genome.fa.s71.2.7.7.80.10.50.1000.26.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   

This is table  26  of  33  ( 3929 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)
4292900--4292953	22	2.5	21	80	11	65	61	0	0	38	0.96
4294793--4294825	3	10.7	3	93	6	57	63	0	3	33	1.10
4309029--4309056	13	2.2	13	100	0	56	57	7	21	14	1.61
4309711--4309762	2	26.0	2	92	0	86	48	3	48	0	1.20
4310079--4310111	2	16.5	2	100	0	66	51	0	0	48	1.00
4311895--4311928	4	8.0	4	93	6	50	76	0	0	23	0.79
4316172--4316202	4	7.8	4	92	0	53	22	3	0	74	0.96
4322264--4322302	21	1.9	19	90	10	60	43	0	10	46	1.37
4324586--4324625	21	2.0	21	90	5	64	20	17	15	47	1.83
4329025--4329116	10	9.8	10	72	20	58	42	1	1	55	1.14
4329026--4329064	16	2.4	16	87	8	53	43	2	0	53	1.14
4329026--4329083	21	2.8	21	86	5	73	41	1	0	56	1.09
4329040--4329070	16	1.9	16	93	0	53	45	0	0	54	0.99
4329058--4329117	17	3.5	16	74	19	50	41	0	1	56	1.09
4329058--4329123	32	2.0	33	82	11	82	39	0	1	59	1.07
4329292--4329325	2	17.0	2	100	0	68	50	0	0	50	1.00
4329432--4329497	24	2.7	23	80	15	71	65	1	33	0	1.02
4329493--4329795	164	1.9	163	92	0	516	35	3	4	55	1.39
4329514--4329787	82	3.3	83	72	13	267	34	3	4	58	1.34
4329514--4329799	83	3.5	82	72	12	255	34	3	4	57	1.36
4331044--4331090	14	3.2	14	72	21	51	70	0	4	25	1.05
4331173--4331212	19	2.2	18	86	4	53	62	5	0	32	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4331677--4331713	7	4.9	8	93	6	60	86	0	0	13	0.57
4331680--4331713	15	2.3	15	95	5	61	88	0	0	11	0.52
4331708--4331781	28	2.6	28	82	4	85	40	8	4	47	1.52
4331708--4331803	30	3.3	30	79	13	85	40	10	4	44	1.58
4331732--4331803	30	2.4	31	81	11	87	40	9	4	45	1.56
4332979--4333090	59	1.9	59	81	5	138	58	4	4	33	1.38
4335857--4335894	12	3.2	12	85	3	51	52	0	2	44	1.14
4340194--4340223	11	2.7	11	89	0	51	0	16	0	83	0.65
4341700--4341780	42	1.9	42	92	0	135	28	14	11	45	1.79
4343671--4343752	21	4.0	20	72	13	69	50	4	3	41	1.41
4343681--4343775	21	4.6	21	77	6	86	49	6	2	42	1.40
4343685--4343776	42	2.2	42	90	1	141	50	5	2	42	1.37
4346840--4347009	88	1.9	87	82	9	211	44	10	10	34	1.72
4346833--4347022	88	2.2	87	79	7	206	45	9	9	35	1.69
4347421--4347455	7	4.7	7	89	10	52	42	2	0	54	1.15
4347976--4348013	3	12.7	3	100	0	76	31	0	0	68	0.90
4350240--4350285	18	2.6	19	83	13	62	69	0	2	28	1.00
4352258--4352519	130	2.0	131	96	1	483	41	16	9	32	1.81
4354075--4354114	8	4.7	9	87	6	57	25	0	0	75	0.81
4354082--4354113	17	1.9	17	93	6	57	28	0	0	71	0.86
4354151--4354202	22	2.4	20	73	17	50	40	0	0	59	0.97
4359706--4359747	15	2.9	15	78	3	50	45	0	7	47	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4362836--4362881	16	2.9	16	93	0	83	52	0	0	47	1.00
4363568--4363595	2	14.0	2	100	0	56	50	0	0	50	1.00
4364592--4364859	135	2.0	135	88	2	405	51	6	4	37	1.47
4365270--4365307	17	2.2	17	90	0	58	28	0	0	71	0.87
4365612--4365691	2	41.0	2	75	5	74	47	1	2	48	1.23
4365638--4365693	25	2.3	23	84	6	67	46	1	3	48	1.30
4366103--4366173	30	2.4	30	85	4	90	40	4	1	53	1.29
4366735--4366768	2	17.0	2	100	0	68	50	0	0	50	1.00
4367792--4367818	13	2.1	13	100	0	54	62	0	0	37	0.95
4368483--4368537	20	2.6	20	80	16	58	54	0	0	45	0.99
4369017--4369106	23	3.9	23	67	18	62	38	0	0	61	0.96
4369017--4369071	27	2.0	27	85	0	74	34	0	0	65	0.93
4370460--4370500	21	2.0	21	90	9	66	58	0	0	41	0.98
4377391--4377422	16	2.0	16	93	0	55	71	0	0	28	0.86
4380642--4380707	23	2.9	23	76	17	66	48	1	0	50	1.10
