genome.fa.s57.2.7.7.80.10.50.1000.12.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  12  of  27  ( 3137 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)
1535960--1536033	26	2.8	25	78	15	78	51	0	1	47	1.09
1537889--1537921	2	16.5	2	100	0	66	0	48	0	51	1.00
1547087--1547584	254	2.0	253	99	0	978	40	16	15	28	1.88
1549911--1549982	35	2.2	36	78	16	84	41	1	0	56	1.07
1551417--1551462	15	3.1	15	78	9	58	50	0	0	50	1.00
1551622--1551686	21	3.0	22	71	13	62	44	0	0	55	0.99
1552124--1552168	16	2.8	17	76	10	58	60	4	0	35	1.17
1552979--1553020	20	2.2	20	82	4	50	50	0	0	50	1.00
1553961--1554010	27	1.9	25	88	8	73	42	0	0	58	0.98
1553950--1554019	24	2.8	23	73	23	61	45	0	0	54	0.99
1555423--1555468	19	2.6	18	77	19	51	43	0	0	56	0.99
1555969--1556022	21	2.6	19	75	18	54	33	3	0	62	1.12
1555981--1556071	45	1.9	49	84	10	127	37	2	1	59	1.17
1555975--1556038	29	2.2	28	81	13	76	32	3	1	62	1.20
1556030--1556080	15	3.2	15	74	20	50	41	0	0	58	0.98
1556813--1556854	22	1.9	22	90	9	68	38	0	0	61	0.96
1556870--1556920	20	2.4	21	77	12	59	52	1	1	43	1.23
1558026--1558074	21	2.3	22	82	10	57	6	10	0	83	0.80
1558427--1558523	51	1.9	50	83	8	126	38	1	1	59	1.11
1558499--1558548	20	2.6	19	79	14	59	46	0	0	54	1.00
1558474--1558578	35	2.9	35	72	13	88	41	1	0	56	1.10
1563511--1563600	46	2.0	46	88	4	137	30	20	6	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564962--1565005	22	2.0	22	87	12	65	59	0	0	40	0.98
1565796--1565826	16	1.9	16	93	0	53	74	6	3	16	1.16
1566373--1566411	10	3.9	10	80	12	53	43	0	0	56	0.99
1566961--1566990	14	2.1	14	93	0	51	33	0	0	66	0.92
1569924--1569963	19	2.0	20	85	14	55	55	0	0	45	0.99
1569923--1569972	21	2.3	22	76	13	59	48	0	0	52	1.00
1572205--1572247	14	2.9	15	82	10	52	48	0	0	51	1.00
1573228--1573255	13	2.2	13	100	0	56	42	0	0	57	0.99
1573943--1573992	19	2.5	21	83	6	59	40	0	0	60	0.97
1573959--1573992	11	3.2	11	87	8	52	38	0	0	61	0.96
1575900--1575924	2	12.5	2	100	0	50	0	0	48	52	1.00
1578643--1578685	21	2.0	21	90	4	68	60	0	6	32	1.23
1578790--1578847	20	2.8	20	72	12	55	51	0	1	46	1.11
1581182--1581229	20	2.6	19	84	12	64	31	0	2	66	1.03
1581186--1581229	23	1.9	23	85	0	61	31	0	2	65	1.05
1582538--1582642	18	6.1	16	73	19	54	56	1	2	39	1.25
1582600--1582641	17	2.3	18	80	12	50	59	2	4	33	1.31
1582221--1582729	254	2.0	251	84	6	652	44	6	8	40	1.60
1583043--1583115	30	2.4	30	83	0	83	30	8	9	52	1.63
1583647--1583733	28	3.1	27	78	8	93	52	2	3	41	1.31
1584070--1584107	19	2.0	19	94	0	67	63	21	2	13	1.42
1587844--1587884	17	2.4	16	88	8	55	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588490--1588521	2	16.0	2	100	0	64	50	0	0	50	1.00
1589347--1589376	4	7.5	4	92	0	51	70	0	3	26	1.03
1589347--1589377	16	1.9	16	100	0	62	67	0	6	25	1.14
1590274--1590327	3	18.3	3	92	3	92	66	0	1	31	1.02
1591342--1591366	2	12.5	2	100	0	50	52	0	0	48	1.00
1592402--1592478	15	4.9	15	81	7	82	46	2	0	50	1.15
1592401--1592478	32	2.5	31	81	6	95	47	2	0	50	1.15
1594789--1594816	2	14.0	2	100	0	56	50	0	0	50	1.00
1594802--1594862	31	2.0	31	90	0	95	32	3	18	45	1.65
1595386--1595415	2	15.0	2	100	0	60	50	0	0	50	1.00
1597001--1597067	6	11.8	6	77	15	63	37	0	0	62	0.95
1596998--1597099	5	21.2	5	69	18	65	40	0	0	59	0.97
1596996--1597067	29	2.6	26	81	16	90	37	0	0	62	0.95
1596985--1597095	45	2.4	48	79	14	135	42	0	0	57	0.98
1599967--1599991	13	1.9	13	100	0	50	76	0	0	24	0.80
1600178--1600256	32	2.5	31	75	20	74	51	0	0	48	1.00
