genome.fa.s126.2.7.7.80.10.50.1000.7.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: Scaffold126
Parameters: 2 7 7 80 10 50 1000
Length:  2080828

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1448 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)
971821--971901	20	3.7	21	74	19	67	34	14	14	35	1.88
978004--978028	13	1.9	13	100	0	50	36	16	16	32	1.90
979876--980918	28	36.5	29	85	7	1200	26	30	18	23	1.98
979876--980918	114	9.1	115	84	7	1256	26	30	18	23	1.98
981512--981586	20	3.8	20	76	0	87	32	13	12	42	1.80
981513--981589	40	1.9	39	89	2	118	31	12	12	42	1.81
982497--982534	20	1.9	20	88	0	58	21	10	10	57	1.61
984320--984348	12	2.3	13	94	5	51	68	3	0	27	1.05
984499--984580	41	2.0	41	97	0	155	52	12	20	14	1.73
985827--985900	27	2.7	28	89	2	105	24	33	20	21	1.97
985885--986003	51	2.4	50	90	4	177	31	23	13	31	1.93
985934--986161	79	2.9	79	90	3	361	25	25	15	33	1.95
986013--986290	130	2.1	130	91	1	450	25	25	14	34	1.94
986093--986212	51	2.4	51	90	2	188	28	24	13	34	1.93
985854--986370	209	2.5	208	90	2	813	26	25	14	32	1.95
986144--986507	79	4.6	79	80	3	401	26	26	14	32	1.94
996860--996912	20	2.7	20	85	5	72	39	13	16	30	1.87
996947--997011	19	3.7	19	76	23	88	36	18	12	32	1.88
996933--997011	32	2.5	32	93	0	140	36	17	13	31	1.89
996967--996991	13	1.9	13	100	0	50	32	16	16	36	1.90
998017--998111	28	3.4	28	84	7	113	16	15	29	37	1.90
998085--998245	34	5.0	33	80	9	156	34	13	31	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
998063--998412	29	11.7	30	80	13	266	26	15	31	26	1.96
1003746--1003770	13	1.9	13	100	0	50	88	12	0	0	0.53
1003743--1003784	22	1.9	21	90	9	66	88	9	0	2	0.61
1003743--1003809	23	2.9	23	82	8	73	82	10	2	4	0.93
1004792--1004957	55	3.0	55	86	5	237	27	28	21	22	1.99
1004821--1005108	149	1.9	150	87	7	420	27	29	19	23	1.98
1004998--1005595	61	9.9	61	83	7	754	25	26	19	28	1.99
1004998--1005594	121	4.9	121	92	1	980	25	26	19	28	1.99
1005001--1005594	243	2.4	243	95	0	1048	25	26	19	27	1.99
1006266--1006294	12	2.3	13	94	5	51	68	3	0	27	1.05
1006443--1006524	41	2.0	41	95	0	146	52	10	20	15	1.73
1007795--1008131	79	4.3	79	89	1	523	25	24	16	33	1.95
1008064--1008182	51	2.3	51	89	2	177	28	23	12	35	1.91
1007905--1008339	209	2.1	209	90	0	683	25	25	14	33	1.95
1007983--1008260	130	2.1	130	90	1	432	26	25	14	33	1.94
1008114--1008446	79	4.2	79	83	3	384	25	27	15	31	1.95
1013432--1013577	52	2.8	52	87	4	206	31	17	16	34	1.92
1013547--1013599	21	2.6	21	88	8	74	39	13	15	32	1.85
1013637--1013716	33	2.4	33	97	0	151	35	17	11	36	1.86
1013654--1013717	20	3.5	20	72	27	79	35	18	10	34	1.86
1013672--1013696	13	1.9	13	100	0	50	32	16	16	36	1.90
1014042--1014094	19	2.7	20	85	2	72	37	15	15	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1014083--1014107	13	1.9	13	100	0	50	32	16	16	36	1.90
1014064--1014128	32	2.0	32	85	8	87	40	15	13	30	1.86
1014342--1014395	20	2.7	20	88	5	74	29	18	12	38	1.88
1014423--1014478	19	2.9	19	86	2	76	37	12	17	32	1.88
1014463--1014489	13	2.1	13	100	0	54	40	7	14	37	1.74
1014932--1014997	33	2.0	32	85	2	87	46	0	3	50	1.16
1015446--1015479	18	1.9	17	94	5	59	32	0	0	67	0.91
1018352--1018377	12	2.2	12	100	0	52	26	11	23	38	1.89
1018870--1018894	13	1.9	13	100	0	50	32	0	4	64	1.12
1018896--1018946	8	6.6	8	73	8	52	56	0	0	43	0.99
1018896--1018942	14	3.2	14	84	6	58	55	0	0	44	0.99
1019530--1019579	19	2.6	19	80	3	55	54	4	0	42	1.19
1020978--1021010	6	5.5	6	92	0	57	33	45	18	3	1.65
1021821--1021864	18	2.4	18	73	0	52	27	36	9	27	1.87
