genome.fa.s196.2.7.7.80.10.50.1000.29.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  29  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)
4723031--4723893	159	5.4	156	67	13	488	37	13	17	31	1.89
4722972--4726386	318	11.1	318	68	12	1628	37	13	16	31	1.89
4721269--4726810	611	9.0	610	84	3	6573	36	13	16	32	1.89
4726649--4726970	155	2.1	157	86	4	445	35	13	18	32	1.90
4727394--4727715	159	2.0	159	86	4	454	35	14	18	31	1.91
4728150--4728485	159	2.1	159	86	2	462	34	14	18	31	1.91
4727002--4729088	770	2.7	771	89	2	3147	36	14	16	32	1.89
4729833--4730168	159	2.1	159	87	2	480	33	14	18	33	1.91
4729260--4730673	768	1.9	753	83	4	1868	35	14	16	32	1.89
4731942--4732035	49	1.9	49	95	0	170	40	11	19	28	1.86
4732168--4733356	612	1.9	610	84	3	1568	37	13	17	31	1.89
4733054--4733686	326	1.9	327	88	2	950	37	14	16	30	1.90
4738208--4738543	159	2.1	159	86	1	451	35	15	17	31	1.91
4738208--4738588	159	2.4	159	82	3	394	37	14	16	31	1.90
4739012--4739652	318	2.0	317	86	1	881	36	13	17	32	1.89
4739906--4740241	159	2.1	158	86	2	460	34	14	19	32	1.91
4739906--4740298	159	2.5	158	80	4	400	34	14	18	32	1.91
4742714--4742739	13	2.0	13	100	0	52	30	15	15	38	1.88
4742694--4742757	32	2.0	33	90	3	103	28	14	15	42	1.86
4742809--4742864	20	2.8	20	89	5	78	28	17	16	37	1.91
4745284--4745308	13	1.9	13	100	0	50	32	16	16	36	1.90
4747391--4747421	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4751484--4751509	13	2.0	13	100	0	52	30	15	15	38	1.88
4751464--4751527	32	2.0	33	90	3	103	28	14	15	42	1.86
4751579--4751634	20	2.8	20	89	5	78	28	17	16	37	1.91
4758004--4758060	27	2.1	27	96	0	105	43	21	7	28	1.78
4760414--4760564	81	1.9	80	82	9	191	44	16	6	32	1.74
4762056--4762080	13	1.9	13	100	0	50	36	16	16	32	1.90
4774997--4775203	79	2.6	79	80	3	220	27	16	30	24	1.97
4775077--4775280	107	1.9	109	84	9	276	29	14	28	27	1.95
4775214--4775383	52	3.3	50	78	6	171	31	12	27	28	1.93
4775315--4775494	80	2.3	79	84	4	229	29	16	28	25	1.96
4775447--4775524	27	2.9	27	88	5	113	24	19	33	23	1.97
4775505--4775622	51	2.4	49	81	13	136	33	11	24	31	1.90
4777905--4777930	13	2.0	13	100	0	52	38	15	15	30	1.88
4777884--4777950	34	2.0	33	91	2	107	44	13	16	25	1.84
4777973--4777997	13	1.9	13	100	0	50	32	16	16	36	1.90
4778796--4779764	55	17.0	55	84	9	977	24	20	29	25	1.99
4778922--4779787	60	14.9	59	85	9	1029	24	20	29	25	1.99
4778796--4779764	235	4.2	230	87	7	1248	24	20	29	25	1.99
4778796--4779787	175	5.7	174	83	9	1173	24	20	29	25	1.99
4778800--4779795	410	2.5	403	85	7	1322	24	20	29	25	1.99
4780758--4780839	1	82.0	1	75	0	74	1	3	7	87	0.69
4780757--4780839	22	3.6	22	78	12	87	2	3	7	86	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4780758--4780839	30	2.7	30	87	5	112	1	3	7	87	0.69
4784801--4784826	13	2.0	13	100	0	52	30	15	15	38	1.88
4789455--4789485	15	2.1	15	93	0	53	12	22	16	48	1.80
4791278--4791322	21	2.1	21	84	8	56	22	20	4	53	1.63
4795079--4795143	20	3.6	20	71	26	72	36	12	18	32	1.88
4795099--4795124	13	2.0	13	100	0	52	38	15	15	30	1.88
4795078--4795143	33	2.0	33	96	0	123	37	12	18	31	1.87
4795102--4795165	21	3.1	21	72	4	76	37	15	15	31	1.89
4797522--4797546	13	1.9	13	100	0	50	32	20	16	32	1.94
4797600--4797650	20	2.5	20	84	6	68	35	11	17	35	1.87
4800035--4800084	21	2.2	23	86	10	68	42	16	20	22	1.89
4801232--4801306	20	3.8	20	78	0	87	34	13	12	40	1.81
4801232--4801309	40	2.0	39	87	2	111	34	12	12	39	1.82
4802221--4802269	24	2.1	22	92	7	80	14	6	8	71	1.29
4810312--4810352	21	2.0	22	85	9	59	31	24	0	43	1.54
