genome.fa.s36.2.7.7.80.10.50.1000.6.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

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   

This is table  6  of  28  ( 3342 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)
905701--905733	16	2.1	16	88	11	50	30	12	27	30	1.92
906846--907304	53	8.8	53	81	6	418	33	16	24	25	1.96
907661--907725	19	3.8	18	75	24	77	32	10	15	41	1.81
907663--907738	32	2.4	32	88	0	116	32	13	15	38	1.86
907778--907802	13	1.9	13	100	0	50	32	16	16	36	1.90
914024--914081	20	2.8	21	86	5	82	37	12	13	36	1.82
914405--914640	52	4.5	53	79	5	246	33	14	24	27	1.94
914764--914829	33	2.0	33	87	0	96	30	15	25	28	1.96
914797--914946	60	2.5	59	79	6	160	24	20	27	28	1.99
915077--915147	30	2.4	30	82	0	79	32	14	26	26	1.94
914939--915270	29	11.5	29	79	7	282	28	14	31	25	1.94
916667--916707	16	2.6	16	84	3	57	9	7	0	82	0.83
919550--919610	19	3.1	20	79	9	72	45	13	11	29	1.78
933663--933728	9	7.4	9	80	13	75	87	9	3	0	0.63
933662--933728	26	2.6	27	88	6	95	86	10	2	0	0.67
933663--933719	1	57.0	1	78	0	60	89	7	3	0	0.58
933663--933729	17	3.8	18	84	9	86	86	8	4	0	0.69
934742--934826	37	2.3	37	93	0	143	25	14	14	45	1.82
935188--935501	29	11.0	28	81	7	330	29	28	18	22	1.97
935196--935501	57	5.4	56	82	4	328	29	29	18	22	1.97
936669--936706	20	1.9	20	88	0	58	34	10	10	44	1.73
937844--937900	20	2.8	20	89	2	78	40	10	12	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
949798--949850	21	2.6	21	93	3	90	35	9	16	37	1.82
953130--953200	33	2.2	33	94	2	126	32	19	11	36	1.87
955163--955191	2	14.5	2	100	0	58	48	0	0	51	1.00
955694--955767	23	3.2	23	77	5	78	64	0	0	35	0.94
955681--955767	36	2.4	35	79	9	93	66	0	0	33	0.92
955733--955778	22	2.0	23	83	8	58	54	2	2	41	1.25
956151--956186	6	6.2	6	87	6	56	50	2	0	47	1.15
956430--956498	15	4.7	15	73	10	52	56	0	1	42	1.08
956438--956485	16	3.0	15	79	11	51	64	0	2	33	1.05
957151--957182	16	2.1	16	94	5	57	59	0	0	40	0.97
959889--959918	2	15.5	2	93	6	53	50	0	0	50	1.00
960063--960089	2	13.5	2	100	0	54	51	0	0	48	1.00
961775--961809	19	1.9	19	88	11	56	54	2	0	42	1.15
964340--964367	2	14.0	2	100	0	56	50	0	0	50	1.00
971491--971724	50	4.7	49	86	2	297	32	16	20	30	1.95
971471--971724	100	2.5	100	88	1	348	32	17	19	30	1.95
978231--978272	16	2.5	17	77	14	52	26	4	4	64	1.33
978505--978647	38	3.8	38	74	12	114	29	14	17	38	1.90
978669--978707	2	19.5	2	94	0	69	48	2	0	48	1.15
980893--981092	79	2.5	79	80	4	197	30	16	28	25	1.96
981047--981123	28	2.8	28	85	0	91	24	19	32	23	1.97
981107--981443	52	6.4	52	68	17	185	31	12	26	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
981040--981445	212	1.9	212	88	3	620	31	13	27	28	1.94
981263--981333	27	2.6	27	88	2	97	22	21	32	23	1.98
980993--981384	107	3.7	105	71	13	305	30	14	27	27	1.95
983807--983832	13	2.0	13	100	0	52	38	15	15	30	1.88
983786--983852	33	2.0	33	88	0	98	43	16	14	25	1.86
983872--983939	19	3.9	18	76	23	83	38	14	11	35	1.83
983894--983918	13	1.9	13	100	0	50	32	16	16	36	1.90
983875--983937	32	2.0	32	96	0	117	36	15	12	34	1.86
988664--988713	16	3.1	16	76	23	52	38	0	0	62	0.96
999215--999303	45	2.0	45	100	0	178	31	4	22	41	1.74
1001722--1001746	7	3.6	7	100	0	50	88	0	0	12	0.53
1002221--1002277	17	3.2	17	76	13	62	71	5	1	21	1.14
1003363--1003436	27	2.7	27	80	0	85	24	6	17	51	1.69
1003398--1003453	27	2.0	27	83	10	69	26	7	14	51	1.67
1006005--1006050	21	2.1	22	84	4	58	30	17	30	21	1.96
