genome.fa.s16.2.7.7.80.10.50.1000.7.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   
          33   34   35   

This is table  7  of  35  ( 4175 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)
959850--959874	13	1.9	13	100	0	50	32	16	16	36	1.90
959831--959893	32	2.0	32	93	0	108	38	15	11	34	1.83
962718--962814	20	4.7	20	81	7	113	38	13	18	29	1.89
963552--963681	49	2.7	49	90	2	190	31	16	30	20	1.95
963758--964479	28	25.2	28	79	10	383	26	16	29	27	1.97
963746--964172	120	3.6	119	82	5	451	23	16	29	30	1.97
964142--964575	55	7.9	55	86	2	514	29	14	30	25	1.95
964011--964576	28	20.4	28	81	5	490	28	15	29	26	1.96
964144--964575	27	15.7	27	81	2	468	29	14	30	25	1.95
973010--973104	20	4.8	20	78	0	100	36	15	13	33	1.87
973010--973104	40	2.4	40	85	0	118	36	15	13	33	1.87
974193--974223	3	10.3	3	92	0	53	29	35	0	35	1.58
975808--975863	20	2.8	20	86	8	78	35	17	14	32	1.90
975886--975948	19	3.3	19	80	6	74	34	15	12	36	1.86
975932--975958	13	2.1	13	100	0	54	40	14	14	29	1.86
975913--975977	32	2.0	33	90	3	105	43	13	15	27	1.85
976086--976135	22	2.3	21	86	10	66	50	14	8	28	1.70
976086--976144	21	2.8	22	80	14	70	47	15	6	30	1.71
976871--976922	20	2.5	20	84	3	68	34	15	9	40	1.80
978045--978187	67	2.1	67	81	6	157	30	15	13	40	1.85
979744--979807	32	1.9	34	90	9	105	37	7	0	54	1.29
979919--979982	28	2.5	25	72	18	60	70	3	6	20	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980421--980678	122	2.1	122	95	1	464	24	8	17	50	1.72
981639--982085	155	2.9	153	81	5	533	23	17	21	38	1.93
984191--984246	28	1.9	28	89	7	85	35	19	23	21	1.96
984284--984453	52	3.3	52	78	10	156	30	14	27	28	1.95
984433--984505	27	2.6	28	82	8	96	26	21	31	20	1.98
984234--984614	51	7.3	50	69	12	187	32	12	25	28	1.93
986959--986984	13	2.0	13	100	0	52	38	15	15	30	1.88
986938--987004	33	2.0	33	88	0	98	43	16	14	25	1.86
987024--987091	19	3.9	18	76	23	83	38	14	11	35	1.83
987046--987070	13	1.9	13	100	0	50	32	16	16	36	1.90
987027--987089	32	2.0	32	96	0	117	36	15	12	34	1.86
987710--987773	33	2.0	32	87	3	92	29	14	14	42	1.84
987820--987928	52	2.1	52	80	0	128	36	14	15	33	1.88
988326--988403	31	2.3	32	85	10	95	33	14	20	32	1.92
988319--988403	36	2.5	35	83	10	106	34	12	20	32	1.90
993616--993657	22	2.0	21	90	9	68	40	7	9	42	1.65
993757--993808	19	2.7	20	84	3	79	30	15	11	42	1.82
993854--993962	52	2.1	52	84	0	146	34	14	17	33	1.90
994383--994515	34	4.0	34	85	6	166	33	12	24	30	1.92
997932--998963	55	18.4	55	88	6	1356	27	30	19	21	1.98
998149--998231	27	3.0	27	60	16	62	28	30	19	21	1.98
997932--998963	506	2.0	506	96	1	1894	27	30	19	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999623--999722	19	5.9	19	72	25	98	36	11	14	39	1.81
999625--999719	32	3.0	32	93	0	163	35	11	14	37	1.83
999762--999787	13	2.0	13	100	0	52	30	15	15	38	1.88
1002144--1002274	52	2.5	51	80	6	147	29	25	11	32	1.91
1002211--1002414	107	1.9	107	80	4	241	26	28	16	28	1.97
1002291--1002491	79	2.5	79	82	3	217	24	29	16	29	1.97
1009190--1009309	52	2.3	51	94	4	206	30	18	18	33	1.95
1009190--1009329	52	2.7	50	85	13	178	31	17	18	32	1.95
1009318--1009342	13	1.9	13	100	0	50	36	16	16	32	1.90
1009383--1009449	33	2.0	33	88	0	98	40	13	11	34	1.81
1009405--1009429	13	1.9	13	100	0	50	32	16	16	36	1.90
1010368--1011046	49	14.0	49	83	6	767	31	17	26	24	1.97
1010315--1011046	98	7.5	98	86	6	923	31	17	26	24	1.97
1010376--1011046	244	2.8	239	84	4	843	30	18	26	24	1.97
1011113--1011604	33	15.1	33	82	12	443	34	13	31	20	1.92
