genome.fa.s63.2.7.7.80.10.50.1000.7.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

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

This is table  7  of  16  ( 1834 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)
1050634--1050676	20	2.1	20	83	12	52	55	2	0	41	1.12
1051032--1051083	12	4.3	12	78	7	52	30	1	0	67	1.02
1051043--1051083	12	3.5	12	83	6	57	26	2	0	70	0.99
1051044--1051091	23	2.1	23	88	0	69	25	4	0	70	1.04
1051401--1051444	21	2.1	21	82	0	52	56	0	0	43	0.99
1056498--1056530	17	2.0	17	88	5	50	51	3	0	45	1.16
1056647--1056694	19	2.6	19	78	15	55	64	2	0	33	1.05
1056962--1057019	13	4.2	13	72	20	55	39	0	0	60	0.97
1056963--1057020	29	2.0	28	83	9	73	37	0	0	62	0.96
1056967--1057021	8	7.6	8	73	19	50	38	0	0	61	0.96
1057509--1057556	19	2.5	20	78	15	57	60	0	0	39	0.97
1062408--1062439	2	16.0	2	100	0	64	50	0	0	50	1.00
1062959--1063036	32	2.4	32	80	8	86	56	0	0	43	0.99
1063390--1063443	21	2.5	22	73	5	58	51	0	0	48	1.00
1063790--1063828	20	1.9	20	84	5	51	53	0	0	46	1.00
1063796--1063840	20	2.2	20	84	4	54	51	0	0	48	1.00
1064461--1064516	8	7.7	7	77	15	60	69	3	0	26	1.04
1064461--1064515	15	3.7	15	79	11	69	70	3	0	25	1.03
1064939--1065005	6	10.8	6	78	15	57	46	0	2	50	1.16
1064939--1065005	13	5.4	13	75	13	61	46	0	2	50	1.16
1065027--1065091	22	2.8	23	78	15	71	43	0	0	56	0.99
1065717--1065782	4	17.0	4	84	6	91	71	1	3	24	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1067290--1067327	3	12.3	3	94	5	67	65	0	0	34	0.93
1076304--1076433	16	8.1	16	71	12	72	62	1	1	34	1.14
1080110--1080151	14	2.9	14	86	10	50	64	0	0	35	0.94
1080157--1080195	20	2.0	20	85	10	53	56	0	0	43	0.99
1080130--1080188	27	2.3	23	78	16	64	55	0	0	44	0.99
1080776--1080855	5	17.6	5	70	15	50	57	0	0	42	0.98
1080758--1080842	26	3.2	27	67	14	68	54	0	0	45	1.00
1080740--1080791	19	2.7	19	76	8	61	51	0	0	48	1.00
1080760--1080824	32	2.0	32	82	5	78	49	0	0	50	1.00
1080744--1080822	19	4.0	20	72	16	58	51	0	0	48	1.00
1080776--1080855	13	5.9	15	69	15	50	57	0	0	42	0.98
1081369--1081422	21	2.5	21	77	14	56	40	0	7	51	1.30
1083646--1083706	30	2.1	28	84	6	77	52	0	1	45	1.10
1083688--1083729	21	2.1	19	86	13	57	59	0	0	40	0.97
1084769--1084801	13	2.4	14	90	10	50	57	0	0	42	0.98
1085420--1085479	28	2.1	28	84	0	75	38	1	3	56	1.26
1088763--1088852	8	11.0	8	72	17	69	56	1	0	42	1.06
1088763--1088854	38	2.5	34	81	13	103	55	1	0	43	1.07
1089256--1089297	3	13.7	3	90	5	66	64	0	4	30	1.14
1090834--1090916	9	9.4	9	74	19	61	62	0	0	37	0.95
1090824--1090914	15	6.4	14	75	19	73	63	0	0	36	0.94
1090823--1090916	27	3.5	27	76	15	81	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090834--1090916	24	3.5	24	76	14	84	62	0	0	37	0.95
1090842--1090960	15	7.4	16	66	26	58	58	1	0	39	1.08
1093375--1093414	22	1.9	19	85	14	53	55	0	2	42	1.13
1093397--1093460	15	4.2	15	78	15	69	57	0	0	42	0.98
1093369--1093489	59	2.2	54	81	11	129	57	0	0	41	1.04
1094868--1094896	14	2.1	14	100	0	58	55	6	0	37	1.27
1095906--1095958	21	2.5	21	84	9	72	32	5	3	58	1.39
1097519--1097552	16	2.0	18	88	11	54	70	2	0	26	1.01
1101407--1101490	41	2.0	41	95	0	150	41	21	14	22	1.89
1103677--1103812	65	2.1	65	97	0	254	36	16	19	27	1.94
1104922--1104961	5	7.6	5	89	10	62	40	17	20	22	1.92
1107346--1107398	21	2.6	20	79	5	61	64	0	0	35	0.94
1107347--1107398	20	2.5	20	76	11	52	65	0	0	34	0.93
1107870--1107910	2	20.5	2	100	0	82	48	0	0	51	1.00
1113180--1113222	21	2.0	21	95	0	77	16	16	27	39	1.90
