Alignment of Intron_maturase_II with d1higa

Alignment of Intron_maturase_II with d1higa

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
d1higa__Seq	Library Sequence
d1higa__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

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

-------

-

P

+

-

-

+

L

K

-

-

-

+

H

-

-

-

+

+

+

-

-

+

G

-

L

-

-

E

E

-

+

-

+

d1higa__Seq

.

.

.

.

.

.

Q

D

P

Y

V

K

E

A

E

N

L

K

K

Y

F

N

A

G

H

S

D

V

A

D

N

G

T

L

F

L

G

I

L

K

N

W

K

E

E

S

D

R

K

I

d1higa__SS

.

.

.

.

.

.

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

H

H

H

C

C

C

H

H

H

H

H

H

CORE

.

.

.

.

.

.

0

0

0

0

0

0

2

5

0

0

9

0

0

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

Intron__PSS

H

H

H

H

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

.

.

.

.

.

.

.

.

.

.

.

Intron__Seq

M

H

Y

L

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

.

.

.

.

.

.

.

.

.

.

.

-------

M

-

-

-

V

-

+

+

-

+

-

-

+

-

-

+

+

-

-

+

-

I

+

-

-

+

+

+

d1higa__Seq

M

Q

S

Q

I

V

S

.

F

Y

F

K

L

F

K

N

F

K

D

D

Q

S

I

Q

K

S

V

E

T

I

K

E

D

M

N

V

K

F

F

N

S

N

K

K

K

R

D

D

F

E

d1higa__SS

H

H

H

H

H

H

H

.

H

H

H

H

H

H

H

C

C

C

C

C

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

CORE

0

0

3

0

1

8

3

.

0

1

0

0

0

2

0

0

4

0

0

0

0

0

7

0

0

5

4

0

0

8

0

0

0

0

0

1

0

3

5

0

0

0

0

0

0

0

0

0

7

0

Intron__PSS

.

H

H

H

C

C

C

H

.

.

.

H

H

H

H

H

H

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

Intron__Seq

.

A

S

K

F

K

L

N

.

.

.

T

V

K

K

V

I

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

-------

-

+

+

+

+

+

-

K

I

-

-

+

V

+

-

+

-

-

-

-

d1higa__Seq

K

L

T

N

Y

S

V

T

D

L

N

V

Q

R

K

A

I

H

E

L

I

Q

V

M

A

E

L

S

P

A

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

d1higa__SS

H

H

H

H

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

CORE

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

Intron__PSS

C

C

C

E

E

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

Y

T

P

D

E

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

-------

d1higa__Seq

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d1higa__SS

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CORE

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