genome.fa.s1.2.7.7.80.10.50.1000.43.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: Scaffold1
Parameters: 2 7 7 80 10 50 1000
Length:  8764944

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   

This is table  43  of  52  ( 6211 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)
7000351--7000387	2	18.5	2	94	0	65	45	0	2	51	1.15
7001730--7001764	16	2.1	17	94	5	63	60	0	0	40	0.97
7002766--7002799	13	2.6	13	95	0	59	38	0	2	58	1.13
7007079--7007141	26	2.3	28	75	25	64	58	11	0	30	1.32
7008015--7008174	73	2.1	79	82	10	199	39	3	3	53	1.34
7008287--7008323	16	2.4	15	86	8	56	62	5	0	32	1.18
7009351--7009385	2	17.5	2	87	0	52	51	0	2	45	1.16
7010611--7010649	18	2.2	18	85	0	51	35	0	0	64	0.94
7011259--7011297	21	1.9	20	85	15	53	53	0	2	43	1.14
7013859--7013902	21	2.0	22	83	12	56	61	2	0	36	1.09
7019637--7019758	6	20.7	6	67	20	62	48	0	0	50	1.06
7019638--7019758	11	10.8	11	70	16	61	47	0	0	51	1.06
7019637--7019688	16	3.2	16	84	13	70	50	0	1	48	1.12
7019702--7019757	24	2.3	24	84	3	76	53	0	0	46	1.00
7019702--7019764	25	2.5	26	80	10	78	55	0	0	44	0.99
7026130--7026205	35	2.2	35	88	4	109	51	6	6	35	1.54
7028425--7028449	11	2.3	11	100	0	50	0	8	0	92	0.40
7029188--7029245	25	2.3	26	84	3	82	65	0	1	32	1.03
7029929--7029965	10	3.5	11	82	17	51	59	0	0	40	0.97
7034876--7035009	30	4.4	30	79	4	144	41	5	1	51	1.33
7034876--7035010	60	2.2	60	84	3	164	42	5	1	51	1.33
7035304--7035340	2	18.5	2	100	0	74	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7035645--7035688	3	14.7	3	100	0	88	65	0	0	34	0.93
7036324--7036360	19	1.9	19	88	0	56	45	2	2	48	1.30
7037125--7037193	29	2.4	29	85	0	93	49	1	1	47	1.19
7037842--7037892	14	3.1	18	73	26	58	54	0	0	45	0.99
7037848--7037898	17	3.2	16	78	13	61	56	0	0	43	0.99
7038573--7038619	18	2.4	21	83	16	66	44	6	48	0	1.28
7038750--7038833	24	3.4	26	81	16	74	28	2	0	69	1.01
7039564--7039610	24	1.9	25	86	4	69	46	0	0	53	1.00
7040129--7040158	2	15.0	2	100	0	60	50	0	0	50	1.00
7040864--7040940	31	2.5	31	100	0	154	37	14	2	45	1.59
7041379--7041434	21	2.8	20	84	10	69	51	12	7	28	1.65
7042443--7042484	21	2.1	19	86	13	57	59	0	0	40	0.97
7043112--7043159	20	2.4	20	85	0	60	56	2	2	39	1.23
7045404--7045460	28	2.0	29	83	12	75	52	0	0	47	1.00
7045409--7045444	16	2.2	16	90	9	56	52	0	0	47	1.00
7045450--7045509	25	2.4	25	78	15	61	45	0	0	55	0.99
7046543--7046581	16	2.4	16	91	4	60	71	0	0	28	0.86
7046874--7046940	20	3.3	21	70	14	52	52	11	1	34	1.48
7047207--7047247	20	2.0	21	90	4	66	48	2	4	43	1.37
7050737--7050785	14	3.7	14	78	10	50	48	0	0	51	1.00
7055176--7055296	46	2.9	43	73	17	110	52	0	0	47	1.00
7055218--7055284	25	3.0	22	72	19	57	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7055255--7055293	20	2.0	19	85	5	51	51	0	0	48	1.00
7056725--7056753	2	14.5	2	100	0	58	51	0	0	48	1.00
7057792--7057855	32	2.0	31	85	8	85	57	1	3	37	1.24
7057805--7057884	27	2.9	27	80	9	72	52	1	3	42	1.27
7057870--7057926	6	9.5	6	75	21	57	38	0	0	61	0.96
7057874--7057926	17	3.0	19	84	10	69	37	0	0	62	0.96
7060718--7060757	2	20.0	2	100	0	80	50	0	50	0	1.00
7060809--7060871	2	31.5	2	90	0	81	58	0	41	0	0.98
7062020--7062061	21	2.1	19	86	13	57	59	0	0	40	0.97
7063417--7063447	2	15.5	2	100	0	62	48	0	0	51	1.00
7063718--7063935	34	6.4	34	85	0	265	44	26	5	22	1.76
7063718--7063935	68	3.2	68	90	0	337	44	26	5	22	1.76
7063718--7063935	102	2.1	102	85	0	292	44	26	5	22	1.76
7068018--7068073	19	2.9	19	91	0	94	35	5	21	37	1.76
7068371--7068589	34	6.5	34	73	7	160	47	22	4	26	1.70
