genome.fa.s293.2.7.7.80.10.50.1000.7.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: Scaffold293
Parameters: 2 7 7 80 10 50 1000
Length:  1704560

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1341 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)
914099--914144	24	2.0	23	86	4	65	58	0	2	39	1.10
915075--915133	28	2.1	28	81	6	66	50	18	13	16	1.77
918542--918572	14	2.2	14	94	0	53	64	0	0	35	0.94
919727--919751	11	2.3	11	100	0	50	20	16	16	48	1.82
922714--922790	12	5.7	13	69	21	52	33	1	2	62	1.17
922862--922909	20	2.4	21	83	16	66	50	4	0	45	1.21
923615--923650	18	2.0	18	88	0	54	55	0	0	44	0.99
924413--924458	2	23.5	2	95	4	85	50	0	0	50	1.00
925649--925677	2	14.5	2	100	0	58	51	0	0	48	1.00
925923--925955	14	2.3	15	90	10	52	21	0	0	78	0.75
926863--926902	15	2.5	17	84	11	50	22	2	5	70	1.19
927457--927487	5	6.2	5	100	0	62	19	22	0	58	1.40
930432--930471	3	13.3	3	100	0	80	32	0	0	67	0.91
930834--930879	19	2.6	18	80	10	58	50	4	2	43	1.34
932027--932092	11	6.2	11	77	16	52	30	1	0	68	0.99
932034--932084	23	2.3	21	80	6	57	31	1	0	66	1.03
932027--932084	11	5.2	12	78	17	56	31	1	0	67	1.01
936004--936344	169	2.0	169	100	0	682	35	16	17	30	1.92
940325--940378	25	2.2	26	83	10	76	42	0	12	44	1.43
941667--941693	2	13.5	2	100	0	54	51	0	0	48	1.00
943233--943270	20	1.9	19	89	5	58	31	0	0	68	0.90
943529--943572	22	2.0	22	86	4	63	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943621--943658	12	3.0	13	88	7	60	31	13	0	55	1.38
943613--943658	13	3.5	13	82	8	58	32	10	0	56	1.34
944264--944304	10	3.9	11	81	9	50	63	0	0	36	0.95
944264--944301	16	2.4	16	82	4	51	63	0	0	36	0.95
945033--945073	22	2.0	20	86	13	57	43	9	0	46	1.36
945366--945390	3	8.3	3	100	0	50	68	0	0	32	0.90
945478--945528	23	2.1	26	89	10	81	45	3	0	50	1.20
945654--945733	25	3.2	25	62	13	65	58	13	10	17	1.62
945640--945739	50	2.0	50	100	0	200	58	12	10	20	1.62
946284--946313	13	2.3	13	94	0	51	76	3	0	20	0.92
948355--948419	34	1.9	34	87	0	94	40	12	16	30	1.86
948570--948604	17	2.1	17	100	0	70	20	22	5	51	1.68
951465--951504	17	2.4	16	87	4	53	45	2	10	42	1.51
951547--951588	21	2.0	21	85	0	57	59	2	2	35	1.23
951555--951597	21	2.0	21	86	0	59	53	2	0	44	1.13
958614--959010	198	2.0	198	88	1	591	34	14	16	34	1.89
963776--963919	12	11.3	12	71	14	83	37	45	13	4	1.63
963857--963888	6	5.3	6	96	0	55	34	37	15	12	1.85
963879--963922	2	22.0	2	95	0	79	47	50	2	0	1.13
965305--965385	40	2.0	41	92	4	139	43	19	17	19	1.89
973499--973551	24	2.2	25	86	3	72	45	3	0	50	1.19
974545--974575	14	2.3	14	94	5	55	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
975574--975615	17	2.4	18	80	4	50	59	0	0	40	0.97
976368--976421	22	2.3	23	81	12	65	66	5	0	27	1.13
976380--976441	29	2.2	28	80	11	72	66	1	0	32	1.02
976744--976776	15	2.1	16	88	5	50	45	0	0	54	0.99
978015--978058	21	2.2	20	87	4	61	70	0	0	29	0.88
979558--979630	22	3.2	23	80	16	73	34	5	2	57	1.36
993192--993271	40	2.0	40	100	0	160	37	12	17	32	1.87
993349--993482	66	2.0	66	98	0	259	26	22	20	31	1.98
996495--996546	17	2.9	19	75	18	58	48	1	0	50	1.12
999254--999313	32	1.9	31	90	10	95	58	8	10	23	1.57
999252--999343	48	1.9	48	88	4	141	55	7	8	28	1.58
999260--999335	32	2.4	32	84	4	91	57	6	7	27	1.52
999252--999335	16	5.2	16	81	5	80	57	7	8	27	1.54
999270--999343	16	4.7	16	75	11	64	55	8	8	28	1.58
999538--999571	14	2.5	13	86	13	50	82	2	0	14	0.79
