genome.fa.s174.2.7.7.80.10.50.1000.9.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

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

This is table  9  of  15  ( 1687 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)
1036504--1036567	30	2.1	30	91	0	101	4	9	50	35	1.56
1036343--1036617	132	2.1	131	79	8	290	10	11	47	30	1.73
1036646--1036777	48	2.7	47	83	4	183	15	9	49	26	1.74
1037840--1037886	19	2.5	19	83	12	62	53	0	2	44	1.12
1037960--1037984	9	2.8	9	100	0	50	12	0	0	88	0.53
1038422--1038454	13	2.5	13	95	5	57	45	0	0	54	0.99
1038524--1038610	13	6.5	13	69	22	56	62	0	1	36	1.03
1038524--1038570	5	9.6	5	82	13	53	65	0	0	34	0.93
1038520--1038581	16	3.9	15	82	12	61	66	0	0	33	0.92
1038823--1038890	6	12.0	6	90	6	83	48	0	0	51	1.00
1038827--1038875	5	9.4	5	95	2	71	46	0	0	53	1.00
1038833--1038977	16	9.3	16	78	11	99	46	0	6	45	1.34
1039130--1039164	11	3.1	11	84	8	52	40	0	0	60	0.97
1039320--1039354	18	1.9	18	88	0	52	51	2	2	42	1.31
1039723--1039800	37	2.2	36	82	11	90	57	0	0	42	0.98
1039823--1039881	20	2.8	20	73	14	57	67	1	0	30	1.00
1040224--1040388	8	20.8	8	66	21	55	40	1	0	57	1.09
1040280--1040356	16	4.9	16	69	13	61	40	1	0	58	1.06
1040282--1040391	43	2.5	42	82	11	116	39	0	0	60	1.03
1041386--1041417	14	2.1	16	88	11	50	40	3	0	56	1.15
1041416--1041462	24	2.0	24	86	0	67	61	0	2	36	1.08
1041440--1041493	29	1.9	27	85	14	74	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041423--1041495	24	2.7	26	78	17	78	56	0	1	42	1.08
1043417--1043454	17	2.3	17	86	4	51	57	0	10	31	1.32
1043661--1043747	5	17.0	5	71	19	56	63	1	0	35	1.02
1043861--1043917	18	3.1	18	82	12	62	66	0	0	33	0.92
1043851--1043917	32	2.2	30	83	5	80	65	1	0	32	1.02
1047233--1047280	19	2.5	20	83	10	64	58	0	2	39	1.10
1047319--1047353	18	1.9	19	88	11	56	42	2	0	54	1.15
1047400--1047474	20	4.0	20	75	16	72	53	0	0	46	1.00
1047534--1047573	3	13.3	3	100	0	80	67	0	0	32	0.91
1047665--1047703	20	2.0	20	85	10	53	46	0	7	46	1.31
1047758--1047827	24	2.9	24	75	8	70	27	4	1	67	1.18
1047751--1047828	29	2.6	31	82	13	110	28	5	1	65	1.22
1049094--1049160	29	2.3	30	89	2	100	47	0	1	50	1.10
1049094--1049175	30	2.8	29	76	12	78	50	0	3	46	1.19
1053001--1053031	16	2.0	16	93	6	55	25	19	12	41	1.87
1058834--1058878	18	2.4	18	81	7	54	42	0	2	55	1.12
1062441--1062483	20	2.2	20	95	0	77	46	2	4	46	1.36
1062857--1062914	21	2.6	23	78	15	77	46	0	0	53	1.00
1064004--1064038	17	2.0	17	88	5	52	65	0	0	34	0.93
1064075--1064116	22	1.9	22	90	0	66	57	0	4	38	1.20
1064204--1064255	2	26.0	2	88	0	68	48	3	0	48	1.20
1064196--1064255	20	3.1	20	90	4	88	46	6	0	46	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064352--1064380	3	9.7	3	100	0	58	31	0	0	68	0.89
1065336--1065368	10	3.0	11	91	8	50	21	0	0	78	0.75
1065807--1065907	52	1.9	52	82	7	125	37	7	11	42	1.71
1066845--1066874	11	2.7	11	94	0	51	46	33	10	10	1.71
1070640--1070692	24	2.2	23	83	9	70	64	0	0	35	0.94
1071281--1071320	15	2.7	14	85	11	53	50	2	0	47	1.14
1071294--1071340	21	2.2	21	82	14	53	46	2	0	51	1.13
1076478--1076554	24	3.1	26	75	14	74	49	0	0	50	1.00
1076443--1076575	43	3.0	43	74	16	119	51	0	0	48	1.00
1078808--1078861	9	6.2	9	75	16	51	42	1	1	53	1.22
1078807--1078844	12	3.4	11	82	17	51	44	0	0	55	0.99
1080735--1080774	19	2.1	19	90	0	62	37	0	5	57	1.21
1083418--1083460	20	2.2	20	95	0	77	46	13	2	37	1.57
1085628--1085660	2	16.5	2	100	0	66	51	0	0	48	1.00