1117401--1117447	24	1.9	25	91	4	78	29	0	0	70	0.88
1117505--1117570	29	2.3	28	85	10	89	63	0	0	36	0.95
1118936--1118973	18	2.0	20	90	10	62	50	0	0	50	1.00
1119351--1119399	20	2.4	19	80	12	53	48	0	0	51	1.00
1119552--1119607	29	1.9	29	96	0	103	55	0	3	41	1.17
1119594--1119642	13	3.9	12	80	12	55	42	2	2	53	1.24
1120112--1120176	23	2.8	22	66	25	53	49	3	1	46	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120378--1120402	13	1.9	13	100	0	50	20	8	0	72	1.10
1121472--1121539	35	2.0	35	82	8	86	38	0	1	60	1.06
1122428--1122478	26	2.0	25	85	11	68	43	0	0	56	0.99
1122484--1122525	22	1.9	22	85	9	59	40	2	2	54	1.26
1122786--1122847	17	3.5	17	84	10	81	32	0	1	66	1.02
1122756--1122842	22	4.1	23	67	21	64	36	0	2	60	1.09
1124007--1124048	17	2.6	16	82	10	59	54	11	2	30	1.49
1124080--1124134	24	2.3	23	81	3	56	58	9	5	27	1.51
1124626--1124681	24	2.2	25	81	15	71	62	3	0	33	1.12
1124635--1124705	21	3.2	21	82	11	63	60	1	0	38	1.06
1125500--1125545	20	2.3	20	88	0	65	34	4	50	10	1.57
1125622--1125692	27	2.6	27	86	6	90	47	22	7	22	1.75
1130069--1130107	20	2.0	20	89	0	60	35	5	46	12	1.65
1130393--1130429	18	2.1	18	100	0	74	18	32	5	43	1.73
1133414--1133481	21	3.1	23	75	16	63	35	4	10	50	1.57
1133840--1133884	18	2.5	19	82	10	67	35	0	0	64	0.94
1133912--1133950	20	2.0	20	90	5	62	46	5	5	43	1.48
1143778--1143810	15	2.2	15	94	0	57	12	18	12	57	1.64
1145359--1145464	33	3.2	33	93	0	176	29	19	26	24	1.99
1151185--1151242	22	2.7	21	77	15	57	44	12	12	31	1.78
1156546--1156611	33	2.0	33	93	0	114	42	22	16	18	1.89
1158500--1158544	15	2.7	17	80	16	58	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158456--1158570	52	2.1	54	82	7	146	39	0	3	57	1.16
1159538--1159595	30	1.9	31	85	3	82	58	0	0	41	0.98
1160169--1160217	22	2.2	22	85	7	64	63	0	0	36	0.95
1160156--1160223	34	2.0	35	85	8	95	64	0	0	35	0.94
1160601--1160629	11	2.6	11	100	0	58	41	6	0	51	1.28
1163416--1163476	27	2.3	26	83	8	79	45	9	26	18	1.80
1168934--1168963	15	2.0	15	100	0	60	26	26	26	20	1.99
1170087--1170134	14	3.1	15	82	14	53	43	0	4	52	1.20
1174772--1174824	14	3.6	14	79	5	52	56	0	0	43	0.99
1174784--1174845	26	2.6	26	82	12	80	56	0	0	43	0.99
1175823--1175911	26	3.3	27	87	4	126	33	1	8	56	1.38
1180089--1180192	28	4.0	27	83	6	117	22	5	22	50	1.70
1180092--1180194	24	4.0	24	80	9	98	22	5	22	49	1.71
1185471--1185501	16	1.9	16	100	0	62	70	0	3	25	1.02
1186227--1186647	148	2.9	148	94	0	709	43	15	17	23	1.87
1189597--1189698	12	8.2	13	69	17	56	48	0	0	51	1.00
1190220--1190473	127	2.0	127	93	0	436	42	8	5	43	1.58
1190531--1190587	14	4.1	14	77	6	62	45	0	0	54	0.99
1190528--1190612	25	3.1	27	75	21	70	50	1	0	48	1.08
1190699--1190755	13	4.1	14	77	18	57	36	0	0	63	0.95
1190715--1190761	23	2.1	23	84	4	60	29	0	2	68	1.02
1190838--1190878	21	2.0	21	85	0	55	48	4	7	39	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191925--1191973	6	7.7	6	85	14	55	51	0	0	48	1.00
1192022--1192080	22	2.9	21	74	16	61	45	0	0	54	0.99
1199557--1199630	11	6.6	11	70	14	53	35	0	0	64	0.94
1199872--1199942	22	3.4	21	81	9	74	49	2	2	45	1.31
1199955--1200049	20	5.1	19	68	16	56	60	2	0	37	1.09
1199995--1200047	16	3.6	15	75	9	56	60	1	0	37	1.08
1200817--1200949	38	3.5	38	86	1	185	27	29	14	29	1.95
1206469--1206546	29	2.6	30	69	6	68	46	3	2	47	1.34
1208894--1208948	25	2.2	25	80	6	67	58	0	3	38	1.16
1208903--1208961	24	2.4	25	83	11	77	55	0	0	44	0.99

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