.71 +   1.81)

alignment

secondary structure

dotplot

Window 1

Location	13,748,599 – 13,748,708
Length	109
Sequences	4
Columns	111
Reading direction	reverse
Mean pairwise identity	89.49
Mean single sequence MFE	-34.30
Consensus MFE	-23.76
Energy contribution	-25.82
Covariance contribution	2.06
Combinations/Pair	1.03
Mean z-score	-1.72
Structure conservation index	0.69
SVM decision value	-0.01
SVM RNA-class probability	0.528468
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13748599 109 - 22407834
UCAAGUGUGAAGGUGUGCGUGUGUGUGUGUGUGGUCGUUACACGUGCACAUAUACAGAACAUUCAAUGUGUGUGUGUGUGUGUGGAGGAGCAUCUUGUGGCUGGUU--UCC
...(((...((((((((((..(....)..)))..((.(((((((..((((((((((..........))))))))))..)))))))..)))))))))...)))....--... ( -33.90)
>DroSec_CAF1 12283 102 - 1
UCAAGUGUGAAGGUGUGCGUGUGU----GUGUGCUCGUUACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU----GUGUGUGGAGGAGCAUCUUGUGGCUGGUU-UUCC
....((((((.((((..((....)----)..))))..))))))...((((((((((((.(((...))))))))----)))))))(((((.((((....)).)).))-))). ( -32.70)
>DroSim_CAF1 14312 102 - 1
UCAAGUGUGAAGGUGUGCGUGUGU----GUGUGCUCGUUACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU----GUGUGUGGAGGAGCAUCUUGUGGCUGGUU-UUCC
....((((((.((((..((....)----)..))))..))))))...((((((((((((.(((...))))))))----)))))))(((((.((((....)).)).))-))). ( -32.70)
>DroEre_CAF1 14172 105 - 1
UCAAGUGUGAAGGUGUGCGUGU------GUGUGCUCGUUACACGUCCACACAUACAGGCCAUUGCAUGUGUGUGUGAGUGUGUGGAGGAGCAUCUUGUGGCUGGUUUUUCC
........(((((...((....------..((((((.(((((((..((((((((((.((....)).))))))))))..)))))))..))))))......))....))))). ( -37.90)
>consensus
UCAAGUGUGAAGGUGUGCGUGUGU____GUGUGCUCGUUACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU____GUGUGUGGAGGAGCAUCUUGUGGCUGGUU_UUCC
...(((...((((((((((..(......)..)))((.(((((((..((((((((((..........))))))))))..)))))))..)))))))))...)))......... (-23.76 = -25.82 +   2.06)

alignment

secondary structure

dotplot

Window 2

Location	13,748,633 – 13,748,748
Length	115
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	92.16
Mean single sequence MFE	-43.40
Consensus MFE	-36.42
Energy contribution	-37.48
Covariance contribution	1.06
Combinations/Pair	1.03
Mean z-score	-3.51
Structure conservation index	0.84
SVM decision value	1.84
SVM RNA-class probability	0.979467
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13748633 115 - 22407834
ACGGAUGUUGAAUUGGUUUGCCUUCGUCUCGGCUUGCCACUCAAGUGUGAAGGUGUGCGUGUGUGUGUGUGUGGUCGUUACACGUGCACAUAUACAGAACAUUCAAUGUGUGUGU
(((.(((((((((.(((.((((((((.(...(((((.....)))))))))))))).))(((((((((..((((.......))))..)))))))))....)))))))))).))).. ( -43.00)
>DroSec_CAF1 12316 109 - 1
ACGGAUGUUGAAUUGGUUUGCCUUCGUCUCGGCUUGCCACUCAAGUGUGAAGGUGUGCGUGUGU----GUGUGCUCGUUACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU--
(((((((((((((((((..(((........)))..))))(((..(..(......)..).(((((----((((((.((.....)).)))))))))))))).)))))))))))))-- ( -44.90)
>DroSim_CAF1 14345 109 - 1
ACGGAUGUUGAAUUGGUUUGCCUUCGUCUCGGCUUGCCACUCAAGUGUGAAGGUGUGCGUGUGU----GUGUGCUCGUUACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU--
(((((((((((((((((..(((........)))..))))(((..(..(......)..).(((((----((((((.((.....)).)))))))))))))).)))))))))))))-- ( -44.90)
>DroEre_CAF1 14208 109 - 1
ACGGAUGUUGAAUUGGUUUGCCUUCGUCUCGGCUUGCCACUCAAGUGUGAAGGUGUGCGUGU------GUGUGCUCGUUACACGUCCACACAUACAGGCCAUUGCAUGUGUGUGU
..((((.((((..((((..(((........)))..)))).))))((((((.((((..(....------)..))))..))))))))))(((((((((.((....)).))))))))) ( -40.80)
>consensus
ACGGAUGUUGAAUUGGUUUGCCUUCGUCUCGGCUUGCCACUCAAGUGUGAAGGUGUGCGUGUGU____GUGUGCUCGUUACACGUGCACAUAUACAGAGCAUUCAAUGUCUGU__
(((((((((((((((((..(((........)))..)))).....(((((...(((..((((((...............))))))..))).))))).....))))))))))))).. (-36.42 = -37.48 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:27 2006