genome.fa.s298.2.7.7.80.10.50.1000.1.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: Scaffold298
Parameters: 2 7 7 80 10 50 1000
Length:  1060864

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 780 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)
15262--15302	11	3.5	11	81	12	55	31	0	0	68	0.90
15255--15312	24	2.4	24	91	2	89	32	0	0	67	0.91
15263--15305	12	3.6	12	75	12	52	30	0	0	69	0.88
15475--15505	12	2.6	12	94	0	53	35	0	0	64	0.94
15599--15645	22	2.1	23	88	4	69	65	4	0	29	1.11
15895--15958	14	4.6	14	79	9	69	34	1	0	64	1.03
15895--15969	28	2.7	28	87	6	100	34	2	0	62	1.09
15891--15959	13	5.4	13	73	20	56	33	1	0	65	1.02
15920--15979	28	2.1	28	84	0	75	40	3	1	55	1.27
16907--17055	76	2.0	76	91	0	244	22	14	21	42	1.88
17369--17416	2	24.0	2	91	0	51	50	10	0	39	1.37
18100--18138	11	3.5	11	86	10	53	79	0	2	17	0.84
18737--18765	11	2.6	11	100	0	58	31	10	0	58	1.31
22821--22865	2	22.5	2	100	0	90	48	0	0	51	1.00
23080--23151	31	2.3	31	92	0	117	38	16	12	31	1.86
29872--29925	14	3.8	14	82	7	56	35	1	0	62	1.06
29946--29999	20	2.7	19	77	8	54	48	3	1	46	1.30
30021--30054	16	2.1	17	88	5	52	64	0	0	35	0.94
30011--30073	25	2.6	23	78	14	65	57	0	1	41	1.08
30516--30578	5	13.0	5	73	17	53	58	3	1	36	1.23
31214--31272	23	2.8	20	74	18	57	55	0	0	44	0.99
31224--31270	23	2.0	23	83	4	58	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31553--31593	17	2.4	17	87	0	64	43	2	0	53	1.13
31828--31857	10	3.1	10	95	4	53	0	6	0	93	0.35
32554--32596	19	2.3	19	87	0	59	60	0	2	37	1.10
42923--42977	23	2.4	23	81	3	76	52	1	1	43	1.22
43226--43457	121	1.9	122	93	2	403	50	8	6	34	1.59
51860--51925	3	21.7	3	87	3	96	63	3	0	33	1.10
56240--56297	24	2.5	23	77	5	64	53	0	0	46	1.00
57553--57582	15	2.0	15	93	0	51	83	0	16	0	0.65
57571--57621	25	2.0	25	100	0	102	52	11	15	19	1.73
60550--60583	16	2.3	14	90	10	50	35	0	0	64	0.94
60596--60642	23	2.0	24	83	4	60	36	6	0	57	1.24
60750--60790	22	1.9	22	90	5	66	39	4	2	53	1.35
60950--61000	12	4.1	12	84	5	57	29	0	3	66	1.09
61100--61129	15	2.0	15	93	0	51	46	3	6	43	1.46
61669--61713	17	2.8	17	83	12	51	51	0	0	48	1.00
63180--63225	22	2.0	22	84	12	58	58	2	0	39	1.10
64097--64151	16	3.4	17	75	10	51	54	0	5	40	1.23
64152--64225	23	3.1	23	80	9	78	66	1	1	31	1.09
64474--64558	29	3.0	28	84	8	93	44	1	0	54	1.07
64432--64532	23	4.3	23	67	24	68	42	0	0	56	1.06
64485--64542	22	2.6	22	83	0	71	44	0	0	55	0.99
64469--64565	51	1.9	51	83	12	128	41	1	1	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64540--64588	16	3.0	16	77	16	64	38	8	2	51	1.43
64540--64590	17	3.1	17	71	23	54	39	7	1	50	1.42
64511--64588	29	2.5	32	83	8	81	41	5	1	52	1.32
65535--65569	16	2.1	17	94	5	63	37	11	0	51	1.38
65830--65876	19	2.3	21	82	7	62	36	6	2	55	1.37
66116--66141	2	13.0	2	100	0	52	50	0	50	0	1.00
67028--67053	13	2.0	13	100	0	52	15	38	7	38	1.76
70947--70976	15	2.0	15	93	0	51	76	0	0	23	0.78
71006--71046	13	3.2	13	82	6	57	56	0	0	43	0.99
80119--80155	10	3.2	12	81	18	51	21	5	2	70	1.20
81619--81709	47	1.9	47	82	4	112	39	1	2	57	1.18
81699--81732	16	2.2	15	89	5	50	61	2	0	35	1.11
82976--83130	79	1.9	82	82	14	194	55	1	1	41	1.16
83423--83447	11	2.3	11	100	0	50	72	0	0	28	0.86
83451--83534	20	4.2	20	69	11	64	57	0	0	42	0.99
