Alignment of Intron_maturase_II with c1gjha

Alignment of Intron_maturase_II with c1gjha

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
c1gjha__Seq	Library Sequence
c1gjha__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

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

-------

H

-

+

-

R

I

V

M

K

L

+

+

-

G

Y

+

-

-

+

G

-

+

-

-

-

+

R

-

-

+

-

E

-

+

+

c1gjha__Seq

H

A

G

R

.

.

T

G

Y

D

N

R

E

I

V

M

K

Y

I

H

Y

K

L

S

Q

R

G

Y

E

W

D

A

.

.

G

D

D

V

E

E

N

R

T

E

A

P

E

G

T

E

c1gjha__SS

C

C

C

C

.

.

C

C

C

C

H

H

H

H

H

H

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

C

C

C

C

C

H

H

CORE

0

0

0

0

.

.

0

0

0

0

0

0

0

2

8

2

0

1

9

0

0

0

6

0

0

0

0

1

0

2

0

0

.

.

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

Intron__PSS

H

H

H

H

H

H

H

H

.

.

.

H

C

C

H

H

H

H

C

C

C

C

.

.

.

.

.

.

.

.

.

.

C

C

C

C

.

.

.

.

.

.

.

.

.

.

.

H

H

H

Intron__Seq

I

L

M

H

Y

L

A

V

.

.

.

G

R

G

I

M

N

Y

Y

R

L

A

.

.

.

.

.

.

.

.

.

.

T

N

F

T

.

.

.

.

.

.

.

.

.

.

.

T

L

R

-------

-

-

+

-

+

L

+

G

+

+

+

-

Y

R

+

T

+

F

T

+

+

R

c1gjha__Seq

S

E

V

V

H

L

T

L

R

Q

A

G

D

D

F

S

R

R

Y

R

R

D

F

A

E

M

S

S

Q

L

H

L

T

P

F

T

A

R

G

R

F

A

T

V

V

E

E

L

F

R

c1gjha__SS

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

H

H

H

H

H

H

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

C

C

CORE

0

0

0

1

0

0

0

3

0

0

1

0

0

0

1

0

0

0

0

0

0

0

2

0

0

0

0

0

0

2

0

0

0

0

0

0

0

0

0

0

4

0

0

2

3

0

0

3

3

0

Intron__PSS

.

.

.

.

.

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

H

H

H

H

H

H

H

.

.

.

.

.

.

.

.

Intron__Seq

.

.

.

.

.

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

L

K

F

G

K

V

L

.

.

.

.

.

.

.

.

-------

G

R

I

+

+

-

F

+

-

C

-

+

-

+

-

-

-

-

-

V

-

+

+

L

-

-

-

+

L

c1gjha__Seq

D

G

V

N

W

G

R

I

V

A

F

F

E

F

G

G

V

M

C

V

E

S

V

N

R

E

M

S

P

L

V

D

N

I

A

L

W

M

T

E

Y

L

N

R

H

L

H

T

W

I

c1gjha__SS

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

H

H

H

H

H

H

H

H

H

C

H

H

H

H

H

CORE

0

0

3

0

0

0

0

5

2

2

6

5

0

2

2

4

0

1

6

1

0

1

4

0

0

0

0

1

0

0

8

0

0

4

8

0

0

8

1

0

2

7

0

0

0

5

0

0

0

2

Intron__PSS		.	.	.	.	.	.	.	.	.	.		.	.	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	E	E	E	E	E	E	E
Intron__Seq		.	.	.	.	.	.	.	.	.	.		.	.	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	I	L	D	R	Y	K	Y
-------																+	P	-	-	+
c1gjha__Seq		Q	D	N	G	G	W	D	A	F	V		E	L	Y	G	P	S	M	R	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.
c1gjha__SS		H	H	C	C	C	H	H	H	H	H		H	H	H	C	C	C	C	C	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.
CORE		0	0	0	0	0	1	0	0	1	0		0	0	0	0	0	0	0	0	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.

Intron__PSS

E

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

C

C

C

Intron__Seq

M

L

P

R

S

L

S

L

F

S

G

I

C

Q

I

C

G

S

K

-------

c1gjha__Seq

.

.

.

.

.

.

.

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.

.

.

.

.

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.

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.

.

.

c1gjha__SS

.

.

.

.

.

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.

.

.

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.

.

.

.

.

.

.

.

.

CORE

.

.

.

.

.

.

.

.

.

.

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.

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.