genome.fa.s73.2.7.7.80.10.50.1000.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold73
Parameters: 2 7 7 80 10 50 1000
Length:  1308442

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1034 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2641--2677	3	12.3	3	100	0	74	67	0	0	32	0.91
2699--2728	15	2.0	15	93	0	51	46	3	0	50	1.18
3419--3477	27	2.1	28	84	9	77	52	0	0	47	1.00
6460--6493	16	2.1	16	100	0	68	32	20	5	41	1.76
6623--6665	13	3.3	13	83	6	52	74	4	0	20	1.00
14871--14901	2	15.5	2	93	0	53	51	0	0	48	1.00
17245--17273	4	7.2	4	100	0	58	48	0	0	51	1.00
17917--17978	23	2.7	23	97	0	115	50	3	29	17	1.62
18788--18833	21	2.2	20	80	7	56	34	4	4	56	1.39
19030--19192	87	1.9	87	85	2	229	33	9	8	48	1.66
19911--19939	12	2.3	13	94	5	51	44	17	0	37	1.49
24359--24537	79	2.2	83	85	5	231	35	2	12	49	1.55
25379--25439	30	2.0	30	84	12	81	59	0	0	40	0.98
25388--25432	22	2.0	24	82	8	58	62	0	0	37	0.96
25395--25471	33	2.2	33	82	11	84	64	1	1	32	1.09
32772--32832	22	2.7	22	78	14	70	59	0	0	40	0.98
32804--32837	10	3.3	10	91	4	50	55	0	0	44	0.99
32804--32877	24	3.3	22	78	15	80	52	0	0	47	1.00
34636--34679	13	3.5	12	87	6	61	59	0	0	40	0.98
34632--34713	12	6.5	13	72	19	68	58	0	0	41	0.98
34632--34729	18	5.3	17	73	20	65	57	0	1	41	1.05
38738--38765	8	3.5	8	100	0	56	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38828--38891	31	2.0	32	87	3	94	64	0	0	35	0.94
38857--38906	19	2.8	18	80	14	50	62	0	0	38	0.96
42256--42291	18	2.0	18	94	0	63	38	25	16	19	1.92
43804--43842	12	3.2	12	81	0	51	41	0	0	58	0.98
46153--46209	29	2.0	29	89	6	89	54	1	0	43	1.10
46154--46217	29	2.2	29	86	5	85	56	1	0	42	1.09
46182--46225	17	2.5	17	77	3	52	59	0	0	40	0.98
46346--46417	36	2.0	36	88	0	108	61	2	0	36	1.11
53277--53354	21	3.6	21	72	14	61	37	3	0	58	1.16
53303--53339	13	2.8	13	91	4	56	37	2	0	59	1.12
53279--53346	29	2.5	28	81	13	79	36	4	0	58	1.18
54680--54714	18	1.9	18	88	11	54	51	0	2	45	1.16
58772--58838	32	2.1	32	86	8	91	49	1	0	49	1.10
63741--63779	17	2.2	18	86	4	53	35	2	0	61	1.10
64094--64147	20	2.7	20	74	8	56	59	3	1	35	1.26
64586--64631	23	2.0	24	83	8	60	47	0	2	50	1.13
65690--65714	13	1.9	13	100	0	50	44	0	8	48	1.32
67235--67278	18	2.4	18	84	0	52	45	0	4	50	1.22
67902--67932	3	10.3	3	100	0	62	32	0	0	67	0.91
70918--71027	33	3.4	33	74	9	102	20	28	23	28	1.99
71016--71063	15	3.2	15	75	0	51	25	20	27	27	1.99
70918--71116	63	3.2	63	79	6	174	22	25	23	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71046--71125	15	5.3	15	63	0	52	25	21	21	32	1.98
71040--71392	33	11.2	33	86	6	284	22	20	25	31	1.98
71301--71380	15	5.3	15	71	11	65	28	21	18	31	1.97
70950--71394	30	14.2	30	84	5	327	23	21	25	30	1.99
72083--72112	8	3.6	8	91	8	51	26	0	0	73	0.84
72106--72160	27	2.0	27	82	6	67	60	0	0	40	0.97
72432--72471	19	2.1	19	90	0	62	42	0	0	57	0.98
74429--74485	27	2.1	28	96	3	107	36	24	8	29	1.86
78897--78947	24	2.1	25	85	3	68	47	0	1	50	1.12
79514--79569	22	2.7	20	76	10	58	41	3	1	53	1.29
79574--79626	15	3.5	15	75	14	54	47	0	0	52	1.00
79570--79620	20	2.7	20	79	11	54	49	0	0	50	1.00
79574--79627	16	3.5	16	77	7	58	48	0	0	51	1.00
79643--79686	21	2.3	19	82	17	56	54	2	0	43	1.12
82255--82303	20	2.3	22	79	13	66	40	2	0	57	1.10
