Alignment of Intron_maturase_II with c1ytfd

Alignment of Intron_maturase_II with c1ytfd

PSSM Score Key
-10																			10

Bad																			Good

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FASTA version

Intron__PSS	Predicted Secondary Structure for your Sequence
Intron__Seq	Your Sequence
c1ytfd__Seq	Library Sequence
c1ytfd__SS	Known Secondary Structure of the Library Sequence (Assigned by STRIDE)
CORE	A measure of the burial and number of contacts made by a residue. (9 very buried/making many contacts, 0 not buried/making few contacts

Intron__PSS

C

C

E

E

E

E

E

C

C

C

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

E

E

C

C

C

C

C

C

H

H

H

H

H

H

H

Intron__Seq

H

T

S

L

V

V

N

A

P

I

R

S

I

V

M

K

L

N

K

H

G

Y

C

S

H

G

I

L

G

K

P

R

G

V

G

R

L

I

H

E

E

M

K

T

I

L

M

H

Y

L

-------

c1ytfd__Seq

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c1ytfd__SS

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CORE

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Intron__PSS

H

H

H

C

C

H

H

H

H

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

.

.

H

H

H

H

H

H

H

Intron__Seq

A

V

G

R

G

I

M

N

Y

Y

R

L

A

T

N

F

T

T

L

R

G

R

I

T

Y

I

L

F

Y

S

C

C

L

T

L

A

S

K

F

K

L

.

.

N

T

V

K

K

V

I

-------

Y

Y

L

-

-

+

+

T

+

G

+

-

-

-

-

-

T

L

-

S

-

+

+

-

+

V

+

c1ytfd__Seq

.

.

.

.

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.

.

G

Y

Y

E

L

Y

R

R

.

S

T

I

.

G

N

.

.

.

.

S

L

V

D

A

L

D

T

L

I

S

D

G

R

I

E

A

S

L

A

M

R

V

L

c1ytfd__SS

.

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.

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C

C

C

C

H

H

H

H

.

C

H

H

.

H

H

.

.

.

.

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

H

H

H

H

H

H

CORE

.

.

.

.

.

.

.

0

0

0

0

0

0

0

0

.

0

0

0

.

0

0

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.

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.

0

1

0

0

0

2

0

0

0

0

0

0

0

0

0

0

0

0

0

1

0

0

1

1

Intron__PSS

H

H

H

H

H

.

.

.

.

H

H

C

C

.

C

C

C

C

C

C

E

.

.

E

E

E

E

E

E

E

C

C

C

.

.

.

.

.

C

C

C

C

C

C

C

C

C

C

E

E

Intron__Seq

L

K

F

G

K

.

.

.

.

V

L

V

D

.

P

H

S

K

V

S

F

.

.

S

I

D

D

F

K

I

R

H

K

.

.

.

.

.

M

N

M

T

D

S

N

Y

T

P

D

E

-------

+

F

-

K

L

-

D

+

-

S

K

+

+

+

+

+

D

-

+

-

+

-

-

+

-

+

+

-

-

+

c1ytfd__Seq

E

T

F

D

K

V

V

A

E

T

L

K

D

N

T

Q

S

K

L

T

V

K

G

N

L

D

T

Y

G

F

C

D

D

V

W

T

F

I

V

K

N

C

Q

V

T

V

E

S

V

I

c1ytfd__SS

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

E

E

E

E

E

E

E

E

E

E

E

E

E

E

C

C

E

E

E

E

E

E

E

E

E

E

E

E

E

C

C

E

E

CORE

0

0

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

2

0

9

0

3

0

2

0

0

0

0

0

0

0

0

1

0

0

1

0

8

0

0

6

0

8

0

1

0

0

0

2

Intron__PSS		E	E	E	E	E	E	E	E	C	.		.	C	C	C	H	H	H	H	H	H		H	H	H	H	H	C	C	C
Intron__Seq		I	L	D	R	Y	K	Y	M	L	.		.	P	R	S	L	S	L	F	S	G		I	C	Q	I	C	G	S	K
-------		-		D	+	-	+	-		-				-	+
c1ytfd__Seq		S	V	D	K	L	R	I	V	A	C		N	S	K	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.
c1ytfd__SS		E	E	E	E	E	E	E	E	E	E		E	C	C	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.
CORE		0	4	0	0	9	0	2	1	0	0		0	0	0	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.