genome.fa.s196.2.7.7.80.10.50.1000.39.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  39  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)
6306957--6307013	29	2.0	29	89	6	89	33	5	0	61	1.18
6307355--6307415	21	3.0	21	88	6	83	59	0	1	39	1.08
6307473--6307578	16	6.4	16	69	15	65	60	0	0	39	0.97
6307488--6307581	25	3.8	25	75	9	70	62	0	0	37	0.95
6307521--6307580	32	1.9	30	87	12	86	61	0	0	38	0.96
6307494--6307622	67	1.9	66	80	1	150	57	0	1	40	1.14
6307572--6307694	38	3.3	36	80	5	131	54	1	3	40	1.26
6307569--6307699	37	3.6	37	78	11	137	53	1	3	41	1.25
6307534--6307717	73	2.5	75	74	12	177	56	1	2	40	1.18
6309474--6309520	21	2.2	22	85	11	62	38	0	0	61	0.96
6309471--6309534	22	3.0	21	77	8	60	37	0	0	62	0.95
6309844--6309908	20	3.3	20	71	23	57	56	0	1	41	1.08
6309844--6309910	18	3.6	20	73	18	56	58	0	1	40	1.07
6310649--6310701	25	2.2	25	83	10	65	52	0	3	43	1.19
6311374--6311404	2	15.5	2	93	0	53	45	0	3	51	1.17
6314080--6314153	20	3.7	20	85	3	96	35	12	14	37	1.84
6315063--6315100	20	1.9	20	88	0	58	21	10	10	57	1.61
6327956--6328001	22	2.2	20	92	7	74	82	6	2	8	0.91
6327954--6328044	26	3.5	24	73	17	67	81	8	3	6	0.97
6329266--6330152	28	30.4	28	83	6	630	29	30	18	21	1.97
6329266--6330167	56	15.4	56	81	6	730	29	30	18	21	1.97
6329625--6329979	32	11.6	32	82	7	375	31	29	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6329625--6330007	154	2.5	153	87	3	549	31	29	17	21	1.96
6329625--6329951	124	2.6	125	86	6	454	31	29	17	20	1.96
6330236--6330398	46	3.5	46	85	2	202	20	25	19	34	1.96
6331095--6331166	20	3.8	20	76	10	87	33	11	12	43	1.78
6333649--6333723	20	3.8	20	80	0	87	33	12	12	42	1.79
6333649--6333726	40	2.0	39	87	2	111	33	11	12	42	1.79
6339260--6339465	78	2.6	79	81	0	225	28	16	29	24	1.97
6339417--6339488	28	2.6	28	88	0	99	23	19	34	22	1.96
6341955--6341980	13	2.0	13	100	0	52	38	15	15	30	1.88
6341934--6342000	33	2.0	33	88	0	98	43	16	14	25	1.86
6342020--6342087	19	3.9	18	76	23	83	38	14	11	35	1.83
6342042--6342066	13	1.9	13	100	0	50	32	16	16	36	1.90
6342023--6342085	32	2.0	32	96	0	117	36	15	12	34	1.86
6342143--6342199	21	2.7	21	97	0	105	36	19	10	33	1.86
6342212--6342237	13	2.0	13	100	0	52	15	7	0	76	0.99
6358059--6359773	57	29.6	57	83	6	1655	30	31	16	21	1.95
6358062--6359767	86	19.6	86	83	7	1662	30	31	16	21	1.95
6358059--6359767	28	59.0	28	83	5	1604	30	31	16	21	1.95
6359458--6359493	16	2.1	17	90	10	56	36	27	11	25	1.90
6359253--6359688	221	2.0	221	93	0	739	30	30	16	21	1.96
6359373--6359582	108	2.0	101	85	6	276	31	30	16	21	1.95
6359285--6359668	193	2.0	189	92	2	642	30	31	16	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6359857--6359994	46	3.0	46	90	2	204	18	26	19	35	1.95
6359859--6359932	24	3.2	24	60	21	57	16	25	20	37	1.93
6359831--6359993	46	3.5	46	87	2	193	19	23	19	36	1.95
6361623--6361661	20	1.9	21	84	5	53	20	10	10	58	1.59
6363223--6363297	20	3.8	20	76	0	87	33	12	12	42	1.79
6363223--6363300	40	2.0	39	87	2	111	33	11	12	42	1.79
6372824--6373084	112	2.3	114	81	7	300	33	12	13	40	1.82
6372909--6373153	114	2.2	111	81	7	271	34	11	11	42	1.77
6373716--6374164	60	7.5	60	81	4	462	21	15	17	45	1.85
6373882--6373976	30	3.2	30	73	11	104	20	15	17	46	1.84
6374489--6374551	33	1.9	33	86	0	90	20	12	9	57	1.63
6374672--6374763	40	2.3	40	81	3	105	19	23	11	44	1.84
6374909--6375074	65	2.5	65	81	8	187	21	24	9	43	1.82
6374909--6375116	65	3.2	62	78	10	177	22	24	10	43	1.84
6375779--6375822	23	1.9	23	95	0	79	29	9	13	47	1.74
