genome.fa.s19.2.7.7.80.10.50.1000.12.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: Scaffold19
Parameters: 2 7 7 80 10 50 1000
Length:  2266706

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

This is table  12  of  15  ( 1733 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)
1576314--1576640	118	2.8	118	80	9	318	22	16	32	29	1.96
1583807--1583845	21	1.9	20	89	5	60	38	15	10	35	1.81
1591828--1591890	33	1.9	32	87	3	90	28	17	14	39	1.89
1591860--1591914	19	2.8	21	81	10	71	32	16	14	36	1.89
1593587--1593621	15	2.3	15	95	0	61	42	0	28	28	1.56
1598086--1598125	13	3.1	13	96	0	71	30	10	15	45	1.78
1600642--1600717	32	2.4	32	93	0	134	32	15	10	40	1.82
1605090--1605239	52	2.9	52	92	4	241	28	18	18	35	1.94
1605283--1605353	32	2.2	32	92	0	115	35	16	14	33	1.89
1608625--1608739	51	2.3	50	90	1	176	45	9	15	29	1.78
1609811--1610462	296	2.2	290	88	4	970	46	8	8	36	1.64
1610718--1610846	66	1.9	68	82	7	165	44	0	0	53	1.11
1610988--1611030	14	3.0	14	77	16	52	55	2	0	41	1.12
1611678--1611723	22	2.1	22	88	4	67	41	0	0	58	0.98
1612295--1612329	17	1.9	17	88	11	52	40	0	0	60	0.97
1634690--1634715	13	2.0	13	100	0	52	38	15	15	30	1.88
1634672--1634735	32	2.0	33	90	3	103	39	18	14	28	1.90
1635173--1635239	37	1.9	35	85	11	93	32	10	25	31	1.89
1638352--1638381	13	2.3	13	94	0	51	66	0	26	6	1.16
1643131--1643182	21	2.5	21	87	6	70	38	11	7	42	1.70
1643241--1643267	14	1.9	14	100	0	54	22	7	18	51	1.70
1646691--1646746	17	3.3	17	74	0	58	1	19	0	78	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1647162--1647195	17	1.9	18	88	5	52	14	20	0	64	1.28
1653274--1653336	17	3.6	17	77	12	74	77	0	1	20	0.85
1653271--1653328	8	7.0	8	79	14	55	75	0	1	22	0.89
1653282--1653336	10	6.1	9	77	10	51	80	0	1	18	0.81
1653340--1653383	18	2.4	18	80	3	52	70	4	2	22	1.17
1654302--1654347	9	5.3	9	78	19	53	63	0	0	36	0.95
1654310--1654341	16	2.1	16	94	5	57	62	0	0	37	0.95
1654299--1654355	25	2.4	23	83	11	80	64	0	3	31	1.10
1657684--1657761	22	3.5	22	80	16	90	24	2	3	69	1.18
1657673--1657756	22	4.0	20	75	24	68	23	1	3	71	1.09
1657673--1657765	44	2.2	41	85	14	118	24	2	3	69	1.14
1657675--1657765	11	8.5	10	70	27	55	24	2	3	70	1.14
1658662--1658714	26	2.0	27	85	10	74	47	1	1	49	1.23
1659033--1659077	18	2.6	18	86	6	58	35	0	4	60	1.17
1659898--1659970	15	5.4	14	75	18	64	64	1	0	34	1.02
1659891--1659970	39	2.0	40	90	2	126	61	2	0	36	1.10
1660287--1660331	13	3.3	13	78	9	54	53	0	0	46	1.00
1660717--1660766	25	2.0	24	84	3	64	56	0	0	44	0.99
1660914--1660940	2	13.5	2	100	0	54	48	0	0	51	1.00
1662331--1662370	6	6.0	7	83	16	50	55	0	0	45	0.99
1662483--1662541	31	1.9	31	86	10	86	45	1	3	49	1.28
1664973--1665010	2	19.0	2	94	0	67	0	52	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1665029--1665065	6	6.2	6	93	0	65	32	2	51	13	1.55
1668562--1668614	20	2.7	20	88	11	74	30	18	13	37	1.89
1668644--1668704	19	3.0	21	78	9	81	36	18	13	32	1.89
1668685--1668711	13	2.1	13	100	0	54	40	14	14	29	1.86
1668666--1668730	32	2.0	32	90	3	103	40	16	16	26	1.90
1676207--1676281	20	3.8	20	89	7	116	25	14	14	45	1.83
1676207--1676334	40	3.4	39	77	14	151	28	14	14	43	1.83
1676245--1676314	33	2.1	33	89	0	104	28	15	14	41	1.86
1678707--1678783	28	2.8	27	79	13	102	24	27	19	28	1.99
1678875--1679112	122	2.0	122	84	5	311	28	27	12	31	1.93
1684868--1684913	21	2.2	20	84	3	56	41	0	0	58	0.98
1685657--1685722	26	2.5	26	78	9	62	54	3	3	39	1.31
1686051--1686103	17	3.2	17	68	26	51	56	7	1	33	1.38
1686810--1686858	24	2.0	26	84	8	66	36	2	0	61	1.08
