genome.fa.s140.2.7.7.80.10.50.1000.6.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  6  of  20  ( 2326 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)
938369--938410	18	2.3	19	87	4	59	40	0	0	59	0.97
938380--938425	22	2.1	22	91	0	74	36	0	0	63	0.95
938414--938479	19	3.5	19	70	10	55	36	0	1	62	1.05
938689--938716	3	9.3	3	100	0	56	32	0	0	67	0.91
948259--948292	14	2.5	14	90	4	52	41	0	0	58	0.98
949351--949416	29	2.2	29	78	7	71	39	0	1	59	1.07
949642--949692	17	3.0	17	85	5	68	54	0	0	45	0.99
949714--949777	18	3.6	17	78	14	67	51	1	0	46	1.10
955060--955132	37	2.0	37	94	0	128	36	23	21	17	1.94
955458--955493	18	2.0	18	89	10	56	63	0	0	36	0.94
955453--955509	23	2.6	23	78	10	57	56	1	0	42	1.10
960148--960191	17	2.4	18	88	7	63	36	2	2	59	1.23
962614--962658	20	2.3	20	85	11	58	64	0	2	33	1.06
962621--962666	22	2.1	22	87	0	65	60	0	2	36	1.09
962597--962660	13	5.4	13	73	17	59	59	0	1	39	1.07
964125--964280	84	1.9	84	88	0	240	21	16	12	49	1.79
966348--966397	17	2.9	17	72	21	50	46	0	0	54	1.00
967123--967307	34	5.5	34	87	3	257	39	27	8	25	1.84
971723--971905	34	5.4	34	84	3	235	39	26	8	26	1.84
971723--971905	102	1.8	101	90	1	294	39	26	8	26	1.84
972970--973014	15	2.9	16	72	21	51	48	0	4	46	1.22
973900--973957	25	2.4	25	88	8	84	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)
973924--974068	5	30.2	5	64	22	53	60	0	0	39	1.02
973900--974069	22	7.8	22	67	19	81	61	0	0	38	1.01
973934--974026	33	2.9	31	80	16	102	58	0	0	41	0.98
974304--974364	17	3.6	17	73	18	56	31	0	0	68	0.89
974287--974364	25	3.1	25	75	5	68	30	0	0	69	0.89
974288--974362	33	2.2	34	79	13	84	32	0	0	68	0.90
974366--974405	17	2.4	17	95	0	71	37	5	12	45	1.64
977637--977676	21	1.9	21	84	0	53	40	15	30	15	1.87
979559--979583	8	3.1	8	100	0	50	48	0	0	52	1.00
979488--979631	73	2.0	73	85	8	195	48	2	4	45	1.33
981901--982009	33	3.2	32	68	20	76	54	8	14	22	1.67
987697--987744	24	1.9	25	91	8	80	33	20	12	33	1.90
988348--988434	22	4.0	23	73	23	73	55	0	0	44	0.99
988348--988434	21	4.0	22	76	18	85	55	0	0	44	0.99
988339--988404	34	2.0	34	85	8	93	51	0	0	48	1.00
988358--988413	16	3.6	16	67	13	53	57	0	0	42	0.99
988370--988435	22	3.0	22	82	12	82	56	0	0	43	0.99
988726--988767	13	3.4	12	81	12	50	54	0	2	42	1.13
994259--994296	19	2.0	19	89	0	58	44	2	0	52	1.14
995281--995329	26	1.9	25	83	4	62	65	2	4	28	1.22
995855--995892	18	2.1	19	90	5	60	23	5	0	71	1.07
996317--996377	22	2.8	22	71	11	54	57	0	3	39	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997077--997137	32	2.0	32	81	9	74	52	0	0	47	1.00
998989--999018	12	2.4	13	88	11	53	43	0	13	43	1.43
1002920--1002996	28	2.8	28	77	16	72	41	2	2	53	1.28
1003005--1003048	19	2.3	19	80	7	54	52	2	0	45	1.13
1003357--1003417	23	2.8	23	75	7	65	62	0	0	37	0.96
1004110--1004143	3	11.3	3	100	0	68	67	0	0	32	0.91
1005870--1005906	2	18.5	2	100	0	74	51	0	0	48	1.00
1006210--1006268	29	2.0	29	86	0	82	47	8	1	42	1.44
1006313--1006352	18	2.1	18	86	9	53	65	0	0	35	0.93
1006656--1006723	17	4.0	18	73	23	58	51	0	1	47	1.09
1006661--1006744	27	3.2	27	79	14	81	52	0	1	46	1.08
1006711--1006764	15	3.7	14	75	7	54	61	0	0	38	0.96
1006731--1006783	19	2.7	19	80	14	54	62	1	1	33	1.17
1007222--1007284	29	2.2	29	85	0	81	53	1	0	44	1.10
1007286--1007333	25	1.9	24	83	8	60	52	2	4	41	1.32
1013686--1014002	160	2.0	159	90	0	499	39	19	11	29	1.86
