genome.fa.s43.2.7.7.80.10.50.1000.8.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

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

This is table  8  of  19  ( 2200 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)
956986--957029	21	2.1	21	91	8	72	40	0	0	59	0.98
956991--957058	21	3.3	20	78	13	59	48	0	0	51	1.00
957218--957261	21	2.1	21	83	8	54	40	0	0	59	0.98
957232--957301	15	4.2	15	73	21	59	41	1	0	57	1.08
957234--957305	21	3.5	21	67	12	51	43	1	0	55	1.08
957692--957744	23	2.3	23	83	6	72	43	0	0	56	0.99
957882--957919	18	2.1	19	90	5	60	36	0	0	63	0.95
958066--958100	17	2.1	17	100	0	70	54	5	17	22	1.64
963284--963329	19	2.3	21	81	11	60	60	4	0	34	1.16
963284--963331	20	2.4	19	86	6	60	58	4	0	37	1.18
963805--963843	18	2.2	17	86	13	53	25	2	0	71	0.98
964629--964691	32	2.0	30	82	11	74	49	1	0	49	1.10
964651--964713	22	2.9	21	83	7	72	42	1	0	55	1.09
965249--965298	20	2.5	19	81	12	64	40	0	0	60	0.97
965261--965325	21	3.1	21	73	10	62	52	0	0	47	1.00
965460--965521	20	3.1	20	75	6	63	48	0	0	51	1.00
965444--965511	27	2.4	28	73	7	66	45	0	0	54	0.99
965666--965725	30	2.0	29	84	9	77	51	3	0	45	1.17
967356--967397	21	2.0	21	90	9	68	64	0	0	35	0.94
967334--967386	27	1.9	28	81	11	65	56	0	0	43	0.99
967356--967411	21	2.8	21	81	10	64	57	0	0	42	0.99
967394--967439	22	2.1	22	84	11	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
976704--976751	2	24.5	2	87	4	71	50	0	0	50	1.00
977275--977308	15	2.3	15	85	5	52	88	0	11	0	0.52
978300--978361	30	2.1	30	90	0	97	46	17	11	24	1.81
983275--983330	27	2.1	27	89	0	85	7	44	12	35	1.70
983360--983406	24	2.0	24	82	0	58	6	46	0	46	1.28
984092--984147	28	2.0	28	96	0	103	51	0	0	48	1.00
984094--984155	28	2.2	28	85	2	72	54	0	1	43	1.09
984284--984309	1	26.0	1	100	0	52	0	0	0	100	0.00
990523--990556	15	2.2	16	89	5	52	47	11	17	23	1.81
991403--991437	11	3.3	11	84	8	54	31	0	0	68	0.90
991614--991640	14	1.9	14	100	0	54	37	0	0	62	0.95
991831--991948	13	9.5	13	66	15	52	43	0	1	54	1.16
992321--992367	24	1.9	25	83	12	62	51	6	0	42	1.27
992631--992667	2	18.5	2	94	0	65	48	0	0	51	1.00
993548--993572	2	12.5	2	100	0	50	48	0	0	52	1.00
995249--995279	16	1.9	16	93	0	53	29	0	0	70	0.87
995863--995943	29	2.7	30	79	9	85	48	0	1	50	1.08
996301--996342	20	2.1	20	86	0	57	30	0	2	66	1.04
999855--999922	31	2.3	30	80	10	77	25	0	11	63	1.28
999876--999938	31	2.0	31	81	6	74	25	4	9	60	1.47
1005313--1005346	18	1.9	18	88	5	52	35	2	0	61	1.11
1005288--1005346	23	2.5	25	78	13	79	37	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005778--1005829	14	3.6	14	79	5	68	61	0	0	38	0.96
1005778--1005830	7	7.2	8	76	23	55	60	0	0	39	0.97
1006493--1006615	48	2.5	49	77	12	121	59	1	2	36	1.20
1007813--1007856	2	22.0	2	90	0	70	50	4	0	45	1.22
1009112--1009177	34	2.0	32	82	5	78	56	0	0	43	0.99
1010651--1010685	19	1.9	17	88	11	52	57	0	0	42	0.99
1012916--1012961	19	2.5	19	82	3	58	34	2	4	58	1.30
1015806--1015848	2	21.5	2	100	0	86	0	51	0	48	1.00
1022491--1022625	65	2.1	65	100	0	270	39	22	11	26	1.88
1023560--1023589	2	15.0	2	100	0	60	50	0	0	50	1.00
1024269--1024306	20	2.0	19	90	10	60	31	0	0	68	0.90
1024274--1024313	20	2.0	20	85	4	55	32	2	0	65	1.06
1024528--1024565	2	19.5	2	94	5	69	50	0	50	0	1.00
1027722--1027781	25	2.4	26	75	8	61	33	33	13	20	1.91
1027776--1027932	13	12.2	14	77	18	146	28	28	20	23	1.99
1027773--1027930	26	6.2	26	84	10	209	27	29	20	23	1.99