7068371--7068589	68	3.2	67	85	7	300	47	22	4	26	1.70
7068732--7068767	2	18.5	2	94	5	65	50	0	0	50	1.00
7069192--7069262	26	2.9	24	80	15	99	66	0	1	32	1.01
7069251--7069326	29	2.5	31	78	12	93	56	0	1	42	1.07
7069290--7069355	20	3.0	20	75	16	60	57	1	0	40	1.08
7069241--7069366	45	2.7	47	83	9	145	58	0	0	39	1.09
7069299--7069366	20	3.2	20	69	25	57	60	1	0	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7069192--7069266	11	7.3	11	72	14	70	65	0	1	33	1.01
7071284--7071344	30	2.1	29	81	9	70	59	0	1	39	1.08
7072929--7072965	2	18.5	2	100	0	74	51	0	0	48	1.00
7073261--7073320	29	2.0	30	84	12	79	35	8	1	55	1.40
7073350--7073384	16	2.2	16	89	0	52	22	11	0	65	1.24
7073577--7073601	11	2.3	11	100	0	50	36	24	20	20	1.95
7073681--7073734	18	2.9	19	81	10	67	31	0	1	66	1.02
7075616--7075657	22	1.9	22	90	9	68	61	0	0	38	0.96
7075581--7075647	28	2.3	30	75	15	68	52	0	1	46	1.09
7079740--7079790	23	2.4	22	83	9	61	43	0	0	56	0.99
7080877--7080913	2	18.5	2	100	0	74	48	0	0	51	1.00
7084201--7084254	18	3.0	18	97	0	99	29	5	25	38	1.79
7085956--7086009	21	2.6	21	87	0	81	12	14	16	55	1.69
7088046--7088211	48	3.5	49	95	1	277	23	1	46	27	1.62
7088219--7088276	18	3.2	18	77	0	62	24	5	50	20	1.69
7088196--7088415	69	3.2	65	66	9	152	23	5	50	20	1.68
7088046--7088263	96	2.3	96	80	6	237	23	3	46	26	1.67
7088186--7088564	150	2.7	139	82	9	474	22	5	50	21	1.68
7088532--7088584	18	2.9	18	76	15	56	30	3	47	18	1.67
7092309--7092375	30	2.2	30	89	0	98	23	1	44	29	1.62
7092297--7092478	96	1.9	97	82	1	231	25	3	45	25	1.70
7092410--7092500	18	5.4	18	68	15	59	24	4	49	21	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7092431--7092788	150	2.5	138	76	11	353	24	5	48	22	1.70
7092519--7092815	150	2.0	150	85	6	406	24	4	48	23	1.69
7092756--7092808	18	2.9	18	76	15	56	30	3	47	18	1.67
7095149--7095193	2	23.5	2	82	8	58	46	0	4	48	1.22
7095153--7095190	11	3.5	11	85	7	60	47	0	5	47	1.24
7096752--7096833	30	2.7	30	83	3	76	25	2	42	29	1.68
7096868--7096958	18	5.4	18	67	15	59	23	6	49	20	1.72
7097209--7097272	18	3.6	18	89	0	83	29	1	51	17	1.54
7096884--7097253	138	2.7	137	82	6	435	25	4	49	20	1.68
7097189--7097271	36	2.3	36	79	4	96	28	2	49	19	1.61
7099736--7099768	2	17.0	2	87	6	50	54	0	0	45	0.99
7099784--7099860	30	2.6	30	91	0	118	37	5	10	46	1.60
7100367--7100513	72	2.0	72	92	0	240	29	10	36	22	1.88
7101839--7101876	2	19.5	2	83	5	51	47	0	5	47	1.24
7101839--7101878	17	2.4	17	83	4	55	47	0	5	47	1.24
7103000--7103115	48	2.4	47	92	5	196	22	2	47	27	1.64
7103125--7103182	18	3.2	18	77	0	62	25	6	46	20	1.75
7103225--7103571	111	3.1	111	98	0	667	24	4	49	21	1.69
7103630--7103688	18	3.3	18	78	4	66	23	6	47	22	1.75
7105047--7105119	9	8.2	9	68	14	53	50	1	1	46	1.18
7105433--7105471	4	9.8	4	94	0	69	74	0	2	23	0.94
7106004--7106050	20	2.3	21	85	7	62	36	0	4	59	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7110445--7110508	32	2.1	31	85	5	85	45	1	1	51	1.20
7110525--7110558	17	2.1	16	88	5	50	32	0	0	67	0.91
7110534--7110586	11	4.8	11	76	15	56	33	1	0	64	1.05
7112257--7112283	2	13.5	2	100	0	54	51	0	0	48	1.00
7121777--7121868	21	4.4	20	72	13	69	33	7	8	50	1.62
7121955--7122045	20	4.4	20	67	15	69	32	8	7	50	1.62
7121922--7122057	62	2.2	61	87	3	193	31	6	8	53	1.56
7122093--7122228	21	6.6	20	68	16	55	36	7	5	50	1.54
7123443--7123706	34	7.7	34	94	0	447	23	0	36	39	1.60
7128099--7128357	34	7.6	34	96	0	473	22	0	36	40	1.54

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52