genome.fa.s166.2.7.7.80.10.50.1000.9.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: Scaffold166
Parameters: 2 7 7 80 10 50 1000
Length:  2719372

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2078 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)
1550799--1551332	167	3.2	166	82	5	596	50	10	11	27	1.71
1551541--1551580	18	2.2	19	90	4	64	47	2	10	40	1.50
1556631--1557089	212	2.2	210	83	4	550	36	8	22	32	1.84
1556626--1557090	106	4.4	105	77	8	426	36	8	21	32	1.84
1556579--1557152	106	5.4	105	76	9	402	35	9	23	31	1.87
1561356--1561383	13	2.2	13	100	0	56	28	14	17	39	1.89
1572405--1572571	84	2.0	83	90	3	262	31	28	18	21	1.97
1572406--1572617	56	3.8	56	81	12	229	32	29	17	20	1.95
1572407--1572617	28	7.5	27	81	9	203	32	29	17	19	1.95
1572626--1572951	49	6.6	49	76	10	274	24	25	16	33	1.96
1572687--1572951	101	2.6	101	83	4	309	24	25	16	33	1.96
1576674--1576698	13	1.9	13	100	0	50	36	16	16	32	1.90
1576683--1576739	19	3.0	20	79	7	73	31	17	17	33	1.93
1576772--1576819	20	2.4	20	86	6	62	35	14	16	33	1.89
1582985--1583011	13	2.1	13	100	0	54	29	14	14	40	1.86
1585416--1585488	20	3.7	19	87	7	85	28	15	17	38	1.90
1586183--1586215	17	1.9	17	100	0	66	18	15	18	48	1.81
1588585--1588698	50	2.3	50	86	6	160	43	9	15	30	1.79
1589026--1589130	55	1.9	55	84	0	138	39	20	20	20	1.93
1590632--1591148	159	3.3	155	78	7	449	36	11	23	29	1.89
1590632--1591144	80	6.5	79	73	7	387	35	11	23	29	1.90
1593443--1593582	51	2.7	52	89	1	210	42	14	14	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593619--1593680	20	3.0	20	85	2	70	30	16	11	41	1.83
1596246--1596300	19	2.8	20	83	5	76	38	14	18	29	1.90
1601986--1602056	14	5.5	13	70	11	56	76	1	0	22	0.87
1601990--1602039	22	2.3	21	90	10	75	74	2	0	24	0.93
1601986--1602056	17	4.2	16	76	15	63	76	1	0	22	0.87
1601990--1602039	21	2.3	22	90	10	77	74	2	0	24	0.93
1602456--1602609	48	3.1	48	63	20	118	55	16	12	16	1.70
1602463--1602620	52	3.1	52	61	23	118	55	15	12	16	1.69
1602416--1602622	100	2.1	100	97	0	387	55	15	12	15	1.69
1603460--1603512	25	2.2	24	82	3	61	73	5	16	3	1.17
1606343--1606547	89	2.3	89	85	5	268	28	11	30	30	1.91
1606799--1607124	88	3.8	86	76	7	306	44	13	19	22	1.86
1607223--1607249	10	2.7	10	100	0	54	0	0	7	92	0.38
1609554--1609600	22	2.1	23	84	11	62	61	10	2	25	1.39
1611899--1612465	281	2.0	281	99	0	1116	34	16	16	32	1.92
1613691--1613740	19	2.7	19	87	3	75	40	10	12	38	1.76
1614002--1614031	13	2.3	13	94	0	51	36	16	10	36	1.82
1615656--1615687	3	10.7	3	93	0	55	37	0	34	28	1.57
1621970--1622037	34	2.0	34	88	5	102	48	0	23	27	1.51
1625847--1625887	10	4.4	10	85	14	61	9	0	7	82	0.83
1625841--1625887	18	2.7	18	96	3	87	10	0	8	80	0.89
1625841--1625878	8	4.5	8	87	12	58	10	0	10	78	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1626488--1627075	42	13.8	40	66	13	113	40	17	28	14	1.88
1627137--1627437	43	7.1	43	67	10	161	40	16	28	14	1.88
1627164--1627397	42	5.5	41	72	9	184	40	17	26	15	1.89
1626458--1627461	85	11.8	86	80	6	838	40	16	28	14	1.88
1626458--1627556	170	6.4	169	79	5	939	40	16	28	14	1.88
1627711--1628760	47	22.7	46	74	11	632	39	17	20	22	1.92
1627703--1628762	94	11.4	95	76	9	805	40	17	20	22	1.92
1627703--1628762	140	7.6	140	77	7	916	40	17	20	22	1.92
1628769--1629151	44	8.8	43	75	6	304	40	16	22	19	1.91
1628777--1629143	88	4.2	88	80	2	339	40	16	23	19	1.91
1629813--1629846	18	1.9	18	88	5	52	5	20	0	73	1.04
1629793--1629848	29	1.9	29	89	7	87	3	19	1	75	1.05
1633185--1633215	12	2.7	12	95	5	55	45	0	6	48	1.28
1634827--1634878	24	2.2	24	82	6	61	23	0	11	65	1.25