1014338--1014378	2	20.5	2	94	0	73	48	2	0	48	1.14
1015600--1015628	14	2.1	14	100	0	58	44	6	6	41	1.58
1016276--1016301	3	8.7	3	100	0	52	30	0	0	69	0.89
1018040--1018080	21	1.9	22	90	5	66	46	0	0	53	1.00
1019297--1019348	26	2.0	27	92	3	88	50	0	0	50	1.00
1019728--1019879	17	8.6	17	70	18	71	38	0	0	59	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019724--1019795	25	2.7	25	81	14	81	38	0	0	61	0.96
1019727--1019810	27	3.0	27	76	16	91	39	0	0	60	0.97
1027105--1027167	29	2.1	30	85	8	85	42	0	0	57	0.99
1027106--1027153	21	2.3	21	79	13	55	37	0	0	62	0.95
1027116--1027164	14	3.4	14	78	15	55	40	0	0	59	0.98
1027170--1027225	19	3.0	19	78	17	64	55	3	1	39	1.28
1027386--1027441	28	2.0	29	85	3	78	60	3	0	35	1.14
1028355--1028409	27	2.0	27	100	0	110	32	10	9	47	1.70
1030833--1030893	30	2.0	30	93	0	104	26	14	21	37	1.92
1030843--1030903	30	2.2	27	76	18	70	22	14	19	42	1.88
1041769--1041841	35	2.0	37	82	10	89	49	0	0	50	1.00
1043177--1043201	2	12.5	2	100	0	50	52	0	48	0	1.00
1044886--1044943	29	1.9	30	82	6	73	56	0	0	43	0.99
1045445--1045481	3	12.3	3	100	0	74	64	0	0	35	0.94
1045577--1045615	3	13.0	3	89	10	62	66	0	0	33	0.92
1046337--1046389	23	2.3	24	77	6	56	41	0	3	54	1.18
1050809--1050842	15	2.3	15	89	0	50	26	14	0	58	1.36
1051063--1051095	2	17.0	2	93	6	59	51	0	0	48	1.00
1053035--1053068	4	8.2	4	87	6	50	76	0	0	23	0.79
1053033--1053068	17	2.1	17	90	10	56	75	0	0	25	0.81
1053034--1053070	13	2.9	13	88	4	58	75	0	0	24	0.80
1053053--1053115	32	2.0	32	90	0	99	55	0	1	42	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053315--1053347	4	8.5	4	93	6	59	51	0	0	48	1.00
1053475--1053502	2	14.0	2	100	0	56	50	0	0	50	1.00
1055316--1055414	31	3.3	30	78	16	91	38	1	0	60	1.04
1055352--1055414	18	3.7	18	72	25	64	38	0	0	61	0.96
1056600--1056670	37	1.9	36	83	8	90	57	0	2	39	1.13
1057303--1057366	33	1.9	33	84	6	85	53	0	0	46	1.00
1057361--1057406	23	2.0	23	82	0	56	60	2	2	34	1.21
1058993--1059026	16	2.2	15	94	5	59	52	0	0	47	1.00
1058992--1059035	16	2.7	16	79	13	54	52	0	0	47	1.00
1063911--1063949	15	2.6	15	84	12	53	56	0	2	41	1.13
1063860--1063978	60	2.0	58	86	3	166	52	1	1	44	1.21
1063880--1063982	30	3.5	30	70	16	79	52	1	0	44	1.18
1065402--1065444	15	2.9	15	76	13	52	48	0	0	51	1.00
1065637--1065683	16	2.9	16	78	15	51	57	2	2	38	1.23
1065772--1065932	9	15.5	10	64	26	52	54	3	2	39	1.29
1065777--1065820	21	2.2	20	83	4	52	63	2	0	34	1.07
1065883--1065933	21	2.4	21	83	0	66	60	1	0	37	1.08
1065876--1065945	30	2.3	30	82	4	79	57	2	1	38	1.23
1066046--1066084	9	4.2	9	83	6	51	64	5	0	30	1.15
1066260--1066329	20	3.5	20	72	18	72	48	10	0	41	1.36
1068205--1068249	18	2.4	20	82	14	60	44	0	0	55	0.99
1068233--1068286	26	2.0	29	85	10	78	42	5	0	51	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070000--1070040	21	2.0	20	95	4	73	41	0	0	58	0.98
1070004--1070052	21	2.4	20	83	6	62	48	0	0	51	1.00
1080107--1080149	2	21.5	2	100	0	86	48	0	0	51	1.00
1085569--1085601	15	2.2	15	94	0	57	45	6	9	39	1.61
1086842--1086887	15	3.0	15	81	6	56	32	0	2	65	1.05
1086923--1086962	21	1.9	21	90	10	64	40	0	0	60	0.97
1086909--1087025	56	2.1	55	83	13	145	54	0	0	45	0.99
1086960--1087021	21	2.9	22	78	7	65	56	0	0	43	0.99
1087386--1087439	22	2.5	21	88	5	81	51	0	0	48	1.00
1087387--1087439	21	2.5	21	87	3	79	52	0	0	47	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20