genome.fa.s7.2.7.7.80.10.50.1000.31.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  31  of  37  ( 4421 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)
5396271--5396320	11	4.5	11	77	22	59	0	18	0	82	0.68
5396775--5397429	165	4.0	164	82	6	723	51	7	11	29	1.65
5396661--5397436	330	2.3	330	79	7	863	51	7	11	30	1.65
5401285--5401314	2	15.0	2	100	0	60	50	0	0	50	1.00
5402444--5402487	18	2.5	18	79	17	56	79	4	2	13	0.98
5402863--5402904	3	14.0	3	100	0	84	66	0	0	33	0.92
5404424--5404482	2	29.5	2	100	0	118	49	0	0	50	1.00
5404640--5404692	2	26.5	2	100	0	106	49	0	0	50	1.00
5404424--5404889	209	2.2	210	95	0	835	39	11	8	40	1.72
5404853--5404895	10	4.3	10	84	0	59	41	4	0	53	1.21
5404853--5404895	20	2.2	20	95	0	77	41	4	0	53	1.21
5406394--5406486	29	3.2	29	70	10	91	47	15	10	26	1.78
5409252--5409580	157	2.1	159	88	5	488	51	9	19	20	1.73
5409448--5409487	20	2.1	20	86	9	57	65	2	20	12	1.38
5411494--5411558	33	2.0	33	90	6	105	36	13	15	33	1.87
5413003--5413045	20	2.1	21	91	4	70	34	13	11	39	1.82
5415422--5415984	79	7.2	75	71	15	299	25	26	15	32	1.95
5415573--5415688	51	2.3	51	87	0	169	31	25	12	30	1.93
5415672--5415748	28	2.8	28	85	0	109	22	33	19	24	1.97
5415700--5416001	79	3.8	79	85	3	385	26	26	14	32	1.95
5415624--5415824	107	1.9	107	85	0	276	26	27	15	30	1.96
5417438--5417471	9	3.8	9	88	11	52	44	0	26	29	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5422018--5422044	13	2.1	13	100	0	54	29	14	14	40	1.86
5422482--5422526	20	2.2	20	84	8	54	22	37	24	15	1.93
5424563--5424589	13	2.1	13	100	0	54	29	14	14	40	1.86
5424659--5424756	33	3.0	32	83	5	117	35	13	16	34	1.87
5427457--5427538	9	9.0	9	73	18	55	76	1	9	12	1.07
5431406--5431447	22	1.9	22	90	9	68	38	0	0	61	0.96
5431194--5431714	250	2.1	256	87	6	749	44	6	4	43	1.52
5431662--5431703	22	1.9	22	90	9	68	38	0	0	61	0.96
5431828--5431878	15	3.2	16	75	8	50	52	7	1	37	1.42
5432254--5432296	21	2.1	20	95	4	77	48	4	0	46	1.22
5432824--5432868	19	2.3	20	80	3	56	53	4	0	42	1.21
5433182--5433220	20	2.0	19	85	5	51	56	0	2	41	1.13
5434054--5434112	20	3.0	19	78	7	73	38	11	10	38	1.76
5441141--5441341	52	3.9	52	94	1	332	29	17	18	33	1.94
5441330--5441354	13	1.9	13	100	0	50	36	16	16	32	1.90
5441417--5441441	13	1.9	13	100	0	50	32	16	16	36	1.90
5441499--5441540	21	2.0	21	90	0	66	35	14	14	35	1.86
5444782--5444823	21	2.0	21	86	4	59	73	2	11	11	1.18
5444760--5444820	22	2.8	22	76	20	58	70	8	13	8	1.33
5446026--5446280	28	9.2	28	80	2	165	29	32	14	24	1.94
5446163--5446735	28	20.6	28	82	7	623	28	31	16	23	1.96
5446174--5446728	113	5.0	113	79	9	595	29	31	15	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5446149--5446735	85	7.0	85	83	6	643	29	31	16	23	1.96
5446173--5446656	188	2.5	189	82	7	568	28	31	15	23	1.96
5446226--5446699	245	1.9	245	89	2	729	29	31	16	23	1.96
5446483--5446769	28	9.9	30	81	11	174	29	29	17	23	1.97
5447540--5447595	20	2.8	20	83	5	69	33	14	14	37	1.86
5451062--5451122	21	2.9	21	92	0	95	50	13	4	31	1.62
5452148--5452177	14	2.1	15	93	6	53	43	16	20	20	1.88
5453655--5453727	20	3.6	20	81	3	101	35	13	19	31	1.91
5453673--5453748	21	3.7	21	78	3	91	40	11	17	30	1.85
5453655--5453748	41	2.3	41	96	0	170	38	12	18	30	1.88
5453769--5453831	19	3.6	19	76	24	84	36	15	19	28	1.92
5453787--5453844	13	4.0	13	76	23	62	37	15	17	29	1.90
5453769--5453844	32	2.4	32	100	0	152	36	15	18	28	1.92
5458069--5458212	72	2.0	72	100	0	288	26	5	33	34	1.80
5459231--5459303	20	3.6	20	81	3	101	35	13	19	31	1.91