1634844--1634894	8	6.2	8	84	10	68	15	0	11	72	1.12
1634850--1634894	9	5.2	9	81	10	58	15	0	11	73	1.10
1634844--1634894	17	3.1	17	91	2	77	15	0	11	72	1.12
1634952--1635086	67	2.0	67	100	0	270	34	21	16	28	1.95
1635353--1635789	164	2.7	158	81	7	466	40	12	9	37	1.75
1637057--1637481	164	2.6	166	82	7	512	54	7	8	29	1.57
1637040--1637529	164	3.0	164	76	12	477	52	8	9	29	1.63
1642700--1642725	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642680--1642743	32	2.0	33	87	3	94	29	14	15	40	1.86
1643470--1643495	12	2.2	12	100	0	52	42	23	0	34	1.54
1644821--1644863	20	2.1	20	82	4	50	9	27	44	18	1.80
1645304--1645342	13	3.0	13	92	0	69	35	15	15	33	1.89
1651513--1651538	13	2.0	13	100	0	52	30	15	15	38	1.88
1651493--1651556	32	2.0	33	90	3	103	28	14	15	42	1.86
1657475--1657697	88	2.5	89	76	11	224	32	11	26	29	1.91
1661956--1662043	20	4.4	20	76	13	74	40	9	15	34	1.79
1661976--1662065	39	2.3	39	94	1	155	38	12	14	34	1.83
1661968--1662048	20	4.1	20	84	9	121	40	11	13	34	1.80
1662950--1663017	9	7.9	8	84	11	73	79	4	2	13	1.00
1662948--1663016	26	2.6	25	77	8	75	78	5	2	13	1.05
1663010--1663136	63	2.0	63	93	0	218	40	17	18	24	1.91
1667870--1667907	13	2.9	13	100	0	76	36	15	15	31	1.90
1670189--1670352	51	3.2	51	83	3	197	31	24	11	32	1.91
1670341--1670414	28	2.7	27	89	8	105	18	33	21	25	1.96
1670331--1670582	110	2.3	109	86	2	355	24	27	14	33	1.94
1670483--1670688	79	2.6	79	82	6	247	27	25	12	33	1.92
1683077--1683146	1	70.0	1	79	0	77	90	8	0	1	0.53
1683077--1683146	19	3.8	19	83	14	101	90	8	0	1	0.53
1683077--1683155	27	2.8	27	85	12	106	88	8	1	1	0.62
1683077--1683146	9	7.4	9	85	9	95	90	8	0	1	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684247--1684554	57	5.4	57	84	8	367	28	25	20	25	1.99
1684595--1684843	61	4.0	61	84	6	333	25	24	19	30	1.98
1684808--1685004	42	4.6	43	74	13	165	22	23	13	41	1.89
1684817--1684985	87	2.0	86	86	3	241	20	24	12	42	1.86
1685007--1685109	41	2.5	40	81	10	120	17	27	10	44	1.81
1685701--1685877	20	8.8	20	71	20	120	27	17	14	40	1.88
1685788--1685857	33	2.1	33	94	0	122	30	18	11	40	1.86
1688174--1688342	51	3.3	50	79	3	176	28	22	13	35	1.92
1688331--1688402	28	2.6	28	91	4	110	23	33	18	25	1.97
1688436--1688510	28	2.7	28	85	8	100	24	30	17	28	1.97
1688464--1688675	79	2.7	79	81	8	245	28	24	13	33	1.93
1688280--1688591	110	2.9	107	81	5	360	27	25	13	33	1.94
1690210--1690245	12	3.3	11	88	11	56	83	8	8	0	0.82
1691195--1691461	28	9.5	28	74	8	175	27	28	17	26	1.97
1691254--1691461	84	2.5	84	79	6	217	28	28	16	26	1.97
1691595--1691784	32	6.0	32	81	8	203	31	33	16	18	1.94
1691543--1691805	64	4.1	63	78	9	241	31	30	17	20	1.96
1691594--1691788	95	2.0	96	84	8	256	30	32	18	18	1.95
1691542--1691788	32	7.7	32	75	13	197	31	29	17	20	1.96
1691815--1692045	60	4.0	58	67	18	149	24	22	12	40	1.89
1691806--1692246	168	2.6	170	84	4	530	24	22	12	39	1.90
1692070--1692321	62	4.1	62	73	7	194	23	25	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693157--1693219	28	2.5	24	79	18	74	77	4	1	15	1.01
1693157--1693218	17	3.9	16	76	19	58	77	4	1	16	1.02
1699659--1699759	20	5.6	20	75	20	96	31	11	12	43	1.79
1699674--1699734	30	2.0	30	90	0	95	31	11	13	44	1.79
1699659--1699754	50	1.9	50	91	0	156	31	11	12	44	1.78
1699704--1699763	20	3.0	20	100	0	120	30	15	10	45	1.78
1699659--1699813	70	2.2	69	86	7	206	29	14	12	43	1.81
1709818--1709843	13	2.0	13	100	0	52	30	15	15	38	1.88
1712409--1712446	13	2.9	13	96	0	67	31	15	18	34	1.92
1714527--1714557	15	2.1	15	93	0	53	12	22	16	48	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18