Locus 3065

Sequence ID	2L_DroMel_CAF1
Location	8,758,360 – 8,758,480
Length	120
Max. P	0.927533

overview

Window 5

Location	8,758,360 – 8,758,456
Length	96
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	80.89
Mean single sequence MFE	-18.73
Consensus MFE	-12.10
Energy contribution	-12.18
Covariance contribution	0.08
Combinations/Pair	1.20
Mean z-score	-2.76
Structure conservation index	0.65
SVM decision value	1.18
SVM RNA-class probability	0.927533
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8758360 96 - 22407834
---------ACAUGCAAUUUCACACAUGUGAGGAAAAUCACAAAACAGGCGUCGCAUUUUCAUAAUGGCAACAUAAA---AAAUGCAAACA-------CAUACGUA---UA-CAUACAC
---------..((((...........(((((......)))))...........(((((((....(((....)))..)---)))))).....-------.....)))---).-....... ( -17.00)
>DroSec_CAF1 62675 96 - 1
---------ACAUGCAAUUUCACACAUGUGAGGAAAAUCACAAAACAGGCGUCGCAUUUUCAUAAUGGCAACAUAAA---AAAUGCACACA-------CAUACGUG---UA-UACAUAC
---------............((((.(((((......)))))......(.((.(((((((....(((....)))..)---)))))))).).-------.....)))---).-....... ( -19.50)
>DroSim_CAF1 65352 96 - 1
---------ACAUGCAAUUUCACACAUGUGAGGAAAAUCACAAAACAGGCGUCGCAUUUUCAUAAUGGCAACAUAAA---AAAUGCACACA-------CAUACGUG---UA-UACAUAC
---------............((((.(((((......)))))......(.((.(((((((....(((....)))..)---)))))))).).-------.....)))---).-....... ( -19.50)
>DroEre_CAF1 66503 86 - 1
---------ACAUGCAAUUUCACACAUGUGAGGAAAAUCACAAUACAGGCGUCGCAUUUUCAUAAUGGCAACAUAAA---AAAUGCAAACA-------CACAC--------------GC
---------....((...........(((((......)))))...........(((((((....(((....)))..)---)))))).....-------.....--------------)) ( -15.30)
>DroYak_CAF1 65378 98 - 1
---------ACAUGCAAUUUCACACAUGUGAGGAAAAUCACAAAACAGGCGUCGCAUUUUCAUAAUGGCAACAUAAAA--AAAUGCAAACA-------CAUACAUA---UAAUGCAUAC
---------..(((((..........(((((......)))))...........(((((((....(((....)))...)--)))))).....-------........---...))))).. ( -20.00)
>DroAna_CAF1 64497 118 - 1
UACGUAUGUACAUGCAAUUUCACACAUGUGAGAAAAAACACAAAACAGACGUCGCACUCGCAUAAUGGCGGCAAAAAAAAAGAUGUAUAUAUUCUCCCCCUACAUGCUUUA-UAAUUUC
...((((((((((....((((((....)))))).................(((((.(.........))))))..........))))))))))...................-....... ( -21.10)
>consensus
_________ACAUGCAAUUUCACACAUGUGAGGAAAAUCACAAAACAGGCGUCGCAUUUUCAUAAUGGCAACAUAAA___AAAUGCAAACA_______CAUACGUG___UA_UACAUAC
.................((((((....))))))....................((((((.....(((....)))......))))))................................. (-12.10 = -12.18 +   0.08)

alignment

secondary structure

dotplot

Window 6

Location	8,758,388 – 8,758,480
Length	92
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	84.52
Mean single sequence MFE	-28.27
Consensus MFE	-21.69
Energy contribution	-21.55
Covariance contribution	-0.14
Combinations/Pair	1.19
Mean z-score	-2.00
Structure conservation index	0.77
SVM decision value	0.22
SVM RNA-class probability	0.641276
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8758388 92 + 22407834
--UUUAUGUUGCCAUUAUGAAAAUGCGACGCCUGUUUUGUGAUUUUCCUCACAUGUGUGAAAUUGCAUGU-------------------------AGGUGCGAUAGCGUUGAGGGGAAA
--.....(((((.(((.....)))))))).............((..(((((.((((.....(((((((..-------------------------..))))))).)))))))))..)). ( -23.60)
>DroSec_CAF1 62703 91 + 1
--UUUAUGUUGCCAUUAUGAAAAUGCGACGCCUGUUUUGUGAUUUUCCUCACAUGUGUGAAAUUGCAUGU-------------------------AGGUGCGAGAGCGUUGAGGGGA-A
--.....(((((.(((.....)))))))).............((..(((((((((((......)))))))-------------------------....((....))...))))..)-) ( -23.90)
>DroSim_CAF1 65380 92 + 1
--UUUAUGUUGCCAUUAUGAAAAUGCGACGCCUGUUUUGUGAUUUUCCUCACAUGUGUGAAAUUGCAUGU-------------------------AGGUGCGAGAGCGUUGAGGGGAAA
--.....(((((.(((.....)))))))).............((..(((((((((((......)))))))-------------------------....((....))...))))..)). ( -24.70)
>DroEre_CAF1 66521 92 + 1
--UUUAUGUUGCCAUUAUGAAAAUGCGACGCCUGUAUUGUGAUUUUCCUCACAUGUGUGAAAUUGCAUGU-------------------------AGGUGCGAGAGCAUUGAGGGGAAA
--.....(((((.(((.....)))))))).............((..(((((((((((......)))))))-------------------------.(((((....)))))))))..)). ( -27.50)
>DroYak_CAF1 65407 93 + 1
-UUUUAUGUUGCCAUUAUGAAAAUGCGACGCCUGUUUUGUGAUUUUCCUCACAUGUGUGAAAUUGCAUGU-------------------------AGGUGCGAGAGCAUUGAGGGGAAA
-......(((((.(((.....)))))))).............((..(((((((((((......)))))))-------------------------.(((((....)))))))))..)). ( -27.50)
>DroAna_CAF1 64536 117 + 1
UUUUUUUGCCGCCAUUAUGCGAGUGCGACGUCUGUUUUGUGUUUUUUCUCACAUGUGUGAAAUUGCAUGUACAUACGUACUACGUACUCGCACAUAGGUGCGAGCACAUUGAGGUGG--
........(((((....((((((((((((((.(((..(((((..((((.((....)).))))..))))).))).))))....))))))))))((...(((....)))..)).)))))-- ( -42.40)
>consensus
__UUUAUGUUGCCAUUAUGAAAAUGCGACGCCUGUUUUGUGAUUUUCCUCACAUGUGUGAAAUUGCAUGU_________________________AGGUGCGAGAGCAUUGAGGGGAAA
.......(((((.(((.....)))))))).............((..(((((((((((......)))))))..........................(((((....)))))))))..)). (-21.69 = -21.55 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:27 2006