genome.fa.s158.2.7.7.80.10.50.1000.12.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: Scaffold158
Parameters: 2 7 7 80 10 50 1000
Length:  1811518

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

This is table  12  of  13  ( 1497 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)
1645994--1646067	5	14.4	5	73	10	60	33	1	1	63	1.11
1645949--1646031	11	8.1	10	76	9	53	36	1	1	61	1.12
1646403--1646440	18	2.2	18	90	4	60	28	2	2	65	1.19
1648756--1648783	2	14.0	2	100	0	56	50	0	0	50	1.00
1652322--1652475	76	2.1	74	96	2	281	46	9	6	37	1.63
1656474--1656535	31	2.0	32	87	9	92	48	1	0	50	1.10
1656990--1657031	23	1.9	21	85	9	57	38	2	4	54	1.34
1656987--1657053	36	1.9	34	82	11	82	38	2	4	53	1.36
1657250--1657281	2	16.0	2	100	0	64	50	0	0	50	1.00
1657495--1657525	16	1.9	16	93	0	53	61	0	0	38	0.96
1657474--1657539	17	3.9	17	75	9	64	57	0	0	42	0.98
1657509--1657562	17	2.9	18	76	13	56	51	3	3	40	1.37
1658485--1658565	18	4.5	18	73	18	64	64	0	1	34	1.02
1658479--1658513	17	2.1	16	89	5	52	65	0	0	34	0.93
1658461--1658566	31	3.5	29	70	19	83	64	0	2	33	1.08
1659119--1659144	12	2.2	12	100	0	52	46	23	15	15	1.83
1662602--1662646	23	2.0	23	91	8	76	40	0	0	60	0.97
1662725--1662771	6	7.3	6	84	13	58	40	0	0	59	0.97
1662722--1662769	20	2.5	20	86	10	64	37	0	0	62	0.95
1662710--1662773	27	2.3	27	75	17	69	43	0	0	56	0.99
1662722--1662763	7	6.1	7	83	5	50	35	0	0	64	0.94
1662728--1662769	20	2.1	20	91	8	68	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1663313--1663374	31	2.0	32	84	6	83	50	4	0	45	1.23
1663238--1663374	35	4.1	31	72	16	96	52	2	1	43	1.25
1663244--1663391	37	4.2	36	71	14	130	53	3	1	41	1.26
1663612--1663685	5	14.2	5	70	13	51	56	1	0	41	1.07
1663641--1663682	11	3.9	11	75	6	50	61	2	0	35	1.09
1663639--1663684	21	2.1	22	88	4	67	58	2	0	39	1.10
1663869--1664024	29	5.2	29	66	14	77	39	0	0	60	0.97
1663882--1664023	20	6.8	20	67	25	55	39	0	0	60	0.97
1663914--1664000	23	3.6	23	75	19	79	41	0	0	58	0.98
1663923--1663962	12	3.4	12	82	6	55	47	0	0	52	1.00
1664267--1664352	40	2.1	41	83	10	106	55	3	0	40	1.17
1664661--1664704	6	7.8	6	78	21	51	63	2	0	34	1.07
1664898--1664961	29	2.2	29	79	17	71	45	1	4	48	1.32
1665707--1665757	21	2.5	21	81	12	61	60	1	3	33	1.26
1668654--1668685	2	16.0	2	93	0	55	50	3	0	46	1.17
1670808--1670852	2	22.5	2	100	0	90	48	0	0	51	1.00
1671734--1671789	23	2.5	22	83	8	69	37	10	0	51	1.37
1672310--1672366	30	1.9	30	82	13	73	59	1	1	36	1.18
1677762--1677858	19	5.8	18	72	27	97	32	12	17	37	1.87
1677783--1677839	13	3.9	13	76	24	60	35	14	17	33	1.90
1677764--1677866	32	3.2	32	98	0	197	33	12	18	35	1.89
1677890--1677956	33	2.0	33	82	5	82	31	14	11	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684303--1684395	33	2.6	36	82	14	104	49	2	1	47	1.20
1684328--1684403	33	2.2	35	84	11	104	46	2	1	50	1.24
1685437--1685490	25	2.2	26	83	6	67	46	1	1	50	1.23
1686061--1686135	20	3.8	20	74	0	78	34	12	12	41	1.79
1686061--1686138	40	2.0	39	84	2	102	34	11	12	41	1.80
1693199--1693248	15	2.9	18	80	17	61	70	10	14	6	1.33
1693184--1693226	22	1.9	23	85	4	61	72	11	11	4	1.27
1693186--1693266	38	2.1	39	84	9	103	72	8	13	4	1.24
1693217--1693273	23	2.5	23	85	5	71	77	5	12	5	1.11
1693517--1693555	20	2.0	20	94	0	69	89	10	0	0	0.48
1694609--1695469	27	31.5	27	94	1	1461	22	36	14	27	1.92
1695437--1696038	32	18.8	32	94	0	992	31	35	18	15	1.92
1696569--1696643	20	3.8	20	74	0	78	34	12	12	41	1.79
1696569--1696646	40	2.0	39	84	2	102	34	11	12	41	1.80