4816999--4817043	23	2.0	23	95	0	81	24	13	26	35	1.92
4816987--4817065	23	3.4	23	82	0	77	25	16	25	32	1.96
4821287--4821403	57	2.1	57	95	0	207	40	12	10	36	1.78
4822055--4823203	159	7.3	159	74	9	724	32	18	11	37	1.87
4823585--4823736	81	1.9	80	87	4	225	42	17	7	33	1.76
4824701--4824746	22	2.2	22	85	11	62	13	21	4	60	1.49
4828135--4828188	20	2.7	20	91	0	81	38	18	12	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4828216--4828270	20	2.8	19	91	5	92	36	18	12	32	1.88
4828259--4828283	13	1.9	13	100	0	50	40	20	16	24	1.91
4828240--4828302	33	1.9	32	90	3	99	39	17	15	26	1.90
4830817--4830881	20	3.6	20	71	26	72	36	12	18	32	1.88
4830837--4830862	13	2.0	13	100	0	52	38	15	15	30	1.88
4830816--4830881	33	2.0	33	96	0	123	37	12	18	31	1.87
4830840--4830903	21	3.1	21	72	4	76	37	15	15	31	1.89
4833338--4833365	13	2.2	13	100	0	56	32	14	14	39	1.86
4835773--4835822	21	2.2	23	86	10	68	42	16	20	22	1.89
4836970--4837044	20	3.8	20	78	0	87	34	13	12	40	1.81
4836970--4837047	40	2.0	39	87	2	111	34	12	12	39	1.82
4837959--4838007	24	2.1	22	92	7	80	14	6	8	71	1.29
4846048--4846088	21	2.0	22	85	9	59	31	24	0	43	1.54
4848542--4848605	13	5.4	13	78	21	86	32	14	15	37	1.87
4848526--4848625	33	3.0	33	95	2	175	32	13	18	37	1.88
4848558--4848626	20	3.8	20	75	25	89	33	11	18	36	1.87
4851164--4851197	9	3.8	9	88	11	52	29	26	0	44	1.55
4852782--4852834	13	4.5	13	73	26	64	39	16	13	30	1.87
4856109--4856134	13	2.0	13	100	0	52	30	15	15	38	1.88
4856802--4857284	49	9.7	49	75	8	363	32	14	25	26	1.95
4857301--4857966	28	23.5	29	79	8	642	21	17	28	32	1.96
4857301--4857966	57	11.8	57	82	6	626	21	17	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4858337--4858421	37	2.3	37	100	0	170	43	15	15	25	1.86
4859442--4859498	16	3.4	16	83	11	62	0	8	5	85	0.72
4859442--4859498	24	2.3	26	84	6	82	0	8	5	85	0.72
4859456--4859497	21	2.0	21	90	4	66	0	11	2	85	0.68
4867879--4867903	12	2.1	12	100	0	50	36	8	24	32	1.84
4868114--4868441	163	2.0	163	100	0	656	24	26	21	27	1.99
4873750--4873781	14	2.3	14	100	0	64	34	21	6	37	1.79
4874135--4874209	19	3.8	20	85	5	98	38	16	14	30	1.88
4875658--4875694	19	2.1	18	90	10	58	37	0	5	56	1.22
4875661--4875702	18	2.3	19	84	12	52	47	0	4	47	1.23
4875995--4876027	2	16.5	2	100	0	66	48	0	0	51	1.00
4876552--4876598	4	11.8	4	80	8	51	17	4	4	74	1.14
4876552--4876599	12	4.0	12	81	7	62	16	6	4	72	1.20
4878892--4879007	42	2.8	42	91	0	187	42	1	46	9	1.46
4878973--4879016	18	2.5	17	81	7	52	43	0	45	11	1.40
4884109--4884165	21	2.8	20	81	5	69	40	15	14	29	1.87
4884153--4884286	53	2.5	53	95	1	232	36	18	17	26	1.94
4884331--4884386	21	2.6	22	94	5	96	28	25	8	37	1.86
4884377--4884422	23	2.0	23	86	0	65	26	28	8	36	1.86
4884457--4884482	13	2.0	13	100	0	52	30	15	15	38	1.88
4885761--4885810	24	2.1	24	88	0	73	52	4	6	38	1.45
4888382--4888452	27	2.6	28	80	8	83	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4888762--4888793	6	5.7	6	92	7	50	46	0	0	53	1.00
4888760--4888793	11	3.1	11	84	16	52	44	0	0	55	0.99
4888837--4888883	16	2.9	16	87	0	67	48	12	8	29	1.71
4889718--4889761	16	2.8	16	89	0	61	52	22	4	20	1.65
4890102--4890198	50	2.0	50	82	10	119	14	8	7	70	1.33
4890541--4890577	16	2.3	17	86	13	60	56	0	0	43	0.99
4890509--4890577	15	4.1	16	73	25	61	55	1	2	40	1.24
4895118--4895180	24	2.6	26	73	14	62	33	17	30	19	1.95
4896410--4896449	22	1.9	20	85	10	53	35	7	5	52	1.51
4900211--4900262	13	3.8	13	75	22	52	63	0	3	32	1.12

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