genome.fa.s196.2.7.7.80.10.50.1000.33.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  33  of  47  ( 5587 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)
5414033--5414235	101	2.0	101	92	0	334	29	26	14	30	1.95
5417123--5417173	27	1.9	26	88	4	75	41	5	1	50	1.37
5417248--5417280	17	1.9	17	100	0	66	27	12	0	60	1.32
5419595--5419753	42	4.0	42	73	17	176	27	14	16	42	1.87
5419575--5419730	75	2.1	75	100	0	312	26	12	19	41	1.88
5432410--5432458	25	1.9	26	91	4	82	28	20	10	40	1.85
5433649--5433820	90	1.9	90	85	2	238	34	19	6	38	1.79
5435597--5435645	24	2.0	24	100	0	98	30	4	12	53	1.57
5439578--5439642	28	2.4	26	84	5	76	36	10	18	33	1.86
5440583--5440621	18	2.1	19	90	4	62	51	0	0	48	1.00
5445069--5445098	2	15.0	2	100	0	60	50	0	0	50	1.00
5445125--5445162	2	19.0	2	100	0	76	50	0	0	50	1.00
5447016--5447073	31	1.9	30	86	10	82	32	1	0	65	1.03
5447444--5447496	24	2.3	23	78	15	56	60	1	1	35	1.19
5450291--5450324	5	6.8	5	87	12	52	82	0	17	0	0.67
5452788--5452842	19	3.1	19	75	17	55	56	10	3	29	1.51
5454831--5454870	19	2.1	19	90	0	62	27	17	12	42	1.85
5456309--5456341	2	16.5	2	100	0	66	51	0	48	0	1.00
5457353--5457411	29	2.1	27	81	12	66	28	6	6	57	1.50
5457402--5457483	30	2.7	30	88	0	119	32	1	6	59	1.30
5458131--5458174	21	2.1	21	83	8	54	54	2	0	43	1.12
5461221--5461247	6	4.5	6	100	0	54	66	18	14	0	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5461427--5461451	4	6.2	4	100	0	50	72	0	28	0	0.86
5461456--5461480	13	1.9	13	100	0	50	44	8	16	32	1.76
5463441--5463487	3	15.7	3	95	0	85	65	2	31	0	1.04
5467713--5467767	8	6.5	8	77	10	56	60	0	0	40	0.97
5468149--5468196	21	2.3	20	82	6	60	54	2	0	43	1.12
5470292--5470365	28	2.7	27	76	17	71	48	0	0	51	1.00
5470340--5470415	18	4.4	17	71	18	59	50	2	0	47	1.15
5470411--5470451	20	2.0	20	85	9	55	46	0	0	53	1.00
5470847--5470934	11	8.1	11	72	15	67	65	0	0	34	0.93
5470848--5470913	24	2.8	24	82	13	68	69	0	0	30	0.88
5470847--5470923	33	2.3	33	78	12	79	67	0	0	32	0.91
5471567--5471636	7	10.1	7	69	9	54	48	2	0	48	1.16
5471560--5471631	20	3.6	20	74	9	58	48	2	0	48	1.16
5471560--5471636	35	2.3	34	78	12	88	49	2	0	48	1.15
5471567--5471665	27	3.8	25	78	13	87	46	2	2	49	1.24
5471601--5471665	20	3.0	21	84	6	69	46	0	3	50	1.17
5471593--5471673	23	3.4	23	79	12	85	44	0	3	51	1.19
5475356--5475386	2	15.5	2	100	0	62	51	0	0	48	1.00
5478715--5478762	21	2.2	22	82	14	55	43	4	2	50	1.33
5490217--5490257	21	2.0	21	85	9	57	41	0	4	53	1.22
5490323--5490367	19	2.2	21	74	22	51	48	4	0	46	1.22
5490669--5490730	20	3.1	19	80	17	56	30	1	1	66	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5491121--5491336	113	1.9	113	82	8	269	43	6	6	43	1.56
5495257--5495704	79	5.7	79	77	4	422	27	24	14	33	1.94
5495238--5495685	157	2.9	156	81	4	474	27	23	13	34	1.93
5495663--5495749	28	3.0	28	80	11	104	25	22	17	34	1.96
5495584--5495811	107	2.1	108	84	1	289	28	23	15	32	1.95
5495690--5496024	79	4.3	78	82	6	381	28	24	13	33	1.93
5495509--5495893	186	2.1	184	82	4	470	28	23	15	33	1.94
5495350--5495999	342	1.9	342	86	3	941	28	23	14	33	1.94
5495691--5495988	157	1.9	158	83	6	390	28	24	13	33	1.93
5495690--5496021	157	2.1	158	81	7	381	28	24	13	33	1.93
5496257--5496308	23	2.3	23	75	18	54	17	5	13	63	1.48
5499855--5499906	4	13.0	4	100	0	104	75	0	0	25	0.81
5501658--5501696	18	2.1	18	85	4	51	43	10	20	25	1.83
5502802--5503040	52	4.7	50	89	2	282	40	12	14	31	1.84
5502925--5503015	30	3.4	30	63	28	85	36	15	16	31	1.90
5502851--5503040	50	3.8	50	92	2	292	41	13	14	30	1.84