82268--82324	20	2.9	20	76	12	64	45	0	0	54	0.99
82277--82332	14	3.7	15	78	19	55	42	0	0	57	0.99
82292--82354	26	2.5	26	85	12	80	38	1	0	60	1.07
82288--82343	11	4.8	11	77	18	60	41	0	0	58	0.98
84261--84612	174	2.0	174	100	0	704	40	7	11	40	1.70
84654--84746	47	1.9	50	84	6	129	45	0	1	53	1.07
84658--84746	26	3.6	25	70	20	62	44	0	1	53	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87586--87627	22	1.9	22	85	9	59	35	0	0	64	0.94
90735--90765	13	2.5	12	90	10	53	45	0	0	54	0.99
91387--91451	24	2.9	23	78	10	73	47	0	0	52	1.00
91593--91624	14	2.2	15	94	5	57	37	0	0	62	0.95
91705--91772	5	13.0	5	71	20	50	38	2	0	58	1.13
91718--91772	21	2.3	26	85	14	75	40	0	0	60	0.97
92579--92620	17	2.5	17	80	3	50	59	0	2	38	1.10
95455--95533	25	3.2	24	77	15	72	34	0	1	64	1.02
96868--96925	27	2.3	27	85	8	77	62	0	1	36	1.06
98086--98118	2	16.5	2	100	0	66	48	0	0	51	1.00
98476--98509	16	2.1	16	100	0	68	44	17	11	26	1.83
100247--100272	1	26.0	1	100	0	52	0	0	0	100	0.00
101656--101738	22	3.5	23	77	12	80	57	0	2	39	1.12
109698--109741	19	2.4	18	81	7	52	63	2	4	29	1.26
110259--110430	82	2.1	81	86	1	236	38	14	6	40	1.72
110870--110907	2	19.0	2	100	0	76	50	0	0	50	1.00
111929--111958	1	30.0	1	93	0	51	3	0	96	0	0.21
113781--114563	362	2.2	345	79	6	798	43	9	8	38	1.67
113789--114563	178	4.4	176	77	8	678	43	9	8	38	1.67
114984--115018	17	1.9	17	88	11	52	42	0	2	54	1.15
117444--117487	2	22.0	2	100	0	88	50	0	0	50	1.00
119778--119811	17	2.0	16	88	11	50	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119789--119822	14	2.4	14	95	0	59	64	0	0	35	0.94
119904--120028	62	2.0	62	90	0	196	16	18	12	53	1.72
120400--120430	5	6.2	5	92	0	53	38	3	0	58	1.15
122283--122348	27	2.4	27	76	14	73	45	3	0	51	1.16
122307--122357	16	3.1	16	74	20	52	47	1	0	50	1.12
124089--124913	183	4.6	176	75	12	672	41	10	9	38	1.72
125546--125588	22	1.9	23	85	4	61	23	6	13	55	1.62
125917--125954	20	1.9	20	88	0	58	36	0	0	63	0.95
127114--127145	2	16.0	2	100	0	64	50	0	0	50	1.00
128155--128194	2	20.0	2	100	0	80	50	0	0	50	1.00
128788--128834	20	2.4	20	86	10	62	38	0	0	61	0.96
130006--130052	21	2.3	21	82	13	62	38	0	0	61	0.96
131834--131891	16	3.7	16	74	4	64	58	0	5	36	1.20
132647--132707	27	2.2	28	83	13	83	45	0	0	54	1.00
132656--132715	18	3.5	18	75	25	58	48	0	0	51	1.00
132648--132715	32	2.1	32	83	10	84	47	0	0	52	1.00
134210--134270	25	2.5	25	83	2	79	67	0	0	32	0.91
135186--135264	32	2.5	33	91	6	128	26	11	27	34	1.91
136442--136492	18	2.7	19	81	3	68	49	0	5	45	1.26
139544--139594	16	3.1	16	76	21	52	49	1	0	49	1.12
140017--140047	2	16.0	2	93	6	55	51	0	0	48	1.00
141627--141673	21	2.2	21	85	10	69	29	2	0	68	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
144028--144068	20	2.1	19	90	4	64	60	0	4	34	1.18
155804--155884	40	2.0	40	85	0	108	46	6	1	45	1.35
157898--157943	18	2.6	18	100	0	92	50	4	0	45	1.21
157898--157950	18	3.1	17	94	5	81	49	3	0	47	1.19
157899--157957	6	9.8	6	73	26	54	49	3	0	47	1.18
160682--160760	39	2.0	39	97	0	149	27	17	18	35	1.94
161464--161508	17	2.8	17	86	6	58	44	0	0	55	0.99
161540--161584	14	3.2	13	82	14	54	55	0	0	44	0.99
161561--161623	33	1.9	32	84	9	83	52	0	0	47	1.00
161561--161622	31	2.0	32	84	9	83	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9