1011290--1011476	61	3.1	60	87	4	259	32	14	32	20	1.93
1011329--1011441	27	4.0	26	72	19	100	27	15	34	23	1.94
1011487--1011600	30	3.7	29	87	8	138	29	17	28	24	1.97
1011223--1011604	189	2.0	188	81	7	443	33	14	30	21	1.93
1012527--1012558	16	1.9	17	93	6	57	0	6	9	84	0.78
1012798--1012866	13	5.7	12	84	6	86	0	0	13	86	0.56
1012785--1012855	32	2.2	33	82	5	81	1	4	15	78	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012798--1012869	33	2.2	33	92	7	121	0	0	12	87	0.54
1012809--1012883	34	2.2	32	80	13	80	2	4	9	84	0.86
1012798--1012869	1	72.0	1	74	0	63	0	0	12	87	0.54
1019417--1019536	52	2.3	51	94	4	206	30	18	18	33	1.95
1019417--1019556	52	2.7	50	85	13	178	31	17	18	32	1.95
1019545--1019569	13	1.9	13	100	0	50	36	16	16	32	1.90
1019610--1019676	33	2.0	33	88	0	98	40	13	11	34	1.81
1019632--1019656	13	1.9	13	100	0	50	32	16	16	36	1.90
1020654--1020711	20	2.9	20	87	7	82	39	17	10	32	1.83
1020654--1020728	20	3.8	20	81	8	73	38	16	10	34	1.83
1021187--1021238	17	2.9	18	80	8	52	57	0	1	40	1.10
1021204--1021238	17	2.1	17	89	10	54	57	0	2	40	1.14
1021249--1021290	15	2.8	14	89	10	57	7	16	0	76	1.00
1021524--1021571	12	3.8	12	82	17	62	70	2	20	6	1.19
1021919--1021959	17	2.3	18	87	4	57	24	0	4	70	1.06
1022510--1022548	21	1.9	21	94	5	71	33	10	17	38	1.84
1026130--1026202	38	1.9	39	86	5	105	42	0	1	56	1.08
1026348--1026376	12	2.3	13	94	5	51	82	6	0	10	0.83
1026347--1026384	18	2.1	18	90	5	58	76	10	0	13	1.02
1027053--1027090	15	2.8	14	88	11	53	65	2	0	31	1.06
1027241--1027278	10	3.5	11	79	13	51	57	2	0	39	1.12
1027237--1027277	22	2.0	20	90	9	64	58	2	0	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027515--1027588	22	2.8	27	73	23	68	60	5	2	31	1.33
1030646--1030676	2	15.5	2	100	0	62	0	48	0	51	1.00
1032608--1032640	9	3.3	10	91	8	50	90	0	9	0	0.44
1033185--1033217	3	11.3	3	93	6	59	30	0	0	69	0.88
1037961--1038009	25	2.0	25	88	8	73	53	14	12	20	1.73
1041296--1041334	19	2.1	19	85	9	53	23	5	2	69	1.21
1041559--1041602	2	22.0	2	100	0	88	50	0	0	50	1.00
1041510--1041602	31	3.0	31	82	4	100	47	5	4	43	1.46
1042592--1042640	20	2.5	19	78	21	64	32	16	14	36	1.89
1043806--1043831	13	2.0	13	100	0	52	38	15	15	30	1.88
1043788--1043851	32	2.0	33	90	3	103	39	18	14	28	1.90
1046039--1046088	21	2.3	21	80	10	57	56	4	18	22	1.58
1049996--1050047	13	4.0	13	100	0	104	30	15	15	38	1.88
1050168--1050213	21	2.2	20	81	11	58	32	19	4	43	1.71
1052599--1052624	13	2.0	13	100	0	52	38	15	15	30	1.88
1052581--1052644	32	2.0	33	90	3	103	39	18	14	28	1.90
1054009--1054105	49	2.0	50	87	6	144	17	16	14	51	1.77
1054117--1054360	58	4.2	56	78	6	195	27	12	14	45	1.82
1056427--1056609	97	1.9	97	87	2	269	37	12	22	27	1.90
1059021--1059070	20	2.4	21	90	3	75	36	18	8	38	1.80
1059689--1060074	52	7.3	52	76	4	306	34	14	24	26	1.94
1059839--1060163	110	3.1	107	76	11	304	32	16	25	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060057--1060113	19	2.9	20	76	21	66	28	21	22	28	1.99
1060045--1060109	20	3.3	21	74	22	77	27	16	24	30	1.97
1060154--1060264	52	2.1	52	83	3	143	38	12	18	29	1.88
1059883--1060275	201	2.0	201	83	5	499	34	14	23	27	1.94
1060178--1060296	52	2.3	52	81	8	143	37	11	21	29	1.89
1060351--1060463	32	3.5	31	76	8	93	26	14	27	31	1.94
1060452--1060516	28	2.3	29	86	7	89	32	10	32	24	1.90
1063404--1063657	30	9.0	29	78	10	213	28	12	33	25	1.92
1063472--1063515	21	2.1	21	91	8	72	36	2	36	25	1.69
1063617--1063763	72	2.0	72	96	0	267	26	14	29	29	1.96

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   
          33   34   35