genome.fa.s479.2.7.7.80.10.50.1000.8.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: Scaffold479
Parameters: 2 7 7 80 10 50 1000
Length:  1265690

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1016 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)
1036411--1037158	166	4.5	165	83	4	800	51	9	8	30	1.64
1036521--1037327	166	4.9	165	80	5	778	51	9	9	30	1.65
1039033--1039281	123	2.0	123	100	0	498	32	17	18	31	1.94
1039988--1040296	150	2.1	150	83	6	378	38	18	15	27	1.91
1041685--1041722	20	1.9	20	94	0	67	42	13	13	31	1.82
1041749--1041824	20	3.7	19	81	11	73	31	14	15	38	1.88
1044758--1044830	20	3.6	20	81	3	101	35	13	19	31	1.91
1044776--1044851	21	3.7	21	80	3	100	42	11	17	28	1.84
1044758--1044851	41	2.3	41	98	0	179	39	12	18	29	1.88
1044890--1044915	13	2.0	13	100	0	52	38	15	15	30	1.88
1048979--1049009	15	2.1	15	93	0	53	48	16	22	12	1.80
1051023--1051101	20	3.7	21	75	15	72	26	13	15	44	1.84
1051088--1051126	13	3.0	13	96	0	69	30	17	15	35	1.91
1052967--1053062	48	2.0	48	100	0	192	37	8	29	25	1.85
1053617--1053689	20	3.6	20	81	3	101	35	13	19	31	1.91
1053635--1053710	21	3.7	21	80	3	100	42	11	17	28	1.84
1053617--1053710	41	2.3	41	98	0	179	39	12	18	29	1.88
1053749--1053774	13	2.0	13	100	0	52	38	15	15	30	1.88
1060934--1060959	2	13.0	2	100	0	52	50	0	0	50	1.00
1064686--1064729	23	2.0	22	86	4	61	52	0	0	47	1.00
1067638--1067671	12	2.8	13	91	8	54	0	14	0	85	0.60
1068463--1068491	3	10.0	3	92	7	51	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072108--1072134	4	6.8	4	100	0	54	22	0	0	77	0.76
1074962--1075158	99	2.0	100	86	3	281	45	3	4	46	1.39
1079398--1079467	33	2.1	33	86	5	97	34	17	12	35	1.88
1079517--1079579	32	1.9	32	87	9	92	36	12	19	31	1.89
1080254--1080320	24	2.6	25	88	11	100	28	29	2	38	1.72
1081271--1081295	13	1.9	13	100	0	50	32	16	16	36	1.90
1094805--1094844	20	2.0	21	85	14	57	25	15	5	55	1.60
1097060--1097157	33	3.0	33	83	3	126	31	19	13	35	1.90
1099894--1099960	33	2.0	33	85	5	91	35	19	13	31	1.90
1099989--1100080	20	4.7	19	75	5	67	35	10	18	34	1.86
1100010--1100061	19	2.7	20	82	8	63	42	11	15	30	1.82
1106842--1106969	52	2.5	52	94	3	224	30	17	17	33	1.94
1106978--1107002	13	1.9	13	100	0	50	36	16	16	32	1.90
1107043--1107109	33	2.0	33	88	0	98	40	13	11	34	1.81
1107065--1107089	13	1.9	13	100	0	50	32	16	16	36	1.90
1107901--1108027	67	1.9	68	85	1	175	39	12	24	23	1.89
1108041--1108877	49	17.7	49	86	8	1186	29	18	26	24	1.98
1108031--1108882	97	9.1	92	90	7	1166	29	18	26	24	1.98
1108247--1108315	22	3.2	22	62	25	56	30	20	26	23	1.98
1108226--1108293	21	3.2	21	62	25	52	27	19	27	25	1.98
1108041--1108882	140	5.9	140	92	3	1300	29	18	26	24	1.98
1108387--1108455	22	3.2	22	62	25	56	30	20	26	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108877--1108946	33	2.1	35	94	5	126	20	17	37	25	1.94
1108931--1109451	33	15.3	35	79	13	424	32	12	34	20	1.89
1108985--1109142	27	5.1	29	79	13	133	28	13	36	22	1.92
1108931--1109485	70	8.2	69	75	14	437	32	12	34	20	1.90
1109179--1109544	168	2.2	165	79	12	383	34	13	31	20	1.91
1109443--1109578	62	2.2	63	89	4	213	28	16	30	24	1.96
1109425--1109586	32	5.2	30	84	9	191	30	15	31	22	1.95
1110519--1110592	1	74.0	1	72	0	58	0	8	5	86	0.70
1110512--1110592	11	7.2	11	76	10	67	0	8	6	85	0.75
1110519--1110592	28	2.7	27	87	6	105	0	8	5	86	0.70
1110512--1110580	12	6.0	11	76	15	68	0	8	5	85	0.74
1115895--1115946	20	2.6	20	87	6	70	28	19	13	38	1.89
1118473--1118989	164	3.1	162	81	9	566	28	7	17	46	1.75
1119421--1119461	20	2.0	20	100	0	82	21	19	19	39	1.93
