genome.fa.s57.2.7.7.80.10.50.1000.9.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  9  of  27  ( 3137 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)
1041331--1041386	18	3.2	18	71	28	50	39	0	0	60	0.97
1041325--1041386	19	3.3	19	75	20	58	38	0	0	61	0.96
1041831--1041863	13	2.5	13	85	14	50	48	6	3	42	1.43
1041963--1042016	2	27.0	2	100	0	108	50	0	0	50	1.00
1042207--1042248	22	1.9	22	90	0	66	42	7	2	47	1.43
1044228--1044267	15	2.6	16	88	4	55	40	0	2	57	1.12
1045652--1045690	16	2.4	16	91	0	60	35	0	0	64	0.94
1045701--1045743	19	2.3	19	84	8	52	51	6	0	41	1.29
1045785--1045836	20	2.5	20	84	9	61	61	1	1	34	1.18
1045805--1045846	20	2.2	18	84	16	50	59	0	0	40	0.97
1046414--1046501	10	9.8	9	72	15	51	40	0	0	59	0.98
1046407--1046494	8	10.2	8	69	18	52	40	0	1	57	1.06
1046421--1046487	20	3.8	19	69	30	67	43	0	0	56	0.99
1046414--1046499	32	2.7	32	82	12	106	41	0	0	58	0.98
1046407--1046511	18	5.9	18	72	16	69	39	0	0	60	1.04
1046438--1046538	34	2.9	34	73	17	93	39	0	0	60	0.97
1046478--1046540	17	3.6	17	75	12	56	38	0	0	61	0.96
1046489--1046538	24	2.0	24	88	3	73	38	0	0	62	0.96
1048753--1048796	2	22.0	2	100	0	88	0	50	0	50	1.00
1048796--1048831	2	18.0	2	100	0	72	50	0	0	50	1.00
1049054--1049079	12	2.2	12	100	0	52	34	7	0	57	1.27
1051425--1051470	24	2.0	24	83	12	60	36	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051657--1051689	3	11.0	3	93	0	57	33	3	0	63	1.10
1052364--1052390	4	6.8	4	100	0	54	51	22	0	25	1.48
1055202--1055249	15	3.1	15	78	6	51	62	0	0	37	0.95
1055211--1055257	24	2.0	24	83	8	60	55	0	0	44	0.99
1055243--1055272	12	2.5	12	88	0	51	40	0	0	60	0.97
1057940--1057987	17	2.9	17	81	3	62	56	0	0	43	0.99
1058844--1058874	2	15.5	2	100	0	62	48	0	0	51	1.00
1061102--1061193	32	2.9	32	82	4	98	59	5	0	34	1.20
1063928--1064000	20	3.5	19	76	20	74	42	4	1	52	1.29
1065428--1065466	10	3.9	10	89	0	60	43	0	0	56	0.99
1065428--1065471	15	2.9	15	86	3	52	45	0	0	54	0.99
1065705--1065754	13	3.8	13	81	7	57	44	0	0	56	0.99
1065716--1065759	19	2.4	19	84	3	54	45	0	0	54	0.99
1066262--1066310	19	2.3	22	76	20	59	51	2	0	46	1.12
1066263--1066297	9	3.8	9	85	7	52	57	0	0	42	0.99
1066522--1066560	19	2.1	19	95	0	69	64	2	0	33	1.08
1066566--1066634	36	1.9	36	85	11	97	42	0	0	57	0.98
1066569--1066635	18	3.8	18	77	16	77	43	0	0	56	0.99
1066569--1066633	17	3.7	18	76	17	73	41	0	0	58	0.98
1072329--1072427	49	2.0	49	96	0	180	38	11	23	27	1.88
1073703--1073729	2	13.5	2	100	0	54	51	0	0	48	1.00
1073796--1073838	21	2.2	19	83	8	50	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075298--1075339	21	2.0	20	90	4	66	42	0	0	57	0.99
1075655--1075701	18	2.7	17	75	18	51	31	4	0	63	1.13
1075673--1075719	21	2.2	21	80	0	58	36	4	0	59	1.17
1076280--1076319	3	13.3	3	100	0	80	35	0	0	65	0.93
1076483--1076524	13	3.3	13	83	6	50	50	0	0	50	1.00
1077482--1077533	21	2.4	22	75	12	54	50	0	7	42	1.31
1077574--1077615	14	2.9	15	79	17	52	59	0	0	40	0.97
1077673--1077724	17	2.8	18	82	8	61	40	1	1	55	1.22
1078529--1078584	30	1.9	28	82	7	67	51	5	3	39	1.42
1078617--1078668	18	2.9	18	78	18	56	69	0	0	30	0.89
1078716--1078796	8	9.1	9	70	15	53	67	1	0	30	0.98
1078719--1078797	27	2.9	26	75	20	81	67	1	0	31	0.99
1082872--1082902	14	2.2	14	94	0	53	51	19	12	16	1.76
1084158--1084200	16	2.9	15	81	18	54	46	0	0	53	1.00
1085060--1085122	24	2.7	24	75	20	62	33	6	0	60	1.22
1087630--1087662	13	2.5	13	95	5	57	21	15	15	48	1.81