1027840--1027932	38	2.4	38	81	12	63	25	30	21	22	1.99
1027704--1027930	64	3.6	63	75	14	207	28	29	17	23	1.97
1028262--1028292	2	15.5	2	93	0	53	48	0	3	48	1.17
1028464--1028588	64	2.0	63	85	4	171	34	16	24	24	1.95
1028459--1029337	134	6.6	134	76	8	525	34	16	23	24	1.95
1028650--1029086	133	3.3	134	82	4	524	33	16	24	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028460--1029337	67	13.2	66	77	8	467	34	16	23	24	1.95
1031776--1031854	12	6.2	12	72	16	52	29	18	16	35	1.93
1031792--1031865	26	2.8	26	77	0	76	32	22	13	31	1.93
1031781--1031875	38	2.5	38	83	8	104	33	20	14	31	1.93
1031858--1031930	27	2.7	27	82	0	92	34	15	15	35	1.88
1032868--1032907	21	1.9	21	84	0	53	50	0	0	50	1.00
1032982--1033018	19	2.0	19	89	5	58	67	0	0	32	0.91
1033885--1033915	2	15.5	2	100	0	62	0	48	0	51	1.00
1035130--1035157	2	14.0	2	100	0	56	50	0	0	50	1.00
1035909--1035951	21	2.0	21	82	8	52	39	4	2	53	1.34
1035946--1035991	22	2.0	24	83	8	60	54	2	0	43	1.12
1036150--1036174	2	12.5	2	100	0	50	48	0	0	52	1.00
1036892--1036938	18	2.7	18	83	3	60	34	2	0	63	1.06
1037014--1037111	49	2.0	49	88	5	146	47	8	4	39	1.52
1038023--1038079	25	2.3	25	84	6	71	52	1	0	45	1.11
1038424--1038470	20	2.5	19	80	13	53	46	0	0	53	1.00
1038495--1038534	16	2.5	16	84	8	55	42	0	0	57	0.98
1038522--1038562	21	2.0	20	85	4	55	48	12	0	39	1.41
1038623--1038660	9	4.3	9	86	6	60	89	0	7	2	0.57
1038627--1038659	17	1.9	17	100	0	66	90	0	6	3	0.52
1038677--1038744	22	2.8	23	79	20	77	35	0	0	64	0.94
1038682--1038744	26	2.6	24	83	14	76	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038699--1038841	62	2.3	60	77	13	137	30	2	2	65	1.19
1038770--1038841	3	24.3	3	77	20	57	27	2	0	69	1.02
1038776--1038845	14	4.8	14	76	20	72	27	4	0	68	1.08
1038770--1038859	46	2.0	46	93	0	153	27	7	0	64	1.21
1039304--1039330	2	13.5	2	100	0	54	48	0	0	51	1.00
1039908--1039952	23	2.0	23	86	0	63	24	0	4	71	1.05
1039994--1040030	6	6.5	6	84	9	51	24	0	0	75	0.80
1039992--1040031	11	3.3	12	89	10	64	22	0	0	77	0.77
1039994--1040078	17	5.0	17	69	19	54	31	0	1	67	0.99
1039993--1040066	12	6.4	11	77	13	69	31	0	1	67	0.99
1040134--1040226	37	2.4	39	80	10	111	29	3	3	64	1.25
1040116--1040227	38	3.0	37	83	9	111	28	2	2	66	1.19
1041113--1041166	6	8.5	6	78	10	54	31	0	1	66	1.02
1041095--1041158	26	2.4	27	75	14	71	29	0	1	68	0.99
1042116--1042164	20	2.5	20	83	9	57	61	0	0	38	0.96
1042389--1042443	25	2.3	23	82	14	67	47	0	0	52	1.00
1042431--1042490	21	2.8	21	82	2	75	60	3	1	35	1.23
1042431--1042460	11	2.9	10	90	9	51	66	0	0	33	0.92
1042622--1042682	16	4.1	15	76	14	56	42	0	1	55	1.09
1042620--1042681	30	2.0	32	87	9	92	43	0	1	54	1.09
1042631--1042682	15	3.4	15	75	21	54	42	0	1	55	1.10
1043472--1043512	15	2.6	16	80	7	57	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044179--1044230	19	2.8	19	82	8	54	30	0	1	67	1.02
1044226--1044301	31	2.4	31	80	14	84	48	2	0	48	1.15
1045085--1045151	26	2.6	25	77	13	66	50	0	1	47	1.10
1045090--1045220	61	2.2	60	81	10	142	46	0	1	51	1.10
1045226--1045260	17	1.9	18	88	11	54	54	0	0	45	0.99
1045224--1045266	18	2.3	20	76	15	56	48	0	0	51	1.00
1046513--1046548	14	2.6	14	91	4	56	36	0	2	61	1.11
1046622--1046654	14	2.4	14	90	10	50	39	0	3	57	1.14
1052437--1052488	19	2.6	21	84	6	72	55	0	1	42	1.10
1053152--1053184	15	2.1	16	88	5	50	57	0	0	42	0.98

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