genome.fa.s409.2.7.7.80.10.50.1000.20.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

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   

This is table  20  of  25  ( 2882 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)
3085122--3085622	227	2.2	228	86	2	718	30	31	17	20	1.96
3085123--3085706	227	2.6	226	81	8	716	30	32	17	20	1.95
3085683--3085793	31	3.6	31	85	3	143	32	27	18	22	1.97
3085697--3085790	32	2.9	32	85	3	127	31	26	18	23	1.97
3089630--3089712	32	2.6	31	73	5	85	36	14	12	37	1.83
3090349--3090544	61	3.2	59	79	9	173	36	14	25	23	1.93
3090560--3090912	52	6.6	53	75	8	254	36	13	23	26	1.92
3090614--3091035	113	3.8	110	75	10	330	37	12	23	26	1.91
3090550--3090868	165	1.9	164	81	4	374	37	13	23	25	1.92
3090547--3091035	217	2.3	215	83	3	599	38	13	23	24	1.91
3091090--3091704	33	19.0	33	77	8	453	20	16	31	31	1.95
3091128--3091671	97	5.6	97	78	6	435	19	16	32	31	1.94
3091224--3091671	130	3.5	127	82	8	473	19	16	32	31	1.94
3091090--3091704	194	3.2	193	81	6	620	20	16	31	31	1.95
3091702--3091823	34	3.7	35	80	5	130	46	11	22	18	1.81
3091873--3091954	34	2.4	34	85	0	110	42	13	26	17	1.86
3096547--3096653	20	4.8	20	71	20	88	22	14	17	45	1.84
3096635--3096664	13	2.3	13	100	0	60	30	16	13	40	1.87
3098693--3098744	19	2.7	20	87	6	79	28	13	15	42	1.85
3098795--3098850	21	2.7	21	83	10	71	37	16	16	30	1.90
3098881--3098931	19	2.7	19	88	8	77	41	15	13	29	1.86
3101023--3101065	20	2.1	20	82	4	50	9	27	44	18	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3101502--3101539	13	2.9	13	96	0	67	31	15	18	34	1.92
3103618--3103648	15	2.1	15	93	0	53	12	22	16	48	1.80
3107662--3107729	19	3.9	19	78	21	85	35	11	14	38	1.83
3107683--3107707	13	1.9	13	100	0	50	36	16	16	32	1.90
3107664--3107726	32	2.0	32	96	0	117	34	12	15	36	1.86
3110153--3110494	52	6.5	53	70	16	219	29	25	12	32	1.92
3110270--3110338	27	2.5	27	88	2	93	24	31	21	21	1.98
3110216--3110608	107	3.7	105	73	10	332	27	26	14	30	1.95
3110478--3110554	28	2.8	28	87	0	100	22	33	20	23	1.97
3110158--3110562	212	1.9	212	89	3	627	28	26	13	31	1.94
3111988--3112039	19	2.7	20	87	6	79	28	13	15	42	1.85
3113293--3113325	16	2.1	16	94	0	57	30	9	27	33	1.88
3113356--3113655	79	3.8	78	81	10	324	26	24	15	34	1.95
3113593--3113691	51	1.9	52	83	6	130	29	24	13	33	1.93
3115930--3115998	27	2.6	27	97	0	129	27	14	34	23	1.94
3118403--3118521	51	2.3	51	92	0	202	30	14	27	27	1.95
3118453--3118913	79	5.9	76	79	5	418	30	14	27	27	1.95
3118489--3118913	158	2.7	154	81	4	487	30	14	27	27	1.95
3118489--3118913	155	2.7	156	81	4	507	30	14	27	27	1.95
3118849--3119017	51	3.3	49	78	6	160	31	12	26	28	1.93
3121297--3121339	20	2.1	21	91	4	70	34	11	20	32	1.89
3121349--3121395	13	4.0	13	71	25	50	40	12	19	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3121446--3121499	19	2.7	19	82	5	63	35	16	12	35	1.87
3122789--3122839	21	2.5	20	75	9	59	43	15	5	35	1.71
3125447--3125510	33	2.0	32	87	3	92	28	14	20	37	1.91
3125581--3125605	13	1.9	13	100	0	50	36	16	16	32	1.90
3126428--3126467	20	2.0	20	100	0	80	15	40	0	45	1.46
3128297--3128332	13	2.8	13	91	0	54	38	19	11	30	1.86
3133906--3133956	19	2.7	20	84	9	61	27	9	23	39	1.86
3133998--3134050	20	2.6	21	82	8	65	30	16	15	37	1.90
3139947--3140016	34	2.1	34	97	0	131	27	30	15	27	1.96
3141366--3141398	12	2.7	13	90	9	52	84	9	0	6	0.76
3143256--3143684	189	2.3	190	88	3	623	41	15	12	31	1.84
3144726--3144839	35	3.2	36	85	8	144	9	18	10	61	1.55
3144726--3144880	35	4.3	36	80	8	104	9	17	9	63	1.49
3144829--3144898	37	1.9	36	88	2	104	8	11	7	72	1.27