1123148--1123195	17	2.8	17	74	0	51	45	10	4	39	1.58
1123229--1123933	166	4.3	165	83	5	802	28	11	7	52	1.64
1123229--1123934	330	2.1	332	82	6	837	28	11	7	52	1.65
1124150--1124174	12	2.1	12	100	0	50	0	40	0	60	0.97
1126152--1126454	155	2.0	154	80	3	349	22	18	21	38	1.93
1132928--1132982	28	2.0	28	88	0	83	29	12	10	47	1.76
1140428--1140558	52	2.5	52	85	2	174	31	16	18	34	1.93
1140428--1140579	52	2.9	51	82	5	155	32	15	18	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140623--1140674	13	3.5	13	73	26	50	36	17	13	32	1.89
1140896--1140986	24	3.6	24	64	16	67	30	8	12	48	1.71
1145581--1145625	20	2.3	20	88	7	67	64	0	0	35	0.94
1145581--1145637	18	3.1	19	80	9	64	61	0	0	38	0.96
1152663--1152704	22	1.9	22	90	0	66	21	33	4	40	1.74
1159282--1159332	13	4.4	13	72	27	60	37	17	13	31	1.89
1159282--1159350	33	2.1	33	89	5	104	36	20	13	30	1.90
1159380--1159434	19	2.8	19	88	2	74	34	18	16	30	1.93
1159419--1159445	13	2.1	13	100	0	54	40	14	14	29	1.86
1161767--1162162	201	2.0	201	99	0	783	43	11	5	38	1.65
1164429--1164463	18	1.9	18	88	0	52	40	5	0	54	1.24
1167545--1167647	49	2.1	50	96	1	190	32	8	12	46	1.72
1169251--1169346	32	2.8	34	81	15	110	34	22	12	30	1.91
1169795--1169895	52	1.9	52	93	0	175	38	15	16	28	1.90
1171596--1171620	13	1.9	13	100	0	50	32	8	20	40	1.81
1173159--1173218	21	2.9	21	79	20	72	20	25	1	53	1.55
1173182--1173225	21	2.1	21	83	8	54	20	27	0	52	1.47
1175759--1176143	184	2.1	183	95	1	691	42	17	9	30	1.81
1177124--1177183	28	2.1	28	81	9	68	55	6	3	35	1.43
1177121--1177479	155	2.3	154	83	4	447	51	8	9	31	1.63
1179818--1179843	13	2.0	13	100	0	52	30	15	7	46	1.74
1181001--1181211	44	4.8	44	79	5	205	42	18	21	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181195--1181359	87	1.9	87	88	0	249	42	13	22	21	1.88
1181355--1181407	25	2.1	25	92	0	88	45	13	20	20	1.84
1181280--1181487	106	2.0	106	89	0	317	43	13	21	20	1.87
1181380--1181754	81	4.8	81	79	7	375	42	11	23	22	1.86
1181195--1181569	187	2.0	189	85	4	504	43	13	22	20	1.87
1181550--1182125	35	15.5	35	68	15	169	41	10	25	22	1.85
1181658--1181976	35	8.7	35	75	8	226	40	9	26	22	1.85
1181550--1182125	186	3.1	184	82	2	706	41	10	25	22	1.85
1181855--1182208	149	2.3	152	82	5	432	42	12	24	20	1.86
1184473--1184512	11	3.7	11	96	3	73	27	0	0	72	0.85
1184473--1184518	22	2.0	23	88	12	69	26	0	0	73	0.83
1185735--1185793	18	3.5	17	74	17	52	1	10	11	76	1.10
1185712--1185767	24	2.3	25	78	9	62	3	8	12	75	1.17
1185743--1185797	24	2.5	22	69	25	53	1	12	14	70	1.24
1186018--1186062	3	15.7	3	82	17	60	68	0	0	31	0.89
1186018--1186062	23	2.0	23	91	8	74	68	0	0	31	0.89
1186230--1186275	5	9.8	5	77	13	53	80	0	0	19	0.71
1186230--1186275	9	4.9	10	76	12	53	80	0	0	19	0.71
1186229--1186278	22	2.3	22	89	6	75	80	0	0	20	0.72
1186975--1187431	88	5.2	87	72	8	343	45	13	24	17	1.83
1186980--1187402	176	2.4	174	83	3	521	46	13	23	16	1.82
1187469--1188075	40	15.1	40	73	8	297	39	14	27	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187711--1188010	81	3.7	80	77	6	302	37	13	28	20	1.91
1187647--1188042	161	2.5	160	77	3	402	38	13	27	20	1.91
1187470--1187873	121	3.3	120	79	5	368	40	15	26	17	1.90
1187794--1188075	121	2.3	121	77	4	268	37	13	28	20	1.90
1188355--1188410	20	2.8	19	89	5	76	41	16	16	26	1.88
1188480--1188505	13	2.0	13	100	0	52	38	15	15	30	1.88
1188462--1188525	32	2.0	33	90	3	103	42	15	14	28	1.86
1190725--1190774	21	2.3	21	80	10	57	56	4	18	22	1.58
1192572--1192603	15	2.1	15	94	0	55	46	15	21	15	1.83
1194683--1194720	13	2.9	13	96	0	67	34	18	15	31	1.92

Tables:   1   2   3   4   5   6   7   8   9