genome.fa.s127.2.7.7.80.10.50.1000.9.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  9  of  26  ( 3103 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)
1593920--1593949	15	1.9	16	93	6	53	23	0	16	60	1.36
1593923--1593973	21	2.4	21	80	6	59	23	0	15	60	1.35
1594453--1594504	14	3.6	14	79	5	59	59	1	0	38	1.08
1594451--1594505	29	1.9	29	88	3	85	56	1	0	41	1.10
1605771--1605821	19	2.7	20	77	20	63	27	0	7	64	1.21
1606322--1606442	60	2.0	61	82	6	147	38	11	15	33	1.84
1606520--1606560	15	2.6	16	88	3	57	51	0	0	48	1.00
1607168--1607208	20	2.0	20	85	4	55	43	0	0	56	0.99
1610251--1610317	24	2.9	23	76	10	66	37	1	0	61	1.05
1610533--1610604	34	2.1	34	82	7	83	47	0	1	51	1.09
1611784--1611852	19	3.6	19	75	11	52	53	0	1	44	1.09
1611874--1611930	30	1.9	30	82	13	73	42	0	0	57	0.98
1612105--1612188	35	2.4	37	77	20	90	44	0	0	55	0.99
1614038--1614066	14	2.0	15	93	6	51	44	0	0	55	0.99
1614915--1614992	11	7.4	11	68	23	51	41	1	0	57	1.07
1615928--1615952	2	12.5	2	100	0	50	48	0	0	52	1.00
1619965--1620016	25	2.0	26	81	3	61	55	1	0	42	1.10
1620920--1620954	15	2.3	15	100	0	70	62	0	0	37	0.95
1620916--1620973	24	2.4	24	80	5	64	63	0	0	36	0.94
1621115--1621184	22	3.0	22	89	8	95	45	0	0	54	0.99
1621282--1621307	4	6.5	4	100	0	52	23	0	53	23	1.46
1625133--1625301	16	10.5	16	66	22	70	37	0	0	61	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625173--1625210	20	1.9	20	84	10	51	36	0	0	63	0.95
1625143--1625242	51	2.0	50	80	9	114	42	0	0	58	0.98
1625243--1625282	11	4.0	10	81	12	55	30	0	0	70	0.88
1625235--1625302	24	3.0	24	76	18	58	35	1	0	63	1.04
1625405--1625448	21	2.0	22	86	8	63	43	0	6	50	1.29
1625458--1625514	28	2.0	28	83	6	71	59	0	0	40	0.97
1625502--1625547	18	2.4	18	82	7	56	50	0	0	50	1.00
1625542--1625593	19	2.8	18	77	5	59	57	1	1	38	1.21
1626103--1626207	27	3.9	27	74	17	92	38	0	0	60	1.10
1626841--1626963	47	2.6	48	75	13	112	41	1	2	54	1.23
1627364--1627407	18	2.4	18	81	14	54	63	0	0	36	0.95
1627379--1627420	15	2.8	16	73	26	54	57	0	0	42	0.99
1633080--1633139	24	2.6	24	76	10	63	58	0	0	41	0.98
1633089--1633144	26	2.3	23	82	14	67	62	0	0	37	0.95
1633088--1633155	14	5.1	13	73	19	52	60	1	0	38	1.06
1633142--1633187	17	2.7	17	80	10	58	56	4	0	39	1.19
1633142--1633177	16	2.2	17	90	5	56	55	5	0	38	1.23
1634345--1634390	3	15.3	3	95	0	83	67	2	0	30	1.03
1635105--1635158	27	2.0	28	85	10	76	59	0	1	38	1.08
1635135--1635173	20	1.9	21	89	5	62	56	0	5	38	1.22
1635988--1636232	47	5.1	47	75	7	170	34	15	4	45	1.67
1635988--1636254	143	1.9	142	80	7	317	35	16	4	43	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636234--1636304	37	1.9	37	91	2	117	35	16	19	28	1.94
1644861--1644951	18	5.0	18	69	13	62	36	2	1	60	1.16
1644861--1644951	38	2.5	38	84	10	111	36	2	1	60	1.16
1648028--1648073	18	2.4	19	76	20	51	60	0	0	39	0.97
1649354--1649467	51	2.3	49	83	6	147	64	0	0	34	0.99
1649356--1649440	25	3.2	28	75	16	99	67	0	0	32	0.91
1649366--1649441	18	4.4	17	78	17	77	67	0	0	32	0.91
1649372--1649456	24	3.4	23	76	12	80	65	0	0	34	0.93
1649366--1649454	25	3.5	25	79	13	101	66	0	0	33	0.92
1649535--1649599	31	2.2	29	83	10	78	33	0	1	64	1.03
1649605--1649648	19	2.2	21	80	12	56	56	0	0	43	0.99
1652785--1652849	32	2.0	32	96	0	121	30	13	9	46	1.75
1660920--1660972	9	5.9	9	77	6	54	52	0	1	45	1.11
1664585--1664781	98	2.0	98	98	0	385	28	19	18	33	1.96
1666821--1666852	2	16.0	2	100	0	64	50	0	0	50	1.00