1604139--1604184	3	15.3	3	95	0	83	63	0	2	34	1.07
1615400--1615453	21	2.4	21	81	9	63	57	0	0	42	0.98
1615406--1615455	21	2.4	21	84	12	68	60	0	0	40	0.97
1615666--1615722	19	2.9	19	79	12	62	73	5	7	14	1.21
1615997--1616046	19	2.6	19	84	6	66	60	0	4	36	1.16
1616355--1616387	15	2.1	16	88	5	50	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1616847--1616894	19	2.3	21	79	10	55	45	0	0	54	0.99
1621044--1621077	2	17.5	2	93	6	61	50	0	0	50	1.00
1621686--1621726	4	10.8	4	89	10	68	26	0	21	51	1.48
1623344--1623379	19	1.9	19	88	5	56	38	5	11	44	1.63
1623557--1623587	2	15.5	2	100	0	62	48	0	0	51	1.00
1623975--1624020	22	2.1	21	84	4	56	36	2	2	58	1.22
1624316--1624357	2	21.0	2	100	0	84	50	0	0	50	1.00
1625017--1625047	2	16.0	2	93	6	55	48	0	0	51	1.00
1627134--1627163	2	15.0	2	100	0	60	50	0	50	0	1.00
1628009--1628044	2	18.5	2	88	5	56	47	0	0	52	1.00
1630067--1630160	33	2.8	35	80	11	106	42	1	1	55	1.14
1630118--1630162	19	2.4	18	82	14	56	37	0	0	62	0.96
1630123--1630162	19	2.2	19	86	13	57	35	0	0	65	0.93
1630456--1630495	17	2.4	17	86	0	53	22	35	12	30	1.91
1630520--1630546	12	2.2	12	100	0	54	29	7	14	48	1.71
1632990--1633039	23	2.3	21	83	16	59	64	0	0	36	0.94
1633003--1633049	12	4.0	12	83	13	62	63	0	2	34	1.06
1632992--1633041	21	2.5	19	79	20	57	64	0	0	36	0.94
1633088--1633137	15	3.1	16	72	21	50	54	0	0	46	1.00
1633266--1633304	14	2.9	14	92	3	62	38	0	0	61	0.96
1633407--1633487	8	9.6	8	75	9	72	65	1	0	33	1.01
1633407--1633491	17	5.0	17	75	13	77	65	1	0	32	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633540--1633635	2	51.5	2	75	17	91	54	2	2	41	1.24
1633540--1633635	9	10.8	9	79	15	87	54	2	2	41	1.24
1633541--1633647	16	6.7	16	78	15	105	54	3	1	40	1.29
1633642--1633693	21	2.5	21	75	22	56	26	0	3	69	1.06
1633729--1634734	89	11.3	89	84	2	1076	38	15	16	30	1.89
1633739--1634734	444	2.2	446	83	3	1218	38	15	15	30	1.89
1638208--1638436	2	128.5	2	66	24	86	43	0	3	52	1.22
1638208--1638384	49	3.7	46	73	14	153	40	0	3	55	1.18
1638213--1638405	95	2.0	95	90	5	302	40	0	3	55	1.17
1641060--1641086	12	2.2	12	100	0	54	48	14	7	29	1.71
1641718--1641752	16	2.3	15	90	5	52	68	0	0	31	0.90
1646120--1646149	16	1.9	15	93	6	51	40	0	0	60	0.97
1647813--1648050	119	2.0	119	93	4	394	46	19	13	21	1.83
1648542--1648581	21	1.9	20	90	10	62	50	0	15	35	1.44
1648549--1648589	21	2.0	21	90	0	64	48	0	14	36	1.44
1648658--1648692	17	2.0	18	94	5	63	51	0	0	48	1.00
1652938--1652992	24	2.1	27	87	9	80	56	0	38	5	1.23
1654526--1654555	15	2.0	15	93	0	51	80	6	3	10	1.01
1654633--1654683	19	2.6	19	84	6	66	1	11	9	76	1.10
1654636--1654691	20	2.8	19	82	15	69	1	12	10	75	1.14
1655498--1655564	19	3.4	19	75	20	66	73	2	20	2	1.10
1655498--1655605	41	2.7	39	81	14	109	72	2	22	2	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655498--1655686	4	43.5	4	68	22	73	68	4	23	3	1.25
1655498--1655605	45	2.4	45	79	14	109	72	2	22	2	1.11
1655498--1655634	50	2.9	50	75	16	123	70	3	22	3	1.19
1656726--1656829	7	13.2	8	73	13	74	81	1	13	2	0.88
1656730--1656821	15	5.9	15	75	10	78	82	1	13	3	0.84
1656732--1656828	6	16.8	6	71	10	53	81	2	13	3	0.90
1656742--1656829	41	2.2	40	84	10	115	81	2	13	2	0.88
1656744--1656829	39	2.1	41	85	8	115	81	2	13	2	0.89
1659573--1659629	24	2.4	24	85	5	71	5	1	10	82	0.90
1659591--1659629	12	3.2	12	85	0	60	0	0	12	87	0.55

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