999538--999572	15	2.4	14	85	4	52	82	2	0	14	0.77
1000633--1000671	10	3.8	10	82	3	51	38	0	2	58	1.12
1001342--1001399	29	2.0	30	82	3	73	48	3	6	41	1.47
1002562--1002604	22	2.0	22	86	9	61	41	0	0	58	0.98
1005836--1005929	18	5.3	18	67	19	54	38	1	2	58	1.17
1006016--1006064	25	2.0	25	84	8	64	53	0	0	46	1.00
1010397--1010424	13	2.2	13	100	0	56	57	28	0	14	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015938--1015978	2	20.5	2	100	0	82	48	0	0	51	1.00
1017481--1017534	6	9.3	6	91	4	85	33	0	66	0	0.92
1018842--1019133	145	2.0	145	93	0	494	42	16	15	25	1.87
1025232--1025267	18	2.1	17	89	5	54	36	0	0	63	0.94
1025232--1025267	17	2.1	18	89	5	56	36	0	0	63	0.94
1027334--1027363	6	5.0	6	95	0	51	36	13	0	50	1.42
1028511--1028569	20	2.8	21	79	7	66	45	0	1	52	1.10
1028769--1028806	2	20.0	2	89	10	62	50	0	0	50	1.00
1028953--1028999	25	1.9	24	91	4	76	59	0	0	40	0.97
1029004--1029060	20	2.6	23	78	16	66	49	8	0	42	1.34
1033686--1033732	8	5.8	8	76	14	51	55	0	0	44	0.99
1033679--1033759	19	4.5	19	70	17	66	51	0	0	48	1.00
1034015--1034054	2	20.5	2	89	5	64	52	0	0	47	1.00
1037832--1037890	16	3.6	16	74	17	57	67	1	27	3	1.16
1040391--1040434	23	1.9	23	81	9	54	40	0	0	59	0.98
1040503--1040550	22	2.1	23	84	7	62	43	0	2	54	1.12
1040534--1040590	30	1.9	30	85	7	80	36	0	3	59	1.14
1042348--1042392	22	2.1	21	87	4	63	66	6	0	26	1.16
1042567--1042608	21	1.9	22	90	9	68	50	2	0	47	1.14
1043661--1043692	14	2.1	16	88	11	50	68	0	0	31	0.90
1045768--1045815	23	2.0	23	84	11	62	62	6	0	31	1.20
1047667--1047701	18	2.1	16	89	10	52	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)
1050396--1050427	3	10.7	3	100	0	64	31	0	0	68	0.90
1051303--1051421	34	3.5	33	79	13	136	36	10	18	35	1.84
1051279--1051432	69	2.3	67	86	6	204	35	11	19	33	1.88
1051279--1051432	67	2.3	68	86	6	206	35	11	19	33	1.88
1052141--1052297	35	4.4	36	75	10	128	29	21	11	37	1.88
1056513--1056621	55	2.0	54	92	1	182	20	22	10	47	1.79
1058688--1058731	12	3.6	12	78	6	52	54	0	0	45	0.99
1058748--1058873	5	25.8	5	71	19	79	65	0	0	32	1.03
1058747--1058885	24	5.9	24	76	15	130	66	1	0	31	1.06
1058724--1058857	48	2.7	48	85	11	166	63	0	1	34	1.09
1058744--1058877	29	4.8	28	72	17	84	66	0	0	32	1.02
1059031--1059067	2	18.5	2	100	0	74	51	0	0	48	1.00
1059074--1059131	29	2.0	29	86	6	82	48	0	3	48	1.18
1059624--1059671	22	2.3	21	80	16	55	54	2	4	39	1.32
1059635--1059675	22	1.9	22	95	5	75	51	0	4	43	1.23
1059635--1059686	22	2.4	22	87	6	70	53	0	3	42	1.19
1062077--1062155	16	5.0	16	74	11	65	41	1	5	51	1.31
1062732--1062758	2	13.5	2	100	0	54	51	0	0	48	1.00
1074053--1074516	236	2.0	234	85	4	630	44	14	13	26	1.83
1076280--1076334	28	2.0	28	89	3	85	18	16	20	45	1.86
1080553--1080599	13	3.4	13	83	16	67	59	0	0	40	0.97
1080547--1080611	29	2.2	29	84	10	96	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081457--1081524	9	7.6	9	70	17	52	33	0	1	64	1.02
1081544--1081604	11	5.4	11	73	21	54	59	0	0	40	0.98
1082445--1082484	19	2.1	19	90	9	64	60	0	0	40	0.97
1082741--1082772	17	1.9	17	93	6	57	62	0	0	37	0.95
1082988--1083055	17	3.9	19	71	26	62	45	0	0	54	0.99
1082990--1083060	32	2.1	34	89	5	110	43	0	0	56	0.99
1083244--1083269	12	2.2	12	100	0	52	26	0	38	34	1.57
1089635--1089704	24	2.8	25	77	14	72	45	21	10	22	1.81
1089637--1089733	27	3.7	26	79	6	99	45	22	9	22	1.81
1091619--1091664	21	2.1	22	84	4	58	19	26	19	34	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12