1675184--1675217	17	2.0	17	88	0	50	5	14	2	76	1.09
1678312--1678351	18	2.2	19	90	4	64	62	0	2	35	1.09
1679020--1679114	23	4.1	24	78	12	76	47	1	0	51	1.07
1679059--1679119	9	6.8	9	77	5	61	42	1	0	55	1.09
1679025--1679132	46	2.5	44	77	17	111	43	1	0	54	1.11
1679025--1679117	14	6.4	14	71	18	64	46	1	0	52	1.07
1679055--1679118	5	13.6	5	76	12	64	43	1	0	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1679609--1679656	2	24.5	2	91	4	80	47	2	0	50	1.12
1680033--1680058	2	13.0	2	100	0	52	50	0	0	50	1.00
1681233--1681289	18	2.9	19	79	7	53	36	0	3	59	1.14
1682064--1682168	26	3.8	28	69	19	87	39	0	0	59	1.11
1682101--1682167	32	2.2	29	84	7	80	43	0	1	55	1.09
1682049--1682173	52	2.5	50	73	8	121	39	1	0	58	1.13
1682058--1682189	18	7.4	19	69	23	74	38	0	1	59	1.12
1684323--1684352	11	2.6	12	94	5	53	76	0	0	23	0.78
1684371--1684456	18	4.7	18	70	16	61	52	0	1	46	1.08
1685018--1685055	2	19.0	2	94	0	67	50	2	0	47	1.15
1685623--1685676	2	27.0	2	96	0	99	48	0	1	50	1.11
1686794--1686838	14	2.9	16	77	12	58	31	0	0	68	0.89
1687585--1687638	19	2.8	19	81	10	65	44	0	3	51	1.19
1687692--1687745	23	2.3	23	81	9	65	51	0	0	48	1.00
1688620--1688662	17	2.7	15	76	13	50	46	0	0	53	1.00
1688631--1688683	24	2.4	22	73	20	56	49	0	0	50	1.00
1688885--1688931	11	4.7	10	78	17	53	53	2	0	44	1.12
1688885--1688929	20	2.2	20	88	7	65	53	2	0	44	1.13
1690932--1690979	2	24.0	2	100	0	96	0	50	0	50	1.00
1692931--1693023	46	2.0	46	87	0	132	30	10	26	32	1.90
1694822--1694867	23	2.0	23	83	4	58	52	2	0	45	1.13
1694855--1694904	5	10.4	5	83	14	52	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1694853--1694901	20	2.4	22	83	16	77	67	0	0	32	0.91
1701072--1701117	21	2.2	21	88	7	67	45	0	2	52	1.13
1701076--1701141	28	2.2	30	86	7	91	40	0	4	54	1.21
1701974--1702007	11	2.9	12	86	8	52	26	70	2	0	1.01
1707699--1707732	2	16.5	2	87	6	50	47	0	5	47	1.26
1708504--1708572	25	2.7	26	82	13	88	63	0	1	34	1.03
1708533--1708571	12	3.0	14	78	21	57	64	0	0	35	0.94
1708751--1708785	2	17.5	2	100	0	70	48	0	0	51	1.00
1709068--1709122	24	2.4	24	82	14	71	36	0	1	61	1.06
1714753--1714813	17	3.8	17	67	22	51	44	0	0	55	0.99
1714821--1714884	21	2.9	22	81	6	76	54	0	1	43	1.09
1714795--1714871	21	3.4	22	77	14	77	54	1	2	41	1.22
1715308--1715567	139	1.9	141	85	1	371	40	6	8	44	1.62
1716348--1716462	32	3.7	31	73	13	94	50	0	0	49	1.00
1716441--1716475	16	2.2	16	89	0	52	42	0	2	54	1.15
1719971--1720021	25	2.0	25	88	0	75	49	1	0	49	1.12
1721115--1721146	14	2.3	14	100	0	64	56	6	0	37	1.25
1722105--1722149	22	2.0	23	86	4	65	60	0	4	35	1.17
1722139--1722168	13	2.2	14	94	5	53	53	0	0	46	1.00
1722092--1722182	43	2.1	44	81	6	105	59	0	4	36	1.18
1722135--1722232	44	2.1	42	81	17	115	61	0	3	35	1.12
1728225--1728274	5	10.0	5	75	16	50	56	2	2	40	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729194--1729234	16	2.8	16	89	10	61	63	0	0	36	0.95
1730696--1730737	17	2.5	17	84	3	59	47	0	16	35	1.47
1732499--1732614	45	2.6	45	94	2	200	45	8	4	41	1.54
1732522--1732595	25	3.2	24	64	25	59	45	10	4	39	1.58
1732645--1732710	5	12.8	5	76	17	64	56	0	0	43	0.99
1734909--1734989	30	2.5	33	77	16	91	37	0	1	61	1.04
1734909--1735007	14	6.7	14	69	17	58	34	0	1	64	1.00
1734936--1735007	23	3.2	22	77	13	67	33	0	1	65	1.02
1734909--1735014	45	2.4	44	80	10	112	35	0	0	63	1.01
1739836--1739873	2	19.0	2	100	0	76	50	0	0	50	1.00

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