genome.fa.s498.2.7.7.80.10.50.1000.11.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: Scaffold498
Parameters: 2 7 7 80 10 50 1000
Length:  1804022

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  11  of  17  ( 1953 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)
1048152--1048196	16	2.8	16	82	0	54	46	0	0	53	1.00
1048943--1049007	29	2.3	29	84	7	89	52	0	0	47	1.00
1050522--1050553	2	16.0	2	100	0	64	50	0	0	50	1.00
1050639--1050703	25	2.7	24	83	9	71	41	13	1	43	1.54
1051179--1051236	31	1.9	31	89	3	91	44	8	3	43	1.51
1051296--1051347	25	2.1	24	85	3	68	65	1	7	25	1.30
1052025--1052089	28	2.3	29	80	17	75	52	0	0	47	1.00
1052666--1052768	19	5.4	19	68	19	63	60	0	0	38	1.04
1052908--1052933	6	4.3	6	100	0	52	53	0	0	46	1.00
1053422--1053451	16	1.9	16	93	6	53	53	0	3	43	1.17
1053661--1053700	3	13.3	3	100	0	80	32	0	0	67	0.91
1054308--1054368	22	2.9	22	86	11	76	45	1	0	52	1.10
1054968--1055016	15	3.4	14	81	18	57	53	0	2	44	1.12
1054968--1055016	14	3.5	13	83	13	53	53	0	2	44	1.12
1055020--1055149	32	4.3	32	75	15	93	54	0	4	40	1.21
1055069--1055150	27	3.0	26	76	15	83	58	0	3	37	1.16
1055748--1055788	17	2.5	16	84	7	55	60	0	4	34	1.18
1056182--1056218	2	18.5	2	100	0	74	51	0	0	48	1.00
1057582--1057658	2	41.5	2	75	14	58	44	1	6	48	1.37
1057824--1057892	33	2.2	31	84	5	84	43	0	1	55	1.08
1058211--1058257	23	2.0	25	84	16	64	40	4	0	55	1.19
1059006--1059040	14	2.6	13	86	8	52	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059009--1059040	13	2.4	14	94	5	57	68	0	0	31	0.90
1059298--1059348	21	2.4	21	77	6	59	66	0	1	31	1.03
1059596--1059621	2	13.0	2	100	0	52	50	0	50	0	1.00
1060672--1060710	19	2.0	20	90	5	62	58	0	0	41	0.98
1062174--1062212	20	1.9	21	89	5	62	64	2	0	33	1.08
1062805--1062860	17	3.4	17	80	11	55	23	14	17	44	1.85
1062846--1062883	16	2.4	16	95	0	67	18	15	26	39	1.91
1063958--1064016	16	3.7	16	80	8	57	22	16	20	40	1.91
1064183--1064250	18	3.9	18	70	26	56	42	1	1	54	1.18
1064185--1064253	33	2.1	33	84	10	88	42	1	1	55	1.18
1064486--1064621	9	14.4	10	67	20	55	58	0	0	39	1.08
1064504--1064602	8	11.9	8	68	22	53	59	0	0	40	0.97
1064533--1064590	19	3.0	19	80	5	62	55	0	0	44	0.99
1064504--1064602	43	2.4	42	75	11	105	59	0	0	40	0.97
1064739--1064802	6	10.8	6	83	14	64	46	0	0	53	1.00
1064734--1064806	6	11.0	7	77	16	50	49	0	0	50	1.00
1064734--1064817	13	6.4	13	74	16	66	48	0	0	51	1.00
1064875--1064956	34	2.5	34	80	11	91	52	2	0	45	1.14
1065536--1065589	24	2.2	25	81	15	60	37	0	5	57	1.22
1065645--1065695	25	2.0	25	88	7	77	33	0	0	66	0.92
1065615--1065691	11	7.2	11	71	11	61	31	1	1	66	1.08
1065644--1065691	5	9.4	5	80	13	53	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1066218--1066275	22	2.5	23	81	13	57	41	3	0	55	1.17
1066235--1066283	22	2.3	22	79	10	57	46	4	0	48	1.20
1067373--1067479	25	4.5	23	71	16	69	52	0	0	46	1.06
1067389--1067499	16	7.2	16	73	17	83	54	0	0	45	1.06
1067504--1067542	19	2.1	18	90	4	60	61	2	2	33	1.23
1067750--1067794	23	1.9	24	86	4	65	46	2	4	46	1.35
1069143--1069171	4	7.2	4	100	0	58	24	0	0	75	0.80
1069390--1069433	2	22.5	2	86	13	65	47	0	2	50	1.13
1069506--1069543	20	1.9	20	100	0	76	15	21	7	55	1.66
1071101--1071145	16	2.6	17	79	10	56	64	2	0	33	1.06
1071556--1071592	12	3.1	13	81	18	53	70	0	0	29	0.88
1071556--1071595	19	2.1	19	85	0	53	70	0	0	30	0.88
1072028--1072095	33	2.1	34	83	10	88	44	0	1	54	1.09
1072466--1072549	44	1.9	44	90	0	132	35	8	28	27	1.86
