genome.fa.s196.2.7.7.80.10.50.1000.27.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  27  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)
4144907--4144984	20	3.7	20	75	17	77	25	14	14	46	1.82
4144970--4145008	13	3.0	13	96	0	69	30	17	15	35	1.91
4147479--4147552	20	3.7	20	80	3	94	35	14	18	31	1.92
4147497--4147572	21	3.7	21	78	3	100	40	13	17	28	1.87
4147479--4147572	41	2.3	41	98	0	179	38	13	18	29	1.89
4147611--4147636	13	2.0	13	100	0	52	38	15	15	30	1.88
4148553--4149087	272	2.0	272	87	2	770	30	18	14	37	1.90
4149016--4149946	467	2.0	467	91	1	1499	31	16	14	37	1.89
4149516--4153042	614	5.8	612	84	4	4192	31	17	13	37	1.89
4152530--4153517	468	2.1	470	85	4	1328	31	16	13	39	1.86
4153023--4154121	612	1.8	604	88	3	1675	31	15	13	39	1.87
4153636--4154533	467	1.9	468	90	2	1419	32	15	13	37	1.88
4155026--4155108	41	2.0	41	88	4	123	38	8	21	31	1.83
4155842--4155867	13	2.0	13	100	0	52	30	15	23	30	1.95
4156182--4158710	608	4.2	607	84	3	3145	33	16	13	36	1.88
4158510--4158901	191	2.1	191	86	0	534	31	18	15	34	1.93
4158701--4169457	612	17.6	611	86	2	14184	33	16	13	36	1.87
4169455--4177042	610	12.5	612	80	5	7852	32	16	13	37	1.88
4175335--4175962	314	2.0	318	83	3	811	32	15	13	39	1.86
4177606--4177644	20	1.9	21	94	5	71	35	17	15	30	1.91
4177768--4177792	13	1.9	13	100	0	50	36	8	16	40	1.77
4179153--4179185	12	2.8	12	90	0	57	45	0	27	27	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4184163--4184188	13	2.0	13	100	0	52	30	15	15	38	1.88
4184143--4184204	33	1.9	32	87	9	90	27	14	16	41	1.87
4184279--4184303	13	1.9	13	100	0	50	36	16	16	32	1.90
4184261--4184326	33	2.0	33	90	0	105	36	16	16	30	1.91
4186598--4186638	22	2.0	21	86	13	59	41	4	21	31	1.74
4192936--4192986	20	2.6	20	87	9	70	27	13	17	41	1.87
4193041--4193106	20	3.7	20	71	26	74	37	18	15	28	1.91
4193059--4193083	13	1.9	13	100	0	50	36	16	16	32	1.90
4193041--4193106	33	2.0	33	96	0	123	37	18	15	28	1.91
4193625--4202553	611	14.6	611	84	3	10625	33	17	13	36	1.88
4193625--4202553	610	14.6	611	83	3	10525	33	17	13	36	1.88
4200885--4200913	13	2.2	13	100	0	58	37	6	17	37	1.76
4201224--4201256	15	2.2	15	100	0	66	21	6	24	48	1.72
4202859--4202883	13	1.9	13	100	0	50	36	16	16	32	1.90
4202952--4202976	13	1.9	13	100	0	50	32	16	16	36	1.90
4202985--4203060	32	2.4	32	95	0	134	32	19	19	27	1.96
4211266--4211393	31	4.1	30	76	10	123	23	29	14	32	1.94
4211271--4211462	62	3.0	62	80	8	188	22	31	13	32	1.93
4211326--4211540	35	6.5	34	75	14	166	20	33	12	33	1.90
4211462--4211515	27	2.0	27	92	0	90	22	33	14	29	1.94
4211560--4212231	49	14.1	49	77	12	666	25	26	17	31	1.97
4211705--4212120	43	9.1	43	77	13	400	25	25	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4211818--4211886	21	3.2	20	67	25	52	26	27	17	28	1.97
4211659--4212222	91	6.0	91	89	5	797	25	25	18	31	1.97
4211908--4211977	21	3.3	20	67	25	54	27	27	17	28	1.97
4212023--4212229	53	4.0	52	80	9	237	23	26	16	33	1.96
4213095--4213151	13	3.9	13	76	24	60	35	14	17	33	1.90
4213108--4213170	19	3.7	18	74	24	64	33	11	17	38	1.85
4213094--4213178	32	2.7	32	96	0	152	32	11	17	37	1.86
4217042--4217093	20	2.7	19	85	5	77	38	7	15	38	1.76
4219901--4219941	20	2.0	20	100	0	82	48	17	14	19	1.81
4220093--4222219	612	3.5	610	85	3	2859	33	17	13	35	1.89
4236507--4236550	22	2.0	22	90	4	70	86	6	2	4	0.77
4236505--4236552	16	2.8	17	87	6	71	85	6	4	4	0.83
4237574--4237654	37	2.2	37	97	0	153	28	16	12	43	1.84
4238016--4238185	28	6.0	28	86	5	243	32	30	17	19	1.95
4238017--4238187	57	3.0	56	89	3	245	32	30	17	19	1.95
4238016--4238185	85	2.0	85	94	2	297	32	30	17	19	1.95
