genome.fa.s160.2.7.7.80.10.50.1000.26.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   

This is table  26  of  30  ( 3592 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)
4287558--4287725	76	2.2	76	85	5	216	30	13	19	36	1.89
4287543--4287725	38	4.9	37	80	4	190	31	14	18	35	1.91
4288526--4288593	34	2.0	34	82	5	84	44	13	11	30	1.79
4295131--4295156	13	2.0	13	100	0	52	38	15	15	30	1.88
4295115--4295175	32	1.9	32	86	6	88	40	16	14	27	1.88
4297382--4297426	21	2.1	21	84	8	56	53	4	20	22	1.63
4299230--4299268	15	2.6	15	91	0	60	51	15	20	12	1.76
4301338--4301376	13	3.0	13	100	0	78	30	15	15	38	1.88
4303923--4303948	13	2.0	13	100	0	52	38	15	15	30	1.88
4308580--4308604	13	1.9	13	100	0	50	36	16	16	32	1.90
4308589--4308645	19	3.0	20	79	7	73	35	15	15	33	1.90
4309589--4309627	19	2.1	19	85	4	53	43	0	15	41	1.46
4311967--4312077	49	2.3	49	100	0	222	35	19	14	30	1.92
4313390--4313446	13	3.9	13	76	24	60	35	14	17	33	1.90
4313370--4313467	32	3.0	32	96	1	178	34	12	17	35	1.87
4313368--4313465	19	5.8	18	71	28	90	33	12	17	36	1.87
4313635--4313691	13	3.9	13	76	24	60	35	14	17	33	1.90
4313228--4313717	245	2.0	245	99	0	971	34	14	18	33	1.90
4313615--4313712	32	3.0	32	96	1	178	34	12	17	35	1.87
4313613--4313710	19	5.8	18	71	28	90	33	12	17	36	1.87
4314118--4314182	21	3.6	19	73	26	70	44	15	12	27	1.82
4314136--4314161	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)
4314118--4314182	34	2.0	33	93	6	114	44	15	12	27	1.82
4316383--4316432	21	2.3	21	80	10	57	56	4	18	22	1.58
4318231--4318261	15	2.1	15	93	0	53	48	16	22	12	1.80
4321158--4321239	28	2.9	28	80	7	96	26	17	31	24	1.97
4321222--4321392	51	3.3	51	79	4	198	32	11	26	29	1.92
4321377--4321450	27	2.7	28	87	6	98	24	20	31	24	1.98
4321434--4321565	51	2.5	51	79	13	142	31	9	25	32	1.89
4323911--4323936	13	2.0	13	100	0	52	38	15	15	30	1.88
4323890--4323956	33	2.0	33	88	0	98	43	16	14	25	1.86
4323976--4324040	19	3.8	18	76	23	77	35	15	12	36	1.85
4323998--4324022	13	1.9	13	100	0	50	32	16	16	36	1.90
4323979--4324040	32	1.9	32	96	0	115	35	16	12	35	1.87
4324079--4324156	21	3.8	21	86	8	115	32	12	16	38	1.87
4324079--4324160	41	2.0	40	88	6	121	32	12	17	37	1.86
4324751--4325373	55	11.3	55	91	3	970	20	20	30	28	1.97
4326356--4326421	1	66.0	1	75	0	51	0	6	7	86	0.71
4326356--4326422	14	4.8	13	83	10	71	0	5	8	85	0.75
4326366--4326422	15	3.9	15	88	4	80	0	5	8	85	0.72
4326356--4326421	17	4.2	16	81	18	77	0	6	7	86	0.71
4338745--4338826	28	2.9	28	80	7	96	26	17	31	24	1.97
4338809--4338979	51	3.3	51	79	4	198	32	11	26	29	1.92
4338962--4339037	27	2.8	28	88	6	102	21	21	34	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4341497--4341522	13	2.0	13	100	0	52	38	15	15	30	1.88
4341476--4341542	33	2.0	33	88	0	98	43	16	14	25	1.86
4341562--4341658	19	5.8	18	73	26	97	36	15	12	36	1.85
4341584--4341640	13	3.9	13	76	24	60	35	15	14	35	1.88
4341565--4341658	32	2.9	32	98	0	179	36	15	12	35	1.86
4342191--4342232	21	2.0	22	90	4	68	26	19	4	50	1.67
4342192--4342238	21	2.3	20	82	10	60	31	19	4	44	1.70
4344611--4344675	21	3.6	19	73	26	70	44	15	12	27	1.82
4344629--4344654	13	2.0	13	100	0	52	38	15	15	30	1.88
4344611--4344675	34	2.0	33	93	6	114	44	15	12	27	1.82
4345433--4345457	13	1.9	13	100	0	50	32	16	16	36	1.90
4353064--4353110	25	2.0	23	83	8	58	38	2	0	59	1.09
4353279--4353404	53	2.4	53	78	5	130	38	23	11	25	1.89
4353396--4353457	32	1.9	32	90	0	97	50	19	8	22	1.74
4353438--4353498	16	3.8	16	74	8	61	42	19	16	21	1.89