6376370--6376435	28	2.3	29	82	7	82	40	0	1	57	1.08
6376413--6376449	17	2.2	17	100	0	74	48	0	5	45	1.25
6379600--6379652	16	3.3	17	80	15	51	50	0	5	43	1.25
6379614--6379652	16	2.4	16	83	8	53	53	0	2	43	1.14
6379636--6379742	39	2.7	39	81	11	114	55	0	1	42	1.10
6379899--6379951	21	2.5	21	84	0	61	60	3	1	33	1.26
6380011--6380071	31	2.0	31	83	6	79	55	9	0	34	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6380052--6380121	32	2.2	31	78	14	72	62	5	2	28	1.32
6391611--6391674	15	4.3	15	78	11	60	82	4	12	0	0.81
6391607--6391661	17	3.1	18	78	7	58	87	5	7	0	0.68
6391607--6391659	1	53.0	1	76	0	52	88	5	5	0	0.62
6392700--6393757	55	18.8	54	75	19	680	29	30	20	19	1.97
6392879--6393757	445	2.0	447	78	15	928	29	30	20	19	1.97
6394377--6394410	17	2.0	17	100	0	68	82	0	5	11	0.83
6394419--6394473	21	2.7	21	88	8	78	34	10	21	32	1.89
6394528--6394593	19	3.8	19	74	25	74	33	12	15	39	1.84
6394530--6394591	31	2.0	32	93	3	108	33	12	16	37	1.87
6400171--6400209	20	1.9	21	85	15	55	51	2	0	46	1.14
6400784--6400853	27	2.6	27	91	6	108	25	31	20	22	1.98
6400764--6401077	104	3.0	103	72	13	289	27	28	14	30	1.95
6400841--6401009	52	3.2	52	80	9	193	29	24	12	33	1.92
6400993--6401069	28	2.8	28	87	0	100	23	33	19	23	1.97
6401103--6401156	28	1.9	28	88	7	83	24	27	16	31	1.96
6401023--6401224	76	2.6	78	81	5	223	25	30	16	27	1.96
6413631--6413671	16	2.7	16	85	7	59	90	7	2	0	0.54
6414663--6415725	55	19.3	55	91	4	1604	28	30	20	20	1.97
6416318--6416351	17	2.0	17	100	0	68	82	0	5	11	0.83
6416358--6416414	21	2.7	21	97	0	105	33	10	19	36	1.86
6416470--6416537	19	3.9	19	78	21	85	35	11	14	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6416491--6416515	13	1.9	13	100	0	50	36	16	16	32	1.90
6416472--6416534	32	2.0	32	96	0	117	34	12	15	36	1.86
6416577--6416602	13	2.0	13	100	0	52	30	15	15	38	1.88
6416557--6416623	33	2.0	33	88	0	98	25	14	16	43	1.86
6419078--6419247	52	3.3	51	79	12	186	29	24	12	32	1.93
6419231--6419307	28	2.8	28	87	0	100	23	33	19	23	1.97
6419762--6419805	23	1.9	23	95	0	79	29	9	13	47	1.74
6420351--6420406	28	2.0	28	86	6	78	41	0	0	58	0.98
6420356--6420416	28	2.2	27	85	5	77	40	0	1	57	1.08
6420394--6420430	17	2.2	17	100	0	74	48	0	5	45	1.25
6423581--6423633	16	3.3	17	80	15	51	50	0	5	43	1.25
6423595--6423633	16	2.4	16	83	8	53	53	0	2	43	1.14
6423617--6423723	39	2.7	39	81	11	114	55	0	1	42	1.10
6423880--6423932	21	2.5	21	84	0	61	60	3	1	33	1.26
6423992--6424052	31	2.0	31	83	6	79	55	9	0	34	1.33
6424033--6424102	32	2.2	31	78	14	72	62	5	2	28	1.32
6429823--6429860	2	19.0	2	100	0	76	50	0	0	50	1.00
6436064--6436109	23	2.0	23	87	8	67	60	0	0	39	0.97
6436438--6436477	21	1.9	21	84	0	53	55	0	2	42	1.13
6437986--6438023	17	2.2	18	86	13	53	63	0	5	31	1.17
6439348--6439426	19	4.0	21	73	21	64	44	0	1	54	1.08
6439296--6439415	35	3.3	38	76	12	101	40	0	1	58	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6439360--6439433	18	4.2	17	81	13	78	43	0	1	55	1.08
6439370--6439405	19	1.9	19	94	5	65	36	0	0	63	0.94
6439348--6439411	22	3.0	21	75	13	58	40	0	1	57	1.08
6439617--6439664	21	2.3	22	89	7	73	39	10	0	50	1.37
6447684--6447746	20	3.2	20	86	8	92	31	14	26	26	1.95
6447896--6447922	13	2.1	13	100	0	54	48	7	14	29	1.71
6449054--6449101	25	1.9	25	82	0	60	50	4	0	45	1.21
6449089--6449161	27	2.5	29	76	8	78	54	0	0	45	0.99
6449089--6449158	29	2.4	29	85	0	104	57	0	0	42	0.99
6451600--6451634	16	2.1	16	89	5	52	45	0	2	51	1.16

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