3145143--3145207	29	2.2	29	83	5	76	16	15	9	58	1.62
3145336--3145469	60	2.5	51	76	20	153	35	11	23	29	1.91
3145389--3145424	12	2.8	13	87	8	56	36	13	25	25	1.93
3145689--3145720	11	2.9	11	95	0	55	28	3	0	68	1.04
3145699--3145725	14	1.9	14	100	0	54	25	0	0	74	0.83
3146317--3146996	42	16.2	42	72	4	415	34	19	28	17	1.95
3146405--3147024	83	7.4	84	82	1	609	34	19	29	17	1.94
3146467--3147009	250	2.2	253	82	2	646	34	18	29	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3148595--3148627	16	2.1	16	88	11	50	0	12	0	87	0.53
3148620--3148652	12	2.7	12	95	4	57	12	3	0	84	0.72
3152160--3152411	107	2.4	107	91	1	398	31	14	27	26	1.95
3152160--3152449	107	2.7	107	88	1	384	31	14	27	26	1.95
3152587--3152658	28	2.6	27	84	8	83	22	18	36	23	1.95
3152385--3152763	51	7.2	50	70	14	196	30	11	27	30	1.91
3155180--3155278	19	5.9	18	69	26	76	39	18	12	30	1.87
3155202--3155260	13	4.1	13	76	23	64	38	16	13	30	1.88
3155176--3155278	32	3.2	32	95	0	179	38	18	12	30	1.88
3155380--3155424	14	3.0	15	83	9	56	26	0	0	73	0.84
3155381--3155425	15	3.0	15	83	9	56	24	0	0	75	0.80
3155958--3156047	42	2.1	41	76	9	92	40	14	27	17	1.89
3156031--3156874	61	14.4	60	85	7	1007	24	20	29	25	1.99
3156031--3156870	232	3.6	232	88	4	1127	24	20	29	25	1.99
3157844--3157909	1	66.0	1	75	0	60	0	3	9	87	0.63
3157844--3157908	10	6.9	10	84	7	75	0	3	9	87	0.64
3157841--3157908	18	3.8	18	86	9	86	0	4	8	86	0.69
3166651--3166676	13	2.0	13	100	0	52	38	15	15	30	1.88
3166633--3166696	32	2.0	33	90	3	103	42	15	14	28	1.86
3167134--3167200	37	1.9	35	88	11	102	32	11	25	29	1.92
3168715--3168880	84	2.0	84	81	9	196	55	3	16	24	1.57
3170396--3170420	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)
3172336--3172361	13	2.0	13	100	0	52	38	15	15	30	1.88
3172318--3172381	32	2.0	33	90	3	103	42	15	14	28	1.86
3172819--3172885	37	1.9	35	88	11	102	32	11	25	29	1.92
3174901--3174931	4	7.8	4	100	0	62	77	0	0	22	0.77
3176150--3176228	33	2.4	33	91	0	131	37	13	18	29	1.90
3176151--3176216	20	3.7	19	69	26	63	37	13	18	30	1.89
3176252--3176285	13	2.6	13	95	0	59	38	17	14	29	1.90
3177110--3177182	20	3.6	20	81	3	101	35	13	19	31	1.91
3177110--3177204	41	2.3	42	96	1	174	40	12	17	29	1.87
3177243--3177268	13	2.0	13	100	0	52	38	15	15	30	1.88
3181332--3181370	15	2.6	15	91	0	60	51	15	20	12	1.76
3183378--3183455	20	3.6	21	73	15	70	25	12	16	44	1.83
3183442--3183480	13	3.0	13	96	0	69	30	17	15	35	1.91
3185922--3185994	20	3.6	20	81	3	101	35	13	19	31	1.91
3185922--3186016	41	2.3	42	96	1	174	40	12	17	29	1.87
3186055--3186080	13	2.0	13	100	0	52	38	15	15	30	1.88
3195328--3195753	189	2.2	189	85	4	590	41	14	12	32	1.82
3196478--3196582	54	1.9	56	86	5	151	60	14	16	8	1.57
3197052--3197134	35	2.3	36	84	12	109	6	16	7	69	1.31
3197314--3197375	29	2.1	29	87	0	88	9	17	22	50	1.75
3197335--3197411	29	2.6	28	87	4	100	11	22	15	50	1.76
3197623--3197653	5	6.2	5	92	0	53	41	16	22	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3197613--3197653	10	4.3	10	87	9	50	43	14	21	19	1.87
3197855--3197892	3	13.3	3	83	10	53	31	0	2	65	1.06
3198522--3198720	43	4.6	42	76	7	152	18	25	14	41	1.88
3198519--3198707	87	2.2	85	85	4	256	15	26	13	44	1.83
3198811--3198891	31	2.6	31	74	0	81	29	34	23	12	1.91
3198809--3199407	149	4.0	148	79	6	494	29	27	23	19	1.98
3199107--3199187	31	2.6	31	77	11	85	30	33	20	14	1.93
3199259--3199349	31	2.8	31	77	16	87	30	30	24	14	1.94
3198873--3199407	149	3.6	149	82	2	509	30	26	22	20	1.98
3199960--3200092	59	2.3	59	83	0	167	45	15	14	24	1.84

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