5502851--5503040	102	1.9	99	89	3	290	41	13	14	30	1.84
5503097--5503150	20	2.6	21	91	2	83	29	16	12	40	1.86
5503258--5503296	21	1.9	20	89	5	60	28	15	20	35	1.93
5503118--5503270	70	2.2	70	95	0	270	30	16	14	37	1.89
5510094--5510177	28	3.0	28	62	16	66	27	26	21	25	1.99
5509880--5510323	61	7.3	60	83	7	524	25	26	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5510369--5510724	60	6.0	60	81	7	406	25	28	19	25	1.99
5509969--5511108	391	2.9	386	84	8	1331	25	27	19	27	1.99
5510783--5510869	26	3.2	27	67	13	70	26	26	18	28	1.98
5510754--5511172	61	6.9	61	86	6	489	25	26	19	28	1.99
5511156--5511452	43	6.7	43	79	9	276	20	28	12	38	1.89
5511156--5511452	89	3.3	89	79	8	318	20	28	12	38	1.89
5511726--5511800	20	3.8	20	94	0	132	26	17	13	42	1.86
5511727--5511820	40	2.3	40	87	3	127	27	17	12	42	1.85
5514103--5514220	51	2.3	51	85	2	166	32	26	12	28	1.93
5514155--5514453	79	3.8	78	81	6	334	28	24	14	32	1.94
5514155--5514461	157	1.9	158	83	4	397	27	25	14	32	1.95
5515891--5515968	32	2.4	33	78	6	97	32	14	11	42	1.81
5517833--5517860	13	2.2	13	100	0	56	28	14	17	39	1.89
5517813--5517878	33	2.0	33	88	5	98	30	15	13	40	1.85
5523822--5523908	16	5.3	16	73	5	75	18	14	26	40	1.89
5523856--5523932	34	2.3	34	97	0	145	19	15	24	40	1.90
5524245--5524291	14	3.4	14	72	21	53	25	8	2	63	1.34
5524236--5524291	28	2.0	28	96	0	103	23	10	5	60	1.50
5535768--5535843	28	2.8	28	83	2	82	22	21	34	22	1.97
5535849--5536160	52	5.9	52	69	14	174	33	12	24	29	1.92
5535970--5536051	27	3.0	28	82	10	98	26	21	29	21	1.99
5538525--5538550	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5538504--5538570	33	2.0	33	85	0	89	43	14	14	26	1.85
5538975--5539060	38	2.3	38	93	0	145	36	3	26	33	1.74
5539576--5539638	32	1.9	33	87	3	92	30	17	12	39	1.87
5547005--5547083	39	2.0	39	85	4	106	21	21	16	40	1.91
5548409--5548442	16	2.1	17	88	5	52	64	5	2	26	1.30
5548502--5548548	6	8.0	6	79	13	53	34	4	2	59	1.29
5549053--5549090	15	2.4	17	78	17	53	68	7	0	23	1.16
5549049--5549099	26	2.0	26	84	7	68	68	5	3	21	1.27
5549737--5549772	18	2.0	18	88	0	54	50	11	5	33	1.61
5549755--5549862	41	2.6	41	83	2	128	47	13	6	32	1.69
5553674--5553741	32	2.1	32	81	10	84	54	2	1	41	1.24
5556789--5556839	19	2.6	20	87	3	68	60	1	0	37	1.08
5556783--5556834	24	2.2	24	85	0	68	63	1	1	32	1.16
5557997--5558043	20	2.4	20	85	3	69	51	0	0	48	1.00
5557995--5558076	22	3.6	23	69	18	73	50	0	0	50	1.00
5558021--5558063	14	3.1	14	76	3	52	51	0	0	48	1.00
5559836--5559867	13	2.3	15	89	10	50	65	0	3	31	1.08
5563531--5563736	79	2.6	77	81	7	218	31	14	27	27	1.95
5566046--5566094	22	2.2	22	100	0	98	67	8	8	16	1.40
5567010--5567084	20	3.8	20	80	3	80	40	12	13	34	1.81
5567007--5567084	40	2.0	39	87	2	111	39	12	12	34	1.82
5567515--5567854	32	10.9	32	86	5	444	16	18	34	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5567515--5568267	64	11.7	64	88	5	1047	15	18	34	31	1.92
5567525--5568267	96	7.7	96	88	6	1029	15	18	34	31	1.92
5567681--5567727	24	2.0	24	100	0	94	10	25	38	25	1.88
5567811--5567897	43	2.0	43	100	0	174	13	16	37	32	1.88
5567854--5568267	32	13.0	32	95	0	704	14	17	35	32	1.91
5568259--5569033	27	28.0	27	88	4	1091	29	14	33	23	1.94
5568259--5569033	55	14.0	54	88	4	1091	29	14	33	23	1.94
5568259--5569033	82	9.4	82	88	5	1103	29	14	33	23	1.94
5568788--5568860	35	2.1	36	94	2	130	26	10	38	24	1.88
5576542--5576590	22	2.2	22	100	0	98	67	8	8	16	1.40

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47