4354362--4354387	13	2.0	13	100	0	52	30	15	15	38	1.88
4354426--4354501	21	3.7	21	80	3	100	28	17	11	42	1.84
4354447--4354519	20	3.6	20	81	3	101	31	19	13	35	1.91
4354426--4354519	41	2.3	41	98	0	179	29	18	12	39	1.88
4355868--4355893	13	2.0	13	100	0	52	38	15	15	30	1.88
4355846--4355913	33	2.1	32	91	8	111	32	16	16	35	1.91
4355982--4356006	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4357349--4357391	23	2.0	23	81	9	54	55	2	2	39	1.25
4358665--4358705	18	2.3	18	91	4	66	46	0	0	53	1.00
4360097--4360145	20	2.5	20	80	6	55	46	0	4	48	1.20
4360755--4360784	3	10.0	3	100	0	60	33	0	33	33	1.58
4363392--4363425	18	1.9	17	88	5	50	52	8	5	32	1.56
4366461--4366500	13	3.0	14	76	23	50	30	5	0	65	1.14
4368118--4368188	24	2.7	26	75	20	67	54	1	0	43	1.08
4369062--4369104	22	2.0	22	90	9	70	39	0	0	60	0.97
4370055--4370117	31	1.9	34	84	9	87	47	3	0	49	1.17
4371611--4371678	24	2.8	25	77	8	68	27	4	0	67	1.09
4372476--4372517	11	3.7	11	79	14	50	78	2	0	19	0.86
4372535--4372577	17	2.5	17	85	7	52	53	16	9	20	1.70
4389293--4389349	20	2.8	20	83	0	69	38	14	15	31	1.87
4389338--4389410	21	3.5	21	92	1	112	39	13	17	28	1.88
4389464--4389489	13	2.0	13	100	0	52	30	23	15	30	1.95
4389445--4389508	33	2.0	32	87	3	92	37	18	14	29	1.90
4390917--4390942	13	2.0	13	100	0	52	30	15	15	38	1.88
4391023--4391106	20	3.7	20	70	27	69	25	11	19	44	1.84
4391015--4391110	50	1.9	50	100	0	192	27	12	18	41	1.86
4391667--4391710	21	2.1	21	83	8	54	25	31	4	38	1.76
4393514--4393538	13	1.9	13	100	0	50	36	16	16	32	1.90
4397431--4397475	21	2.1	21	84	8	56	22	20	4	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4399693--4399718	13	2.0	13	100	0	52	30	15	15	38	1.88
4404399--4404882	29	17.1	29	82	6	460	27	29	16	26	1.97
4404402--4404882	28	17.1	28	83	6	483	27	29	16	26	1.97
4404402--4404789	115	3.4	115	87	2	545	27	28	16	27	1.97
4408495--4408563	33	2.1	33	88	0	102	37	21	17	23	1.94
4411759--4411829	27	2.6	27	100	0	142	12	19	45	22	1.84
4413954--4414067	52	2.2	52	90	0	183	28	17	17	35	1.93
4413954--4414087	52	2.6	52	86	2	162	30	16	17	35	1.93
4414076--4414100	13	1.9	13	100	0	50	36	16	16	32	1.90
4414139--4414228	13	6.0	13	69	26	54	34	16	13	35	1.88
4414153--4414249	19	5.8	18	69	27	79	36	17	11	35	1.86
4414140--4414247	32	3.4	32	93	0	180	34	17	12	35	1.88
4422441--4422560	51	2.4	51	84	8	172	31	12	26	29	1.93
4422286--4422638	130	2.7	130	87	0	492	34	12	23	29	1.92
4422492--4422699	79	2.6	79	84	4	267	34	12	24	29	1.91
4429395--4429491	36	2.9	34	82	10	121	28	24	13	32	1.93
4430175--4430219	22	2.1	21	92	8	74	37	8	6	46	1.61
4433733--4433758	13	2.0	13	100	0	52	30	15	15	38	1.88
4435850--4435892	20	2.1	20	86	4	59	9	30	44	16	1.79
4436335--4436370	13	2.8	13	95	0	63	33	16	16	33	1.92
4438441--4438470	15	2.0	15	93	0	51	13	23	13	50	1.77
4442196--4442221	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4442209--4442292	19	4.6	19	73	21	90	27	14	15	42	1.85
4442175--4442293	53	2.2	53	100	0	238	27	13	15	43	1.84
4442249--4442274	13	2.0	13	100	0	52	30	15	15	38	1.88
4447439--4447648	80	2.6	80	87	3	300	26	24	13	35	1.93
4447578--4447698	52	2.3	52	94	0	215	31	26	10	31	1.90
4447498--4447777	132	2.1	132	87	3	404	28	25	12	32	1.92
4447632--4447893	79	3.3	78	80	7	287	27	25	12	34	1.92
4450299--4450352	20	2.6	21	82	5	65	20	18	0	61	1.35
4450299--4450356	21	2.8	20	84	5	62	18	18	0	62	1.34
4451896--4451954	31	1.9	29	86	10	82	33	23	13	28	1.93

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