1091977--1092031	20	2.9	19	76	7	58	63	0	1	34	1.05
1091976--1092017	21	2.0	20	86	13	59	64	0	0	35	0.94
1091955--1092037	37	2.2	36	77	12	87	62	0	1	36	1.03
1093610--1093647	18	2.1	18	85	9	51	2	39	26	31	1.70
1093759--1093850	9	10.1	9	72	15	55	52	0	0	47	1.00
1093786--1093866	19	4.4	19	72	20	73	53	1	1	44	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093759--1093824	22	3.1	22	71	16	59	50	0	0	50	1.00
1096647--1096953	151	2.0	151	91	0	488	28	15	23	32	1.96
1096879--1097659	388	2.0	388	96	0	1427	32	12	24	30	1.92
1102151--1102293	71	2.1	67	88	5	205	25	18	11	44	1.84
1103151--1103570	206	2.0	206	99	0	822	29	12	15	43	1.83
1106818--1106890	31	2.4	31	84	13	89	56	0	0	43	0.99
1106814--1106914	36	3.0	36	72	19	101	57	0	0	41	1.05
1106832--1106890	31	1.9	30	90	10	93	55	0	0	44	0.99
1106824--1106892	25	2.7	26	76	8	72	57	0	0	42	0.98
1111021--1111058	2	19.0	2	94	0	67	50	2	0	47	1.15
1111473--1111509	19	2.1	19	90	10	60	45	0	0	54	1.00
1111430--1111896	173	2.7	174	78	12	512	49	4	8	37	1.52
1111982--1112013	9	3.7	9	95	4	57	31	0	0	68	0.90
1112072--1112120	15	3.3	15	80	2	55	63	0	0	36	0.95
1113743--1113782	21	1.9	21	94	0	71	65	2	7	25	1.32
1113730--1113785	21	2.7	20	81	8	67	58	1	7	32	1.35
1114500--1114533	15	2.3	15	89	0	50	38	5	0	55	1.24
1115436--1115486	19	2.7	19	78	3	59	47	1	1	49	1.24
1115602--1115642	17	2.3	19	83	12	59	70	0	2	26	0.99
1125105--1125143	20	2.0	20	89	0	60	53	2	17	25	1.56
1129785--1129847	20	3.0	21	78	17	69	34	0	0	65	0.93
1129969--1130027	23	2.7	21	80	15	57	59	1	6	32	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131747--1131787	2	20.5	2	100	0	82	51	0	0	48	1.00
1134814--1134841	2	14.0	2	100	0	56	50	0	0	50	1.00
1135229--1135273	19	2.4	19	84	0	54	57	4	0	37	1.19
1138933--1138971	7	5.6	7	100	0	78	0	28	0	71	0.86
1140405--1140443	3	13.0	3	94	0	69	33	0	35	30	1.58
1146764--1146800	2	18.5	2	100	0	74	48	0	0	51	1.00
1149353--1149383	2	15.5	2	93	0	53	51	3	0	45	1.17
1150317--1150382	33	2.0	33	100	0	132	42	0	9	48	1.35
1150327--1150385	17	3.5	17	68	13	59	47	0	6	45	1.29
1150326--1150393	33	2.1	33	86	5	93	45	0	8	45	1.34
1151618--1151668	25	2.0	24	82	14	59	49	0	0	50	1.00
1152261--1152313	23	2.3	23	81	9	56	52	0	0	47	1.00
1152265--1152317	22	2.5	21	79	11	63	52	0	0	47	1.00
1152303--1152354	15	3.4	15	73	21	54	65	1	1	30	1.14
1152296--1152361	17	4.2	16	75	13	57	62	1	1	34	1.14
1152312--1152377	32	2.1	30	86	5	87	60	4	1	33	1.26
1152904--1152943	3	13.3	3	94	0	71	67	2	0	30	1.04
1153213--1153273	27	2.3	26	81	13	72	36	1	0	62	1.05
1153688--1153769	11	6.7	11	71	23	58	51	1	0	47	1.08
1153690--1153775	27	3.3	25	73	15	77	51	1	0	47	1.08
1154112--1154181	24	3.0	24	75	21	67	45	0	0	54	0.99
1154138--1154186	22	2.1	25	88	11	77	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154114--1154186	25	3.1	23	81	14	78	47	0	0	52	1.00
1155493--1155550	23	2.6	21	81	7	71	55	1	0	43	1.10
1156595--1156621	2	13.5	2	100	0	54	51	0	0	48	1.00
1159069--1159106	20	1.9	19	89	5	58	39	0	0	60	0.97
1159279--1159316	20	1.9	20	88	0	58	39	0	0	60	0.97
1160919--1160950	13	2.5	13	100	0	64	21	9	37	31	1.85
1164131--1164207	28	2.8	28	97	0	145	31	14	27	27	1.95
1164164--1164418	79	3.2	77	75	9	237	31	13	26	27	1.94
1164354--1164534	51	3.5	51	80	3	195	32	9	25	32	1.88
1166820--1166962	20	7.8	20	72	20	98	38	14	16	30	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