1073209--1073254	3	15.3	3	100	0	92	67	0	0	32	0.91
1073479--1073538	17	3.4	18	86	8	81	33	0	3	63	1.11
1073478--1073547	28	2.6	28	80	17	85	31	0	4	64	1.13
1073479--1073538	11	5.3	11	78	6	66	33	0	3	63	1.11
1074083--1074143	23	2.7	22	76	14	70	60	0	1	37	1.07
1074135--1074203	26	2.8	25	71	6	77	50	0	0	49	1.00
1074459--1074498	4	9.8	4	83	5	53	25	2	2	70	1.13
1074924--1074966	14	2.8	16	75	13	54	60	2	2	34	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074924--1074991	29	2.3	30	85	7	86	57	4	2	35	1.34
1075380--1075445	34	2.1	30	83	16	80	51	0	0	48	1.00
1075977--1076012	3	12.0	3	100	0	72	33	0	0	66	0.92
1076539--1076573	5	7.0	5	87	12	54	42	0	0	57	0.99
1076519--1076618	53	1.9	52	82	10	123	51	1	1	47	1.14
1081358--1081394	17	2.1	18	85	14	51	29	0	2	67	1.04
1081939--1082009	35	2.1	35	84	10	94	43	4	0	52	1.20
1083235--1083279	24	2.0	23	83	16	58	8	44	11	35	1.71
1100238--1100288	25	2.1	23	85	7	66	56	0	0	43	0.99
1101144--1101168	10	2.5	10	100	0	50	40	0	0	60	0.97
1101239--1101279	18	2.3	18	84	15	59	58	7	0	34	1.26
1104816--1104842	13	2.1	13	100	0	54	62	0	7	29	1.22
1105184--1105231	10	4.5	10	79	10	51	35	0	0	64	0.94
1105188--1105229	20	2.0	20	86	13	57	33	0	0	66	0.92
1105857--1105888	14	2.3	14	94	0	55	18	3	3	75	1.08
1106249--1106283	2	17.5	2	100	0	70	48	0	0	51	1.00
1110836--1110873	3	12.7	3	94	0	67	63	0	34	2	1.09
1110924--1110957	6	5.7	6	100	0	68	35	17	14	32	1.91
1111829--1111855	2	13.5	2	100	0	54	51	0	0	48	1.00
1112381--1112421	21	2.0	20	85	4	55	41	12	0	46	1.41
1115435--1115469	1	35.0	1	100	0	70	0	0	100	0	0.00
1121751--1121790	2	20.0	2	100	0	80	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)
1124612--1124637	3	8.7	3	100	0	52	0	30	0	69	0.89
1124686--1124720	1	35.0	1	88	0	52	0	0	5	94	0.32
1125275--1125308	14	2.4	14	95	0	59	20	26	23	29	1.99
1126972--1127006	7	4.9	7	89	6	52	17	28	31	22	1.96
1127682--1127732	11	4.5	11	87	2	75	33	1	0	64	1.05
1127684--1127746	22	3.0	19	75	24	56	34	1	0	63	1.04
1127677--1127738	22	2.7	24	80	14	76	37	1	0	61	1.06
1127682--1127734	17	3.2	17	79	12	65	33	1	0	64	1.05
1128231--1128273	15	2.9	15	89	3	70	48	9	0	41	1.35
1128231--1128272	7	5.6	8	81	13	54	50	9	0	40	1.35
1128228--1128272	22	2.0	23	91	4	74	48	8	0	42	1.34
1128529--1128606	31	2.4	33	80	10	88	38	1	3	56	1.26
1129339--1129393	21	2.6	21	88	5	76	60	0	0	40	0.97
1129879--1129922	2	22.0	2	95	0	79	52	0	0	47	1.00
1130971--1131050	9	8.4	9	72	24	67	62	0	0	37	0.95
1130974--1131050	13	5.4	14	69	22	54	62	0	0	37	0.96
1130909--1131051	16	8.9	16	68	18	75	62	2	0	34	1.07
1130969--1131063	24	3.8	25	72	18	83	62	1	1	35	1.10
1131815--1131851	19	1.9	19	89	10	58	59	0	0	40	0.97
1132822--1132892	20	3.5	20	76	0	79	32	12	14	40	1.83
1137419--1137462	13	3.2	13	81	12	61	56	0	0	43	0.99
1137426--1137460	16	2.4	14	90	9	52	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138389--1138568	56	3.2	56	87	3	256	37	6	8	47	1.60
1138389--1138598	56	3.8	56	84	4	255	38	7	8	45	1.62
1138389--1138598	112	1.9	112	87	5	309	38	7	8	45	1.62
1139219--1139278	24	2.5	24	78	13	61	58	0	1	40	1.08
1139386--1139421	2	18.0	2	100	0	72	50	0	0	50	1.00
1141409--1141444	18	2.0	18	94	0	63	27	2	16	52	1.57
1141928--1141952	2	12.5	2	100	0	50	48	0	0	52	1.00
1146916--1147016	37	2.9	34	84	8	139	28	2	30	37	1.72
1149673--1149747	39	1.9	39	81	5	89	54	1	1	42	1.17
1151522--1151562	17	2.3	18	80	15	50	68	0	0	31	0.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17