1023478--1023520	3	14.3	3	95	0	77	0	65	0	34	0.93
1023666--1023941	93	3.0	93	92	1	428	26	32	15	25	1.96
1024278--1024305	2	14.0	2	100	0	56	50	0	0	50	1.00
1026582--1026634	21	2.5	21	84	6	72	35	26	3	33	1.75
1031636--1031695	21	2.9	21	77	5	59	36	25	1	36	1.66
1032516--1032568	21	2.5	21	93	0	88	39	20	9	30	1.84
1032621--1032679	20	2.9	19	80	9	64	35	15	10	38	1.81
1033549--1033573	13	1.9	13	100	0	50	64	20	0	16	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034525--1034573	20	2.5	20	93	0	80	30	26	24	18	1.98
1036327--1036351	2	12.5	2	100	0	50	52	0	48	0	1.00
1041100--1041129	2	15.0	2	100	0	60	50	50	0	0	1.00
1042824--1042897	32	2.3	32	76	4	78	56	0	1	41	1.07
1042905--1042950	21	2.3	19	92	7	74	56	0	0	43	0.99
1042884--1042941	14	4.1	15	76	17	61	55	0	0	44	0.99
1042873--1042947	26	3.0	25	77	9	73	56	0	0	44	0.99
1043573--1043601	15	2.0	15	93	6	51	31	0	0	68	0.89
1043804--1043845	21	2.0	21	95	0	75	54	4	4	35	1.42
1043857--1043881	6	4.2	6	100	0	50	36	0	0	64	0.94
1045046--1045094	20	2.5	19	83	9	62	32	0	6	61	1.21
1045407--1045459	21	2.6	20	80	16	56	45	1	3	49	1.31
1053590--1053687	20	4.9	20	73	6	101	37	17	13	31	1.88
1053590--1053683	19	4.8	19	80	3	107	38	17	13	30	1.88
1053590--1053687	39	2.5	39	88	1	151	37	17	13	31	1.88
1053668--1053694	13	2.1	13	100	0	54	40	14	14	29	1.86
1054295--1054334	21	1.9	21	89	0	62	30	30	2	37	1.71
1055678--1055714	13	2.8	13	95	0	65	37	10	16	35	1.83
1061911--1061965	19	2.8	20	86	5	76	38	18	12	30	1.88
1063546--1063571	13	2.0	13	100	0	52	38	15	15	30	1.88
1063528--1063591	32	2.0	33	90	3	103	42	15	14	28	1.86
1067647--1067677	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069261--1069407	60	2.5	60	97	0	276	34	25	11	28	1.91
1069980--1070025	21	2.2	20	81	11	58	32	17	2	47	1.60
1072425--1072488	32	2.0	33	90	3	103	45	15	10	28	1.80
1074499--1074552	28	1.9	28	96	0	99	44	20	12	22	1.85
1076375--1076451	12	7.0	11	76	15	54	41	0	44	14	1.45
1076365--1076446	42	2.0	42	90	0	128	46	0	41	12	1.41
1087285--1087311	11	2.5	11	100	0	54	48	14	0	37	1.45
1087459--1087494	16	2.2	17	90	5	56	55	0	0	44	0.99
1087459--1087494	9	4.3	9	83	16	51	55	0	0	44	0.99
1089216--1089263	24	2.0	24	91	0	78	50	0	2	47	1.12
1089437--1089480	22	2.0	23	86	4	63	50	4	0	45	1.22
1089885--1089937	16	3.3	16	72	0	52	43	11	16	28	1.83
1090171--1090220	22	2.3	22	85	0	64	38	6	12	44	1.66
1091169--1091218	11	4.3	11	78	14	55	0	20	0	80	0.72
1091169--1091209	16	2.6	17	88	11	61	0	19	0	80	0.71
1091177--1091220	12	3.6	12	84	6	61	0	20	0	79	0.73
1091842--1092275	166	2.6	163	84	6	545	53	7	9	29	1.60
1093194--1093644	153	2.9	153	77	9	424	27	15	17	39	1.90
1099688--1099729	22	1.9	22	90	9	68	38	0	0	61	0.96
1099726--1099761	17	2.1	18	89	5	56	47	0	0	52	1.00
1100106--1100161	16	3.3	17	74	13	53	73	0	0	26	0.84
1100117--1100157	19	2.2	19	91	8	66	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100117--1100157	10	4.3	9	82	11	55	73	0	0	26	0.84
1100109--1100159	27	2.0	25	85	14	68	72	0	0	27	0.85
1102340--1102408	33	2.1	33	83	5	86	53	4	1	40	1.30
1104572--1104601	2	15.0	2	92	0	51	53	0	0	46	1.00
1107079--1107146	31	2.2	32	80	15	81	26	8	13	51	1.70
1109052--1109081	2	15.0	2	92	0	51	46	0	0	53	1.00
1109794--1109844	26	2.0	26	92	7	86	31	31	0	37	1.58
1110968--1111116	66	2.3	65	85	1	199	34	16	18	30	1.93
1117532--1117645	39	2.9	39	75	5	115	56	13	3	27	1.53
1121812--1121842	3	10.3	3	100	0	62	35	32	0	32	1.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13