83479--83527	14	3.2	14	76	20	53	48	0	0	51	1.00
83464--83527	32	2.0	33	87	3	94	53	0	0	46	1.00
85739--85853	38	2.9	39	77	11	126	45	0	0	53	1.06
85810--85862	24	2.2	24	86	0	70	37	0	0	62	0.96
87415--87461	25	1.9	24	82	4	58	72	10	10	6	1.28
87414--87467	25	2.3	23	73	14	56	75	9	9	5	1.17
90070--90114	21	2.2	20	85	11	65	20	15	17	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92917--92987	27	2.6	27	80	6	81	46	21	7	25	1.76
97370--97407	20	1.9	20	88	0	58	34	18	10	36	1.85
99942--99982	21	2.0	21	85	0	55	34	0	7	58	1.26
102356--102391	14	2.6	14	95	0	63	27	0	2	69	1.02
106073--106134	21	2.9	21	77	18	65	40	6	1	51	1.37
107843--107894	27	2.0	26	81	11	61	53	0	0	46	1.00
108089--108121	16	2.0	17	94	5	59	54	6	0	39	1.25
110098--110155	27	2.1	27	90	0	89	39	6	6	46	1.57
111376--111434	31	1.9	31	86	3	84	40	0	0	59	0.97
111391--111427	19	2.0	18	89	5	56	40	0	0	59	0.97
111402--111485	22	3.8	21	69	20	64	41	0	0	58	0.98
111472--111513	21	2.0	21	86	9	59	61	0	0	38	0.96
111479--111524	19	2.4	18	86	13	65	54	0	0	45	0.99
117670--117713	22	1.9	24	90	9	74	45	0	0	54	0.99
117970--117996	2	13.5	2	100	0	54	51	0	0	48	1.00
118864--118898	13	2.6	14	86	13	56	60	0	0	40	0.97
120997--121053	19	3.0	19	82	10	55	57	1	1	38	1.19
121017--121065	24	2.0	24	84	7	64	55	2	2	40	1.23
124158--124187	8	3.6	8	91	8	51	83	0	0	16	0.65
126437--126488	23	2.3	23	80	6	61	44	1	3	50	1.31
127120--127189	28	2.6	27	73	13	72	25	7	5	61	1.44
128423--128476	20	2.9	18	82	12	65	59	1	0	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
128807--128843	3	12.3	3	100	0	74	67	0	0	32	0.91
129082--129124	2	21.5	2	100	0	86	48	0	0	51	1.00
135051--135098	18	2.7	18	75	15	55	52	4	0	43	1.20
135051--135100	19	2.8	19	71	22	54	52	4	0	44	1.20
136652--136706	28	1.9	28	82	10	67	56	3	9	30	1.48
139179--139237	24	2.4	23	81	13	64	54	1	1	42	1.20
139203--139235	14	2.4	14	94	0	57	54	0	0	45	0.99
140159--140216	25	2.2	28	84	9	77	36	3	0	60	1.14
140159--140217	14	4.5	13	76	18	59	35	3	0	61	1.13
142271--142300	15	2.0	15	93	0	51	56	0	0	43	0.99
142288--142324	19	1.9	19	88	0	56	67	0	0	32	0.91
146058--146140	39	2.2	38	80	6	98	56	0	0	43	0.99
146074--146130	27	2.1	27	83	6	71	50	0	0	49	1.00
150602--150674	30	2.4	30	75	6	76	65	4	0	30	1.11
150686--150728	21	2.0	23	81	9	54	46	2	2	48	1.27
154538--154619	24	2.9	30	68	20	86	60	6	9	23	1.50
154512--154619	54	2.0	56	87	3	157	58	5	8	27	1.50
156360--156403	19	2.2	21	88	8	65	54	2	0	43	1.12
157316--157354	20	2.0	20	85	10	53	48	0	0	51	1.00
157727--157840	33	3.7	32	77	15	107	42	0	0	56	1.05
157727--157801	32	2.3	33	86	6	109	45	0	0	54	0.99
157727--157802	17	4.6	17	70	23	65	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
157727--157808	15	4.9	18	68	23	63	43	0	0	56	0.99
157766--157857	48	1.9	47	82	10	116	39	1	0	59	1.04
157726--157843	18	6.3	19	66	21	63	41	0	0	57	1.04
157799--157841	21	2.0	21	86	8	61	37	2	0	60	1.10
159160--159206	22	2.2	22	84	3	60	53	2	8	36	1.44
160085--160125	19	2.2	18	86	4	55	43	0	0	56	0.99
161667--161712	22	2.1	21	88	4	65	71	0	0	28	0.86
162092--162178	32	2.7	33	70	12	81	49	2	3	44	1.31
163953--164015	17	3.5	17	70	16	54	61	0	1	36	1.05
163949--164037	38	2.3	38	83	9	110	57	0	1	41	1.06

Tables:   1   2   3   4   5   6   7