genome.fa.s412.2.7.7.80.10.50.1000.6.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   31   32   

This is table  6  of  32  ( 3728 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)
959882--959932	25	1.9	28	88	11	81	37	0	0	62	0.95
959892--959937	22	2.1	21	84	11	58	36	0	0	63	0.95
959941--960003	14	4.6	14	75	20	53	46	0	0	53	1.00
959908--959991	25	3.6	24	75	15	79	44	0	0	55	0.99
961240--961338	33	2.9	35	76	10	107	55	2	0	42	1.11
961492--961560	30	2.2	32	84	5	88	55	1	0	43	1.08
961521--961603	37	2.3	37	85	6	107	54	0	0	45	0.99
962763--962809	19	2.4	19	85	3	58	55	0	0	44	0.99
963017--963078	22	2.8	22	76	14	65	33	0	1	64	1.03
966778--966811	2	17.0	2	93	0	59	52	0	0	47	1.00
967019--967044	2	13.0	2	100	0	52	50	0	0	50	1.00
967135--967189	26	2.0	28	86	10	78	30	0	0	69	0.89
967144--967194	12	4.2	12	78	12	59	27	0	0	72	0.85
973207--973262	22	2.5	22	97	0	103	46	1	7	44	1.41
973558--973599	20	2.2	20	91	4	68	52	0	0	47	1.00
973596--973637	22	2.0	21	86	13	59	57	0	0	42	0.99
975048--975103	16	3.3	16	80	9	67	42	3	0	53	1.18
976820--976859	17	2.4	17	86	0	53	57	0	0	42	0.98
976812--976873	20	3.2	18	74	17	54	53	1	0	45	1.10
979480--979545	23	2.9	22	84	8	78	59	1	0	39	1.07
979943--979968	5	5.2	5	100	0	52	57	0	0	42	0.98
980490--980517	13	2.2	13	100	0	56	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980754--980791	2	19.0	2	94	0	67	47	2	0	50	1.15
982075--982120	19	2.4	20	82	10	60	41	0	0	58	0.98
982787--982828	19	2.3	18	80	15	50	57	4	9	28	1.51
985944--986000	17	3.2	17	72	13	53	54	1	0	43	1.10
985948--986000	18	3.1	17	77	15	56	54	1	0	43	1.11
986537--986573	14	2.6	14	91	0	56	48	2	0	48	1.15
986535--986609	14	6.0	12	77	9	55	54	1	0	44	1.08
986688--986751	16	3.9	16	80	15	60	57	4	0	37	1.19
986653--986729	21	3.7	21	76	10	68	61	1	0	37	1.05
986688--986735	5	9.0	5	80	11	51	58	2	0	39	1.10
988388--988412	2	12.5	2	100	0	50	52	0	0	48	1.00
988944--988983	19	2.2	19	90	4	64	70	0	0	30	0.88
988936--988979	23	1.9	23	81	9	54	65	0	0	34	0.93
1001563--1001600	20	2.0	20	84	5	51	44	0	0	55	0.99
1001679--1001711	15	2.1	16	94	5	59	57	0	0	42	0.98
1003380--1003474	46	2.0	47	93	2	165	53	3	25	17	1.58
1011840--1011891	27	1.9	27	84	0	68	44	0	0	55	0.99
1012765--1012793	12	2.3	13	94	5	51	72	0	6	20	1.07
1027637--1027683	24	2.0	25	87	8	71	57	4	2	36	1.30
1032596--1032667	21	3.3	21	73	9	65	40	0	0	59	0.97
1032821--1032876	17	3.4	17	80	9	55	46	0	0	53	1.00
1032925--1032994	32	2.1	34	86	5	99	37	5	0	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033954--1033991	9	4.0	9	87	12	58	63	2	0	34	1.09
1034172--1034223	25	2.0	26	85	10	72	50	0	1	48	1.12
1034427--1034464	3	13.0	3	88	5	51	28	0	5	65	1.14
1034779--1034803	12	2.1	12	100	0	50	48	0	0	52	1.00
1035149--1035210	19	3.2	20	80	8	67	29	6	1	62	1.29
1035167--1035217	23	2.2	23	83	10	68	21	3	1	72	1.11
1036625--1036671	14	3.1	14	78	21	58	44	0	0	55	0.99
1038779--1038881	30	3.4	30	68	21	79	47	8	0	43	1.34
1038847--1038934	30	2.8	32	83	8	85	45	12	3	38	1.59
1038877--1038934	30	1.9	31	92	3	100	44	12	5	37	1.64
1038766--1038927	61	2.6	60	79	6	157	44	11	1	42	1.49
1039081--1039162	37	2.2	38	76	10	98	45	6	2	46	1.41
1039627--1039687	21	3.3	18	75	16	54	52	0	6	40	1.27
1039866--1039896	15	2.0	16	93	6	55	29	6	0	64	1.18
1040288--1040332	23	2.0	22	83	12	56	51	0	0	48	1.00
1041162--1041216	24	2.2	26	87	6	78	40	0	1	58	1.09