1686971--1687021	25	2.0	25	88	0	75	25	11	3	58	1.50
1690829--1690877	23	2.1	24	92	3	82	38	0	0	61	0.96
1691265--1691305	21	2.0	20	86	13	57	48	0	0	51	1.00
1691700--1691740	18	2.3	19	80	16	52	46	2	2	48	1.28
1694321--1694376	21	2.6	22	91	5	89	64	8	8	17	1.48
1694321--1694376	22	2.6	21	88	5	85	64	8	8	17	1.48
1695290--1695364	20	3.8	20	80	3	80	40	12	13	34	1.81
1695287--1695364	40	2.0	39	87	2	111	39	12	12	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1696623--1696708	43	2.0	43	100	0	172	27	18	23	30	1.98
1699595--1699693	52	1.9	52	85	4	137	34	16	17	32	1.92
1699682--1699706	13	1.9	13	100	0	50	36	16	16	32	1.90
1704609--1704677	21	3.3	22	83	16	69	4	14	1	79	0.95
1704641--1704677	19	2.0	18	89	5	56	2	13	0	83	0.74
1704619--1704677	9	6.1	9	79	13	64	3	13	1	81	0.90
1707401--1707472	20	3.6	20	75	0	72	36	13	9	40	1.78
1708383--1708434	23	2.3	23	96	3	97	19	11	9	59	1.59
1713736--1713765	15	2.0	15	93	0	51	33	16	6	43	1.74
1718523--1718559	10	3.8	10	92	3	58	86	10	2	0	0.67
1719632--1720167	28	19.1	28	82	9	344	26	31	16	25	1.96
1719632--1719910	27	10.1	27	87	5	292	25	31	14	28	1.95
1719632--1719910	55	5.1	55	86	3	323	25	31	14	28	1.95
1719698--1721335	28	56.2	28	78	12	715	29	29	18	22	1.97
1720214--1720310	50	1.9	50	93	0	167	30	24	22	21	1.99
1720182--1720341	82	2.0	82	96	0	293	31	26	21	20	1.98
1720264--1720835	64	9.0	64	89	0	817	31	26	19	22	1.98
1720264--1720951	96	7.3	96	85	3	841	30	26	19	22	1.98
1721042--1721081	20	2.0	20	85	0	53	25	35	15	25	1.94
1721426--1721587	45	3.5	46	81	5	186	20	26	19	33	1.97
1721964--1722041	20	3.9	19	76	6	75	34	12	12	39	1.82
1721964--1722041	40	2.0	39	84	2	102	34	12	12	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722928--1722979	23	2.3	23	96	3	97	19	11	9	59	1.59
1732652--1732689	13	2.9	14	92	7	62	23	13	15	47	1.81
1732639--1732703	20	3.2	20	87	8	80	21	13	16	47	1.82
1732658--1732703	6	6.9	7	79	16	53	23	13	15	47	1.80
1737607--1737637	2	15.5	2	93	0	53	51	3	0	45	1.17
1738202--1738253	3	17.3	3	87	0	59	23	0	9	67	1.20
1739790--1739835	14	3.4	14	78	21	53	52	0	0	47	1.00
1740850--1740887	19	2.1	19	85	5	51	60	2	5	31	1.33
1746264--1746329	27	2.6	25	72	15	64	59	3	4	33	1.33
1746263--1746329	24	2.6	25	79	9	73	59	2	4	32	1.32
1746431--1746470	11	3.6	11	89	0	62	62	0	0	37	0.95
1751270--1751301	14	2.1	16	88	11	50	50	0	0	50	1.00
1751329--1751377	19	2.6	18	84	9	62	48	2	0	48	1.12
1752604--1752649	21	2.1	22	84	11	60	23	2	15	58	1.48
1752624--1752664	18	2.2	19	86	4	57	26	0	12	60	1.31
1759556--1759614	26	2.3	26	81	0	73	32	22	6	38	1.80
1769902--1769930	13	2.3	13	94	5	51	75	0	24	0	0.80
1771130--1771204	32	2.4	30	75	16	71	46	1	6	45	1.37
1772231--1772271	20	2.0	20	85	0	55	34	7	7	51	1.58
1774835--1774910	20	3.8	20	74	10	57	31	1	2	64	1.15
1775199--1775267	19	3.9	17	73	16	50	63	0	4	31	1.14
1775185--1775240	19	2.9	20	81	7	62	67	0	3	28	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1775225--1775304	30	2.7	31	83	12	89	53	0	5	41	1.22
1775221--1775366	38	3.8	38	76	14	122	52	0	3	43	1.18
1775254--1775369	49	2.4	46	79	12	126	52	0	2	44	1.14
1788868--1788903	3	12.0	3	100	0	72	33	0	0	66	0.92
1793528--1793552	3	8.3	3	100	0	50	32	36	0	32	1.58
1795277--1795303	13	2.1	13	100	0	54	40	14	14	29	1.86
1798530--1798574	22	2.0	23	82	4	56	33	20	2	44	1.63
1806794--1807638	42	20.2	42	82	4	794	14	29	17	38	1.89
1808230--1808288	31	1.9	31	92	0	100	35	16	28	18	1.93
1808902--1808955	24	2.2	24	90	0	81	38	37	18	5	1.74

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