genome.fa.s35.2.7.7.80.10.50.1000.7.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   28   29   30   

This is table  7  of  30  ( 3549 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)
994979--995117	52	2.7	50	82	13	158	33	16	17	32	1.93
995106--995130	13	1.9	13	100	0	50	36	16	16	32	1.90
995171--995237	33	2.0	33	88	0	98	40	13	11	34	1.81
995193--995217	13	1.9	13	100	0	50	32	16	16	36	1.90
995761--995787	13	2.1	13	100	0	54	29	7	14	48	1.71
995771--995827	19	2.9	19	81	2	69	33	14	15	36	1.88
995873--995935	13	4.3	13	73	24	54	34	19	11	34	1.87
995856--995957	33	3.1	33	88	2	152	33	15	16	34	1.91
1002118--1002144	13	2.1	13	100	0	54	29	14	14	40	1.86
1004701--1004727	13	2.1	13	100	0	54	29	14	14	40	1.86
1004711--1004767	19	2.9	19	84	2	78	33	15	15	35	1.90
1004813--1004842	13	2.3	13	94	0	51	33	20	10	36	1.86
1004796--1004864	33	2.1	33	86	5	95	31	15	17	34	1.92
1005633--1005680	15	3.2	14	80	13	51	70	4	16	8	1.27
1005633--1005665	14	2.2	15	89	10	50	69	6	15	9	1.34
1006038--1006062	13	1.9	13	100	0	50	32	16	16	36	1.90
1006132--1006183	20	2.7	20	91	8	81	38	17	15	28	1.90
1008427--1008545	52	2.3	51	92	4	195	31	16	18	33	1.94
1008427--1008565	52	2.7	50	84	13	167	32	16	18	32	1.94
1008554--1008578	13	1.9	13	100	0	50	36	16	16	32	1.90
1008619--1008685	33	2.0	33	88	0	98	40	13	11	34	1.81
1008641--1008665	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009209--1009235	13	2.1	13	100	0	54	29	7	14	48	1.71
1009219--1009275	19	2.9	19	81	2	69	33	14	15	36	1.88
1009321--1009383	13	4.3	13	73	24	54	34	19	11	34	1.87
1009304--1009405	33	3.1	33	88	2	152	33	15	16	34	1.91
1015567--1015593	13	2.1	13	100	0	54	29	14	14	40	1.86
1018150--1018176	13	2.1	13	100	0	54	29	14	14	40	1.86
1018160--1018216	19	2.9	19	84	2	78	33	15	15	35	1.90
1018262--1018291	13	2.3	13	94	0	51	33	20	10	36	1.86
1018245--1018313	33	2.1	33	86	5	95	31	15	17	34	1.92
1019082--1019114	14	2.2	15	89	10	50	69	6	15	9	1.34
1019487--1019511	13	1.9	13	100	0	50	32	16	16	36	1.90
1019581--1019632	20	2.7	20	91	8	81	38	17	15	28	1.90
1026902--1026941	13	3.1	13	85	0	62	32	12	17	37	1.87
1027057--1027099	21	2.0	22	86	4	61	20	18	0	60	1.36
1029412--1029478	33	2.0	33	88	0	98	34	11	13	40	1.81
1029432--1029456	13	1.9	13	100	0	50	36	16	16	32	1.90
1029534--1029677	52	2.8	49	85	10	182	33	18	17	30	1.94
1029554--1029677	52	2.4	52	93	4	207	34	18	17	29	1.94
1032830--1032880	21	2.4	22	83	9	61	37	5	11	45	1.65
1032849--1032891	22	2.0	22	81	4	52	41	6	9	41	1.64
1032990--1033063	20	3.8	19	82	5	76	29	16	14	39	1.88
1034210--1035076	88	9.9	88	83	2	918	22	19	14	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034210--1035076	264	3.3	264	82	2	1062	22	19	14	43	1.87
1035561--1035825	114	2.3	114	83	3	311	17	16	18	47	1.83
1035926--1036185	75	3.5	72	78	7	234	31	16	9	41	1.81
1036609--1037185	123	4.7	122	77	8	463	18	21	11	48	1.79
1036584--1037202	41	15.1	41	75	7	400	18	21	10	48	1.79
1037235--1037320	40	2.2	40	82	4	102	25	19	5	48	1.71
1037262--1037344	40	2.1	40	90	0	130	25	14	4	55	1.59
1037408--1037580	80	2.2	80	83	0	220	21	24	12	40	1.89
1037368--1037560	41	4.8	41	68	10	112	21	24	12	41	1.88
1037608--1037977	66	5.6	66	74	6	284	18	24	13	44	1.85
1037649--1037971	132	2.4	133	83	3	384	19	24	13	43	1.86
1038010--1038181	65	2.6	66	87	5	244	15	21	16	46	1.84
1039444--1039493	26	1.9	26	84	8	66	30	4	0	66	1.10
1039465--1039523	18	3.3	18	79	13	59	32	0	0	67	0.91
1042119--1042232	32	3.5	31	76	7	104	26	14	12	46	1.80