1007705--1007768	27	2.4	27	86	0	83	25	10	18	45	1.82
1008982--1009026	16	2.7	17	75	6	56	37	6	0	55	1.26
1010336--1010382	24	2.0	24	84	16	62	40	6	6	46	1.55
1011779--1012003	96	2.3	95	82	6	263	35	11	24	28	1.90
1014370--1014483	52	2.2	51	78	7	124	44	12	11	31	1.77
1014526--1014597	20	3.5	20	85	9	92	34	12	9	43	1.76
1017243--1017570	73	4.5	73	80	1	302	26	13	24	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017243--1017570	145	2.3	147	82	5	400	26	13	24	36	1.92
1017588--1018509	67	13.8	67	72	7	337	24	14	20	39	1.91
1018020--1018264	132	1.9	132	81	1	303	25	16	20	37	1.93
1018536--1018744	74	2.8	74	83	2	249	27	15	23	33	1.95
1018556--1018818	74	3.6	73	79	5	217	25	15	23	35	1.94
1022890--1022932	18	2.4	17	81	11	50	62	0	0	37	0.95
1028401--1028450	24	2.2	23	86	10	68	18	8	4	70	1.28
1030527--1030562	2	18.0	2	100	0	72	50	0	0	50	1.00
1032036--1032109	37	2.0	37	100	0	148	35	2	13	48	1.57
1033907--1033956	21	2.3	21	79	3	55	48	10	8	34	1.66
1034206--1034247	22	1.9	22	85	0	57	52	19	2	26	1.58
1034286--1034330	24	1.9	23	81	4	54	33	2	4	60	1.29
1034625--1034673	21	2.3	21	85	0	62	40	10	12	36	1.77
1034899--1034955	21	2.7	21	78	10	62	52	5	5	36	1.47
1035562--1035594	17	1.9	17	88	11	50	63	0	0	36	0.95
1035627--1035659	15	2.2	15	94	0	57	27	0	0	72	0.85
1035806--1035894	32	2.7	33	77	14	87	49	2	0	48	1.13
1036418--1036507	45	2.0	45	80	4	101	36	3	5	54	1.40
1036511--1036577	14	4.9	14	78	8	68	49	0	0	50	1.00
1036605--1036661	23	2.6	21	84	10	62	64	7	0	28	1.19
1036615--1036664	23	2.2	23	96	0	91	66	8	0	26	1.19
1038437--1038480	18	2.4	19	80	7	54	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038437--1038482	13	3.7	13	74	11	51	67	0	0	32	0.91
1038696--1038735	20	2.0	20	90	9	64	70	0	15	15	1.18
1040271--1040311	2	20.5	2	100	0	82	48	0	0	51	1.00
1040949--1041005	29	2.0	29	82	6	71	52	1	1	43	1.21
1041340--1041433	30	3.2	30	73	7	84	41	9	3	45	1.53
1042432--1042501	28	2.5	27	80	11	70	62	4	2	30	1.28
1043333--1043366	11	2.8	12	86	13	52	0	14	0	85	0.60
1043333--1043366	17	1.9	18	94	5	61	0	14	0	85	0.60
1044059--1044103	15	2.7	18	77	19	53	42	2	2	53	1.25
1045005--1045075	30	2.4	30	81	9	76	56	2	0	40	1.14
1045024--1045180	37	4.2	36	70	14	90	49	3	1	45	1.29
1045024--1045164	15	9.0	15	66	16	63	49	3	1	45	1.28
1045123--1045157	16	2.2	16	100	0	70	57	0	0	42	0.99
1046353--1046381	2	14.5	2	100	0	58	51	0	0	48	1.00
1047950--1047978	14	2.1	14	100	0	58	34	13	0	51	1.42
1052526--1052558	2	16.5	2	100	0	66	48	0	0	51	1.00
1053507--1053543	2	18.5	2	100	0	74	51	48	0	0	1.00
1054810--1054872	27	2.3	27	91	5	101	47	19	7	25	1.76
1059805--1059844	2	19.5	2	89	5	62	50	0	5	45	1.23
1064956--1064980	5	5.0	5	100	0	50	40	0	40	20	1.52
1065125--1065208	28	3.1	25	75	14	78	36	0	0	63	0.95
1065164--1065251	40	2.1	41	78	12	92	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065170--1065231	32	2.0	31	84	9	81	40	0	0	59	0.97
1065147--1065229	27	2.9	30	74	13	86	39	0	0	60	0.97
1065189--1065249	22	2.9	21	86	11	81	39	0	0	60	0.97
1065499--1065554	28	2.0	29	82	6	71	64	0	8	26	1.23
1066007--1066107	29	3.5	28	79	14	100	69	2	0	27	1.03
1066007--1066110	28	3.6	27	80	12	93	69	2	0	27	1.03
1066071--1066103	8	4.1	8	85	14	50	63	3	0	33	1.10
1066007--1066103	14	7.3	14	69	18	57	69	3	0	27	1.04
1066145--1066195	20	2.4	22	81	15	63	66	11	1	19	1.33
1069186--1069232	19	2.4	20	82	7	60	48	0	0	51	1.00

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