5459249--5459324	21	3.7	21	78	3	91	40	11	17	30	1.85
5459231--5459324	41	2.3	41	96	0	170	38	12	18	30	1.88
5459345--5459407	19	3.6	19	76	24	84	36	15	19	28	1.92
5459363--5459420	13	4.0	13	76	23	62	37	15	17	29	1.90
5459345--5459420	32	2.4	32	100	0	152	36	15	18	28	1.92
5463365--5463699	171	2.0	172	83	4	428	34	12	13	40	1.82
5472820--5472856	15	2.5	15	95	0	65	10	43	35	10	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5474992--5475017	2	13.0	2	100	0	52	50	0	0	50	1.00
5476928--5476975	25	1.9	25	91	8	80	37	0	0	62	0.95
5477494--5477547	26	2.1	26	89	3	83	74	0	5	20	1.02
5479217--5479279	31	2.0	31	93	0	108	34	17	4	42	1.70
5480182--5480252	37	1.9	37	94	5	126	35	14	11	39	1.81
5480504--5480689	59	3.2	57	76	9	178	44	11	11	32	1.78
5481117--5481179	6	10.7	6	71	21	53	50	3	0	46	1.17
5481109--5481195	16	5.4	16	71	18	56	52	3	0	43	1.18
5481466--5481512	23	2.0	23	87	0	67	44	2	2	51	1.25
5481697--5481742	20	2.2	20	85	11	58	54	0	0	45	0.99
5481727--5481767	21	2.0	21	95	0	73	46	0	2	51	1.14
5481755--5481787	16	2.1	16	88	5	50	63	0	0	36	0.95
5481797--5481854	22	2.4	25	77	8	68	50	0	1	48	1.11
5485872--5485899	2	14.0	2	100	0	56	0	0	50	50	1.00
5488342--5488390	2	24.5	2	91	0	80	44	0	0	55	0.99
5488500--5488532	2	16.5	2	93	0	57	45	0	3	51	1.16
5490813--5490862	3	16.7	3	100	0	100	32	0	0	68	0.90
5492737--5492762	13	2.0	13	100	0	52	30	15	15	38	1.88
5495318--5495343	13	2.0	13	100	0	52	38	15	15	30	1.88
5501518--5501543	13	2.0	13	100	0	52	30	15	15	38	1.88
5502143--5502187	21	2.1	21	100	0	90	35	13	17	33	1.89
5502929--5502991	33	1.9	33	87	6	92	28	15	15	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5503064--5503088	13	1.9	13	100	0	50	32	16	16	36	1.90
5503045--5503109	32	2.0	32	85	8	87	38	13	15	32	1.87
5506486--5506511	13	2.0	13	100	0	52	30	15	15	38	1.88
5506466--5506529	32	2.0	33	87	3	94	28	14	17	40	1.88
5509061--5509098	13	2.9	13	96	0	67	31	15	18	34	1.92
5511182--5511212	15	2.1	15	93	0	53	12	22	16	48	1.80
5515278--5515303	13	2.0	13	100	0	52	30	15	15	38	1.88
5515258--5515319	32	1.9	33	86	3	90	27	12	17	41	1.86
5519897--5519953	19	2.9	20	78	5	71	31	12	14	42	1.82
5519940--5519964	13	1.9	13	100	0	50	32	8	16	44	1.76
5520330--5520381	20	2.6	20	87	6	70	38	17	17	26	1.92
5520349--5520394	20	2.3	20	85	7	58	41	15	13	30	1.85
5522251--5522308	20	2.9	20	97	0	107	41	10	18	29	1.84
5526817--5526873	19	2.9	19	81	2	69	35	17	12	35	1.87
5526923--5526947	13	1.9	13	100	0	50	36	16	16	32	1.90
5526936--5526988	20	2.7	20	100	0	106	37	11	15	35	1.83
5528544--5528576	15	2.2	15	94	0	57	42	0	27	30	1.56
5535683--5535707	13	1.9	13	100	0	50	36	16	16	32	1.90
5535663--5535727	33	2.0	33	84	6	87	35	16	16	30	1.92
5539212--5539256	21	2.1	21	95	0	81	51	8	11	28	1.68
5539842--5539868	13	2.1	13	100	0	54	29	14	14	40	1.86
5539852--5539908	19	2.9	19	89	2	87	31	15	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5544033--5544077	14	2.9	15	83	12	56	84	6	4	4	0.87
5544032--5544080	23	2.1	23	84	0	62	85	6	4	4	0.81
5545354--5545486	35	3.6	35	68	18	88	19	22	14	43	1.87
5545434--5545507	35	2.1	35	82	0	85	20	21	14	43	1.88
5545354--5545532	78	2.3	79	85	6	249	19	22	14	43	1.88
5545554--5545668	36	3.3	34	83	9	117	24	26	11	38	1.89
5545777--5546101	128	2.5	127	80	6	359	30	28	22	18	1.97
5545934--5546000	31	2.2	31	88	0	98	29	29	26	13	1.94
5547206--5547423	98	2.2	98	86	0	319	31	13	27	27	1.94
5549541--5549696	71	2.2	71	85	3	208	41	12	16	29	1.85

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