1042560--1042722	87	1.9	87	88	2	247	28	15	18	36	1.92
1048975--1049252	79	3.6	76	84	8	344	31	12	27	28	1.92
1051604--1051661	22	2.7	22	80	12	68	41	5	17	36	1.72
1051663--1051693	14	2.2	14	94	0	53	29	19	12	38	1.89
1051749--1051795	21	2.3	21	85	3	60	29	14	12	42	1.83
1059234--1059272	13	3.0	13	96	0	69	35	15	17	30	1.91
1061271--1061301	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063100--1063149	21	2.3	23	80	13	61	22	22	4	52	1.64
1065368--1065393	13	2.0	13	100	0	52	30	15	15	38	1.88
1065442--1065515	20	3.7	20	82	8	78	29	17	13	39	1.88
1068028--1068181	78	2.0	78	85	5	213	35	11	24	28	1.91
1070671--1070726	20	2.8	20	88	2	85	28	16	10	44	1.80
1071045--1071122	18	4.2	19	75	15	58	8	16	1	73	1.15
1071053--1071085	9	3.5	10	88	12	52	0	18	0	81	0.68
1071114--1071168	29	1.9	29	85	10	78	5	16	1	76	1.06
1073135--1073205	37	1.9	37	82	5	90	21	12	8	57	1.61
1073299--1073353	21	2.8	19	74	17	51	29	16	3	50	1.62
1073796--1073836	15	2.8	15	85	10	50	24	4	0	70	1.06
1075431--1075806	155	2.4	157	84	3	485	24	18	18	38	1.93
1079774--1079798	13	1.9	13	100	0	50	32	16	16	36	1.90
1079786--1079838	20	2.6	21	82	8	65	37	16	16	28	1.91
1079898--1079923	13	2.0	13	100	0	52	38	15	15	30	1.88
1081655--1082009	81	4.4	80	78	10	321	33	9	27	29	1.88
1086660--1087122	166	2.8	164	79	5	499	50	8	11	29	1.68
1086814--1087249	167	2.6	165	79	7	450	50	7	10	32	1.63
1088136--1088179	22	2.0	23	86	4	63	36	22	11	29	1.89
1088316--1088362	16	2.9	16	90	0	76	14	17	27	40	1.89
1093680--1093716	2	18.5	2	94	0	65	54	0	45	0	1.00
1103995--1104019	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103974--1104039	32	2.0	33	97	2	125	34	18	12	34	1.88
1105001--1105043	18	2.4	18	80	0	50	30	4	2	62	1.28
1104958--1105282	157	2.1	156	80	6	352	31	10	7	50	1.65
1107184--1107209	13	2.0	13	100	0	52	38	15	15	30	1.88
1108994--1109156	81	2.0	81	95	0	290	21	20	19	39	1.93
1113195--1113247	25	2.1	25	100	0	106	32	11	16	39	1.85
1114228--1114271	17	2.5	17	85	3	52	40	0	9	50	1.34
1115773--1115832	20	2.8	22	80	16	81	35	15	13	36	1.86
1119780--1119820	21	2.0	21	90	0	64	29	17	14	39	1.89
1119930--1119959	15	1.9	16	93	6	53	0	16	3	80	0.85
1120111--1120162	27	2.0	26	84	3	68	59	1	3	34	1.27
1120403--1120450	21	2.3	20	86	6	69	35	16	8	39	1.79
1120513--1120587	21	3.5	21	74	13	73	38	13	12	36	1.82
1124754--1124779	13	2.0	13	100	0	52	30	15	15	38	1.88
1124734--1124797	32	2.0	33	90	3	103	28	14	18	39	1.90
1124734--1124804	19	4.0	18	72	25	62	26	12	21	39	1.89
1126841--1126883	20	2.1	20	82	4	50	9	27	44	18	1.80
1127324--1127349	13	2.0	13	100	0	52	38	15	15	30	1.88
1129276--1129306	15	2.1	15	93	0	53	12	22	16	48	1.80
1133380--1133405	13	2.0	13	100	0	52	30	15	15	38	1.88
1133360--1133423	32	2.0	33	90	3	103	28	14	18	39	1.90
1133360--1133430	19	4.0	18	72	25	62	26	12	21	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133444--1133516	20	3.6	20	81	9	76	30	16	13	39	1.87
1133464--1133519	20	2.8	20	89	5	78	30	16	14	39	1.88
1137821--1140482	887	3.0	887	99	0	5236	35	11	23	29	1.90
1145210--1145243	13	2.6	13	85	0	50	35	14	11	38	1.83
1147032--1147119	37	2.5	37	87	5	128	50	0	20	29	1.49
1147782--1147820	20	1.9	21	89	5	62	38	20	17	23	1.93
1147939--1147972	13	2.6	13	85	0	50	35	11	14	38	1.83
1147923--1147992	33	2.1	33	84	5	88	35	11	17	35	1.85
1149299--1149354	19	2.9	19	76	12	69	37	16	17	28	1.91
1149339--1149363	13	1.9	13	100	0	50	36	16	16	32	1.90

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   28   29   30