4238171--4238201	16	1.9	16	93	0	53	32	22	25	19	1.97
4238142--4238231	44	2.0	44	97	0	171	33	28	20	17	1.95
4238209--4238311	31	3.4	30	81	4	107	26	30	16	27	1.97
4238223--4238321	31	3.2	30	81	7	101	23	29	17	30	1.97
4238305--4238555	34	7.7	32	70	16	140	19	30	13	37	1.89
4238357--4238555	34	5.9	33	79	5	186	18	30	13	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4238552--4238886	49	6.8	49	78	6	300	25	26	15	31	1.96
4238552--4238783	101	2.4	97	84	4	295	27	25	15	31	1.96
4238552--4238839	150	1.9	149	84	3	382	26	26	15	31	1.96
4242919--4246313	611	5.5	611	86	3	4503	32	16	13	36	1.88
4246032--4246878	283	3.0	282	90	0	1327	32	16	13	38	1.87
4247740--4247806	20	3.7	20	74	25	85	23	17	19	38	1.93
4247759--4247785	13	2.1	13	100	0	54	29	14	14	40	1.86
4247740--4247805	33	2.0	33	100	0	132	24	18	18	39	1.92
4255887--4255935	19	2.4	21	80	16	66	36	2	38	22	1.66
4256572--4258279	611	2.8	610	89	1	2553	33	16	13	36	1.89
4257998--4258844	283	3.0	282	91	0	1336	32	16	13	38	1.87
4259706--4259772	20	3.7	20	74	25	85	23	17	19	38	1.93
4259725--4259751	13	2.1	13	100	0	54	29	14	14	40	1.86
4259706--4259771	33	2.0	33	100	0	132	24	18	18	39	1.92
4260589--4263071	611	4.1	611	86	2	3349	32	16	13	36	1.89
4263173--4263509	167	2.0	166	88	1	496	32	19	10	36	1.87
4263341--4269911	611	10.8	610	86	3	8270	32	16	14	36	1.89
4269577--4270251	340	2.0	341	84	3	878	32	17	14	35	1.91
4270731--4270777	22	2.1	22	92	0	76	34	21	6	38	1.79
4270794--4270844	20	2.6	20	90	3	77	39	11	13	35	1.82
4271211--4271299	36	2.6	33	79	10	108	30	14	23	31	1.94
4272389--4272418	3	10.0	3	100	0	60	33	0	33	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4275596--4276064	159	3.0	156	70	13	384	31	16	13	38	1.87
4275596--4276354	318	2.4	315	79	8	756	31	16	13	37	1.88
4274949--4276775	928	2.0	913	85	4	2433	32	16	13	37	1.88
4275863--4277851	611	3.3	606	83	5	2451	32	16	13	37	1.88
4277800--4277896	51	1.9	51	85	4	133	32	13	14	39	1.85
4277640--4278061	210	2.0	210	94	0	738	32	15	13	37	1.87
4277864--4279161	318	4.2	319	75	9	1280	32	16	13	37	1.88
4277968--4278548	159	3.7	158	72	10	459	32	17	12	37	1.87
4278219--4280573	608	3.9	609	85	3	3008	32	16	12	38	1.87
4282553--4282603	20	2.6	20	87	9	70	33	13	19	33	1.91
4287343--4287368	13	2.0	13	100	0	52	30	15	15	38	1.88
4287428--4287500	20	3.6	20	81	3	101	31	19	13	35	1.91
4287407--4287500	41	2.3	41	96	0	170	30	18	12	38	1.88
4287407--4287482	21	3.7	21	78	3	91	30	17	11	40	1.85
4291981--4292011	15	2.1	15	93	0	53	12	22	16	48	1.80
4293814--4293858	21	2.1	21	84	8	56	22	20	4	53	1.63
4296076--4296101	13	2.0	13	100	0	52	30	15	15	38	1.88
4296161--4296233	20	3.6	20	81	3	101	31	19	13	35	1.91
4296140--4296233	41	2.3	41	96	0	170	30	18	12	38	1.88
4296140--4296215	21	3.7	21	78	3	91	30	17	11	40	1.85
4301491--4301531	21	2.0	21	85	0	55	7	31	0	60	1.24
4301520--4301639	42	2.9	42	83	0	141	11	41	0	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4303701--4303785	41	2.1	41	97	0	161	27	11	15	45	1.80
4307554--4307600	20	2.4	20	78	3	60	34	14	19	31	1.92
4308068--4309707	610	2.7	607	86	2	2218	33	16	13	36	1.89
4309627--4309862	122	1.9	122	93	1	402	26	15	17	40	1.89
4309915--4310441	158	3.3	157	72	12	416	33	15	11	39	1.85
4309948--4310611	320	2.1	317	89	3	1019	32	17	12	37	1.87
4310265--4324608	611	23.7	605	79	9	12864	32	16	13	36	1.88
4324250--4324727	159	3.0	155	69	19	401	32	17	13	36	1.89
4324795--4325842	529	2.0	528	88	2	1557	33	17	12	35	1.88
4326187--4327774	610	2.6	592	84	7	1915	32	17	13	36	1.89

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