4380708--4380739	10	3.2	10	100	0	64	40	0	0	59	0.97
4382946--4382995	23	2.2	23	82	13	59	50	0	0	50	1.00
4386297--4386339	20	2.2	20	83	8	52	44	2	2	51	1.27
4386591--4386635	22	2.0	22	82	0	54	48	2	0	48	1.13
4387596--4387645	14	3.5	14	83	2	64	38	0	0	62	0.96
4387595--4387644	15	3.3	15	80	8	66	36	0	0	64	0.94
4387657--4387708	13	3.8	13	80	12	52	48	1	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4390058--4390084	2	13.5	2	100	0	54	48	0	0	51	1.00
4392026--4392102	17	4.6	17	71	18	72	44	0	0	55	0.99
4392036--4392128	48	1.9	49	84	6	127	44	1	0	54	1.07
4392081--4392157	40	1.9	40	81	5	93	44	3	0	51	1.19
4394754--4394784	2	15.5	2	100	0	62	48	0	0	51	1.00
4395484--4395521	13	2.9	14	88	7	53	44	0	0	55	0.99
4400938--4401012	23	3.2	24	71	3	64	42	0	0	57	0.98
4405640--4405677	2	19.0	2	100	0	76	0	50	0	50	1.00
4411136--4411167	2	16.0	2	100	0	64	50	0	50	0	1.00
4412279--4412304	6	4.3	6	100	0	52	50	34	15	0	1.45
4413250--4413290	2	20.5	2	100	0	82	51	0	0	48	1.00
4414943--4415037	26	3.6	26	77	17	81	63	0	1	35	1.02
4414944--4415070	31	4.1	32	75	15	117	61	0	0	37	1.07
4414976--4415051	13	5.8	13	70	18	50	59	0	1	39	1.06
4415280--4415331	17	3.1	17	77	8	52	78	0	17	3	0.89
4418133--4418179	23	2.0	22	84	8	58	34	0	0	65	0.93
4425109--4425140	2	16.0	2	93	0	55	0	50	3	46	1.17
4427106--4427165	25	2.4	25	86	8	77	41	3	0	55	1.16
4427279--4427362	31	2.7	32	77	7	100	40	5	3	50	1.44
4427259--4427448	62	3.1	61	79	5	175	39	6	2	51	1.43
4427279--4427448	62	2.7	61	79	4	180	40	6	2	50	1.43
4431055--4431087	16	2.1	16	88	11	50	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4432209--4432251	22	2.0	22	86	9	61	53	0	0	46	1.00
4432214--4432253	12	3.5	12	80	19	50	57	0	0	42	0.98
4432209--4432266	23	2.6	23	81	13	68	50	0	0	50	1.00
4432745--4432769	6	4.2	6	100	0	50	52	0	0	48	1.00
4432524--4432999	247	1.9	248	93	1	830	39	13	10	37	1.78
4435692--4435729	19	2.1	19	90	5	60	55	2	0	42	1.14
4436726--4436773	18	2.8	17	77	20	55	41	2	2	54	1.24
4437127--4437189	29	2.2	29	77	8	67	46	1	1	50	1.20
4439398--4439432	6	5.8	6	93	0	61	0	68	0	31	0.90
4439462--4439502	15	2.7	15	88	0	64	7	34	2	56	1.40
4443314--4443346	13	2.6	13	90	4	50	51	0	6	42	1.26
4455292--4455320	2	14.5	2	100	0	58	51	48	0	0	1.00
4456284--4456418	67	2.0	68	90	5	213	46	12	17	23	1.82
4457647--4457672	2	13.0	2	100	0	52	50	0	50	0	1.00
4457847--4457876	15	2.0	15	100	0	60	33	6	0	60	1.23
4459548--4459573	2	13.0	2	100	0	52	50	0	50	0	1.00
4464360--4464401	20	2.3	18	77	18	50	47	0	2	50	1.14
4465644--4465692	19	2.6	19	87	9	66	44	0	0	55	0.99
4465642--4465692	17	2.8	18	85	8	68	45	0	0	54	0.99
4465661--4465701	20	2.1	19	86	4	55	43	2	0	53	1.13
4466137--4466270	40	3.4	40	73	14	109	40	2	0	56	1.17
4466267--4466292	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4467619--4467660	18	2.4	18	77	18	52	33	0	2	64	1.07
4468190--4468236	9	5.4	9	76	19	55	42	0	0	57	0.98
4468190--4468227	13	2.8	13	92	4	58	42	0	0	57	0.98
4470094--4470169	38	2.0	38	92	0	125	53	11	1	32	1.45
4471411--4471454	6	7.3	6	97	0	70	38	61	0	0	0.96
4474528--4474572	23	2.0	23	82	8	56	68	4	4	22	1.25
4475445--4475516	17	3.7	19	78	15	69	47	0	1	51	1.09
4475468--4475509	22	1.9	22	90	9	68	50	0	0	50	1.00
4475497--4475542	15	3.0	15	90	3	65	63	0	0	36	0.95
4478411--4478446	12	2.8	13	87	8	56	80	0	13	5	0.88

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