1700645--1700692	19	2.5	19	90	6	71	52	0	0	47	1.00
1700903--1700932	15	2.0	15	93	0	51	50	0	0	50	1.00
1700905--1700954	20	2.6	19	87	3	64	42	0	0	58	0.98
1700905--1701027	23	5.7	20	66	23	63	43	0	0	56	0.99
1702103--1702135	15	2.2	15	100	0	66	66	6	0	27	1.15
1702910--1702973	29	2.3	29	83	5	78	29	1	1	67	1.09
1702967--1703017	16	3.2	16	83	2	68	54	0	0	45	0.99
1702943--1703019	21	4.0	20	76	20	67	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1702995--1703089	30	3.4	28	78	16	99	50	1	4	44	1.28
1703258--1703299	22	1.9	22	90	9	68	61	0	0	38	0.96
1704329--1704367	20	2.0	19	95	5	69	41	17	15	25	1.89
1704366--1704404	2	19.5	2	100	0	78	48	0	0	51	1.00
1704466--1704562	51	1.9	51	91	0	158	36	18	11	34	1.87
1706614--1706665	25	2.0	27	85	11	72	50	3	21	25	1.65
1708752--1708935	93	2.0	93	98	0	359	28	15	11	44	1.82
1709492--1709551	21	2.8	22	82	12	63	45	0	1	53	1.10
1709504--1709551	22	2.2	22	85	7	62	43	0	0	56	0.99
1709748--1709804	19	3.1	19	85	7	73	70	0	0	29	0.88
1709754--1709804	25	2.0	26	85	11	70	72	0	0	27	0.85
1709873--1709915	17	2.5	16	81	11	50	62	0	0	37	0.95
1710119--1710167	20	2.5	20	96	0	89	55	0	2	42	1.11
1710367--1710409	21	2.0	21	86	9	59	72	0	0	27	0.85
1711282--1711326	20	2.2	20	92	0	72	31	6	17	44	1.75
1716644--1716703	30	2.0	30	83	6	77	55	0	1	43	1.10
1717381--1717446	33	2.0	33	88	5	98	43	7	7	40	1.61
1717507--1717562	14	3.8	14	77	13	67	42	5	0	51	1.24
1722120--1722405	150	1.9	150	85	3	398	25	20	18	34	1.96
1722524--1722715	96	2.0	96	97	0	366	31	11	16	40	1.84
1723798--1723837	17	2.4	17	86	0	53	42	5	0	52	1.23
1723807--1723840	17	2.0	17	94	0	59	47	2	0	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1724832--1724864	16	2.2	15	89	10	50	36	0	0	63	0.95
1724832--1724924	43	2.2	44	80	16	106	36	2	1	60	1.16
1724855--1724909	17	3.3	17	80	7	60	34	1	0	63	1.05
1724839--1724899	25	2.4	26	89	10	92	34	1	0	63	1.04
1725391--1725417	4	6.8	4	100	0	54	77	0	0	22	0.76
1726725--1726769	23	2.0	23	86	8	65	62	2	26	8	1.37
1728313--1728358	25	1.9	24	86	8	67	47	0	2	50	1.13
1728576--1728613	14	2.7	15	88	8	53	31	2	2	63	1.22
1729087--1729135	14	3.4	14	77	5	53	36	0	0	63	0.95
1730323--1730363	2	20.5	2	94	0	73	51	0	2	46	1.14
1737838--1737890	26	2.0	26	92	0	88	32	16	13	37	1.88
1741933--1741965	13	2.5	14	85	14	52	63	6	0	30	1.18
1741978--1742033	17	3.2	17	80	5	67	62	7	0	30	1.22
1742711--1742787	33	2.4	33	76	20	81	64	2	0	32	1.07
1742800--1742855	17	3.1	17	82	10	58	7	12	0	80	0.90
1743109--1743138	15	2.0	15	93	0	51	50	0	0	50	1.00
1743229--1743300	31	2.3	32	82	2	92	37	2	6	52	1.43
1743284--1743366	17	4.7	18	73	10	64	40	2	2	54	1.27
1743457--1743532	38	2.1	37	85	7	102	56	6	0	36	1.25
1743647--1743695	19	2.4	19	86	13	62	46	0	2	51	1.12
1743959--1744023	29	2.2	30	91	5	107	44	0	3	52	1.16
1743971--1744018	13	3.5	13	73	15	51	35	0	4	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1743970--1744034	29	2.2	28	86	7	94	40	1	4	53	1.31
1744803--1744920	34	3.4	34	87	2	173	36	32	4	27	1.76
1744875--1744900	12	2.2	12	100	0	52	38	42	0	19	1.51
1744806--1744939	69	1.9	69	83	3	171	40	29	3	26	1.73
1749655--1749732	34	2.3	35	90	4	131	37	34	2	25	1.70
1749656--1749713	12	5.0	12	71	23	52	39	37	1	20	1.63
1749702--1749765	23	2.8	23	85	2	94	39	25	3	32	1.71
1755288--1755319	2	16.0	2	100	0	64	50	0	0	50	1.00
1756373--1756407	2	17.5	2	100	0	70	51	0	0	48	1.00
1757310--1757353	18	2.6	18	92	7	74	45	0	0	54	0.99

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