1041242--1041332	48	1.9	47	86	6	130	50	1	0	48	1.08
1041945--1041977	2	16.5	2	100	0	66	0	48	0	51	1.00
1044975--1045016	21	2.0	21	100	0	84	47	0	9	42	1.36
1045096--1045120	13	1.9	13	100	0	50	32	0	0	68	0.90
1050709--1050766	25	2.2	25	79	11	64	43	3	0	53	1.17
1050933--1050961	13	2.1	14	93	6	51	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054770--1054847	40	2.0	40	100	0	156	51	11	19	17	1.76
1054772--1054836	20	3.2	20	63	16	53	50	10	20	18	1.76
1060561--1060614	16	3.1	16	81	10	54	48	0	0	51	1.00
1060611--1060675	23	2.7	24	72	9	62	46	0	3	50	1.17
1061951--1062003	19	2.7	21	86	11	69	58	1	0	39	1.09
1062663--1062712	2	25.5	2	76	11	50	48	2	0	50	1.12
1062663--1062712	15	3.1	17	80	11	59	48	2	0	50	1.12
1063453--1063487	16	2.2	16	89	0	52	62	2	2	31	1.24
1064237--1064316	28	2.8	28	83	12	92	53	1	0	45	1.08
1064275--1064324	26	1.9	26	84	8	66	56	2	0	42	1.11
1064723--1064766	5	8.4	5	80	9	52	38	2	0	59	1.10
1071879--1071907	10	3.0	10	95	5	51	27	0	0	72	0.85
1075808--1075849	17	2.4	17	80	15	50	69	4	0	26	1.08
1076162--1076195	17	2.1	15	89	10	50	38	2	0	58	1.13
1076661--1076714	21	2.6	20	73	5	54	42	0	1	55	1.10
1076710--1076756	13	3.4	14	76	8	51	59	0	0	40	0.97
1076733--1076771	17	2.2	18	90	9	62	51	0	0	48	1.00
1083176--1083208	15	2.3	15	89	5	50	51	0	36	12	1.39
1083581--1083624	21	2.2	19	84	8	52	59	0	4	36	1.18
1083625--1083662	19	2.0	20	84	5	51	50	0	0	50	1.00
1083914--1083949	16	2.2	16	95	0	63	47	0	0	52	1.00
1083921--1083991	20	3.3	21	73	13	56	42	1	0	56	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084077--1084133	15	3.8	15	73	17	55	56	3	0	40	1.17
1084116--1084168	21	2.5	21	76	8	54	66	1	1	30	1.13
1085319--1085409	31	2.8	32	75	19	91	46	0	0	53	1.00
1085688--1085739	17	3.2	17	86	8	72	53	0	0	46	1.00
1085692--1085759	26	2.7	25	78	14	61	54	0	1	44	1.09
1085808--1085838	15	2.1	15	94	5	55	67	0	0	32	0.91
1085817--1085856	20	2.0	20	85	5	53	60	0	0	40	0.97
1085925--1085960	16	2.2	17	90	5	56	41	0	0	58	0.98
1085940--1086016	32	2.4	34	87	10	108	41	0	1	57	1.07
1085936--1086051	32	3.8	30	75	22	82	37	0	0	61	1.02
1085996--1086052	16	3.6	16	77	13	55	31	0	0	68	0.90
1086812--1086849	17	2.2	18	85	4	51	47	2	0	50	1.15
1086835--1086899	20	3.3	20	75	18	73	55	0	0	44	0.99
1086812--1086899	38	2.2	41	86	7	121	52	1	0	46	1.08
1086834--1086924	38	2.3	39	81	11	105	52	1	2	43	1.20
1088191--1088237	19	2.4	21	75	13	55	57	0	0	42	0.98
1088375--1088428	16	3.1	17	81	7	65	50	0	1	48	1.11
1088943--1088999	23	2.4	23	82	8	62	52	1	1	43	1.21
1089363--1089392	13	2.3	13	100	0	60	66	0	0	33	0.92
1089380--1089428	17	2.8	17	78	3	62	65	0	0	34	0.93
1089353--1089427	26	2.7	28	73	12	82	64	0	0	36	0.94
1090550--1090582	16	2.1	16	94	0	57	75	3	0	21	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090817--1090841	7	3.6	7	100	0	50	48	12	16	24	1.79
1093364--1093468	31	3.4	31	75	15	92	52	0	0	47	1.00
1094220--1094258	19	2.1	19	85	0	51	56	0	0	43	0.99
1094303--1094362	17	3.7	15	74	20	50	48	0	0	51	1.00
1095288--1095323	2	18.0	2	100	0	72	50	0	0	50	1.00
1095448--1095501	20	2.7	21	77	5	58	51	0	3	44	1.19
1096273--1096327	19	2.8	19	86	2	65	65	1	3	29	1.20
1096701--1096937	5	49.2	5	65	21	89	62	0	3	34	1.12
1096706--1096863	45	3.5	45	94	2	266	64	0	5	30	1.15
1096705--1096863	22	7.0	23	78	15	172	64	0	5	30	1.14

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   31   32