1088673--1088737	33	2.0	33	82	14	82	43	0	0	56	0.99
1088712--1088793	12	6.4	13	73	18	57	34	0	1	64	1.01
1088726--1088809	29	2.8	30	73	20	84	35	1	2	60	1.17
1088676--1088771	17	5.5	17	65	18	54	37	0	1	61	1.03
1088749--1088799	17	3.2	16	78	15	61	35	0	0	64	0.94
1088806--1088891	20	4.4	19	71	19	61	36	0	0	63	0.94
1088922--1089026	20	5.1	20	69	17	70	54	0	0	44	1.06
1088938--1088975	19	1.9	19	89	5	58	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088912--1089029	25	5.1	25	70	20	80	55	0	0	44	1.05
1088966--1089019	17	3.3	17	68	19	51	48	1	0	50	1.11
1088958--1089044	40	2.1	44	81	12	103	51	3	0	44	1.18
1089950--1089977	3	9.3	3	100	0	56	32	35	0	32	1.58
1091694--1091746	25	2.1	25	82	0	61	43	1	1	52	1.23
1092015--1092083	23	3.3	23	76	21	80	63	0	0	36	0.94
1092016--1092196	28	6.4	28	68	19	101	57	0	0	41	1.03
1092022--1092198	42	4.6	40	72	16	140	57	0	0	42	1.03
1092068--1092139	34	2.2	31	85	7	90	54	0	0	45	0.99
1092013--1092196	11	17.8	11	68	21	87	57	0	0	41	1.03
1092324--1092384	2	30.5	2	100	0	122	50	0	0	49	1.00
1092889--1092923	17	1.9	19	88	11	56	62	0	0	37	0.95
1092896--1092947	23	2.3	23	86	6	70	59	0	0	40	0.97
1093058--1093104	21	2.2	21	92	0	76	34	0	0	65	0.93
1093383--1093427	20	2.3	19	84	3	54	33	0	0	66	0.92
1093790--1093828	19	2.1	18	90	4	60	33	0	0	66	0.92
1096279--1096306	3	9.3	3	100	0	56	32	0	0	67	0.91
1096985--1097042	21	2.8	20	82	7	71	58	0	1	39	1.08
1097462--1097552	39	2.4	39	80	12	100	50	0	2	47	1.13
1099041--1099340	164	1.8	163	88	0	456	24	19	28	28	1.98
1099935--1099995	30	2.0	30	96	0	113	24	9	11	54	1.66
1103452--1103477	2	13.0	2	100	0	52	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)
1106817--1106857	21	1.9	21	90	5	64	70	0	2	26	0.99
1107285--1107321	16	2.4	16	86	8	51	43	0	5	51	1.24
1108342--1108385	19	2.3	19	80	7	54	65	0	0	34	0.93
1109125--1109174	26	2.0	26	84	11	68	54	2	2	42	1.23
1110559--1110606	15	3.0	16	72	9	53	37	0	4	58	1.18
1110723--1110795	25	2.8	25	80	17	78	60	0	0	39	0.97
1111099--1111149	2	27.0	2	79	18	56	45	1	1	50	1.24
1112892--1112929	16	2.4	16	86	4	51	63	2	0	34	1.09
1115846--1115886	20	2.2	20	86	8	59	43	0	0	56	0.99
1117135--1117194	25	2.3	26	81	16	72	45	1	1	51	1.21
1117116--1117181	9	6.2	10	76	20	55	46	1	0	51	1.10
1118028--1118063	2	18.0	2	94	0	63	50	0	2	47	1.15
1118955--1118986	16	2.1	16	94	5	57	40	0	3	56	1.15
1120913--1120949	2	18.5	2	88	0	56	48	0	0	51	1.00
1128431--1128494	28	2.3	28	83	5	76	43	0	0	56	0.99
1128455--1128485	13	2.4	13	94	0	53	41	0	0	58	0.98
1128595--1128619	13	1.9	13	100	0	50	80	0	0	20	0.72
1130525--1130570	15	3.0	16	75	9	51	50	2	2	45	1.26
1134265--1134304	19	2.1	19	100	0	80	37	15	5	42	1.68
1135135--1135175	5	8.6	5	94	2	50	0	19	0	80	0.71
1136010--1136039	3	10.0	3	100	0	60	33	0	0	66	0.92
1136276--1136308	13	2.4	14	90	10	50	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136294--1136342	16	2.8	18	76	23	59	44	0	0	55	0.99
1136606--1136660	16	3.4	16	75	9	58	47	0	0	52	1.00
1137350--1137395	13	3.6	13	80	13	60	39	0	0	60	0.97
1137345--1137395	18	2.7	19	82	14	61	39	0	0	60	0.97
1137345--1137395	20	2.8	17	80	14	57	39	0	0	60	0.97
1138051--1138134	39	2.1	40	84	8	109	45	2	1	51	1.22
1138505--1138529	2	12.5	2	100	0	50	48	0	0	52	1.00
1140079--1140109	2	15.5	2	100	0	62	0	48	0	51	1.00
1141285--1141327	21	2.1	21	87	12	63	55	0	0	44	0.99
1141675--1141701	2	13.5	2	100	0	54	48	0	0	51	1.00

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