genome.fa.s23.2.7.7.80.10.50.1000.11.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: Scaffold23
Parameters: 2 7 7 80 10 50 1000
Length:  3125668

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

This is table  11  of  18  ( 2102 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)
1561159--1561328	52	3.3	53	78	11	172	29	24	12	33	1.92
1561312--1561388	28	2.8	28	87	0	100	23	33	19	23	1.97
1560988--1561395	212	1.9	212	87	5	590	28	26	13	31	1.94
1561263--1561470	107	1.9	108	80	2	240	27	27	14	29	1.96
1562556--1562613	19	3.0	20	80	7	75	34	15	15	34	1.89
1562597--1562621	13	1.9	13	100	0	50	32	16	16	36	1.90
1563255--1563319	25	2.6	25	76	11	71	69	7	7	15	1.35
1563290--1563320	13	2.3	13	94	5	53	77	6	3	12	1.08
1566198--1566233	3	12.0	3	100	0	72	33	0	0	66	0.92
1566285--1566427	16	9.2	16	73	10	91	59	1	0	39	1.06
1570438--1570480	22	2.0	22	86	9	61	32	0	11	55	1.36
1570994--1571102	38	2.9	37	83	4	137	36	16	16	30	1.91
1572371--1572491	38	3.2	38	88	2	154	32	14	21	31	1.94
1572386--1572534	38	3.9	38	82	5	151	30	14	20	34	1.93
1572484--1572592	38	2.9	38	80	0	128	28	15	17	38	1.90
1575060--1575085	13	2.0	13	100	0	52	30	15	15	38	1.88
1575784--1575827	21	2.1	21	83	8	54	25	31	4	38	1.76
1577631--1577669	13	3.0	13	100	0	78	38	15	15	30	1.88
1579725--1579755	15	2.1	15	93	0	53	12	22	16	48	1.80
1581559--1581602	21	2.2	20	84	12	54	22	20	4	52	1.65
1583820--1583845	13	2.0	13	100	0	52	30	15	15	38	1.88
1584262--1584320	20	3.0	20	85	5	75	37	8	20	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584356--1584494	53	2.7	52	86	3	183	31	17	9	41	1.81
1587975--1588008	16	2.1	16	88	0	50	14	2	11	70	1.27
1590559--1590598	14	2.7	15	88	11	64	32	5	0	62	1.17
1590732--1590794	16	4.0	15	76	17	56	33	3	7	55	1.45
1590805--1590839	16	2.2	16	89	0	52	31	2	2	62	1.24
1591756--1591807	22	2.4	22	84	9	63	51	0	1	46	1.12
1591878--1591928	12	4.2	12	82	5	59	35	1	0	62	1.06
1592361--1592435	15	4.8	15	77	8	69	30	1	10	57	1.41
1592662--1592700	18	2.2	18	95	4	71	48	0	0	51	1.00
1592670--1592709	18	2.2	18	90	0	62	52	0	0	47	1.00
1593902--1593931	16	1.9	15	93	6	51	26	16	3	53	1.59
1594404--1594477	16	4.6	16	87	0	103	36	13	2	47	1.57
1594451--1594487	16	2.3	16	90	0	56	43	8	0	48	1.32
1594417--1594487	32	2.2	32	82	0	79	36	14	2	46	1.59
1594501--1594542	6	7.3	6	81	7	52	47	2	2	47	1.28
1595078--1595115	16	2.5	16	83	8	53	31	0	2	65	1.06
1598348--1598386	16	2.4	16	82	0	51	25	0	15	58	1.37
1599513--1599708	104	1.9	104	89	1	304	38	7	4	50	1.51
1599362--1599846	257	1.9	257	85	2	679	35	8	7	48	1.61
1599743--1600021	155	1.8	155	81	4	350	34	9	8	48	1.65
1603799--1603837	20	2.0	19	90	5	60	53	17	2	25	1.56
1603824--1603861	20	1.9	19	89	5	58	44	15	5	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606485--1606515	2	15.5	2	93	0	53	48	3	0	48	1.17
1607282--1607340	24	2.5	24	83	8	68	72	0	0	27	0.84
1607280--1607352	23	3.2	22	81	11	76	72	0	0	27	0.85
1607281--1607342	11	5.5	11	83	14	72	74	0	0	25	0.82
1607484--1607547	17	3.5	20	78	17	70	67	0	0	32	0.91
1607515--1607562	17	2.8	16	87	9	60	64	2	2	31	1.16
1607882--1607928	6	7.8	6	97	0	76	17	34	4	44	1.68
1615285--1615314	2	15.0	2	100	0	60	0	50	0	50	1.00
1617435--1617489	22	2.5	22	90	0	83	21	10	25	41	1.86
1636820--1636876	23	2.5	24	83	8	66	40	0	0	59	0.97
1636886--1636920	18	2.0	17	88	5	52	57	0	0	42	0.99
1637311--1637362	16	3.6	16	75	19	60	34	0	0	65	0.93
1637311--1637364	20	2.5	21	82	11	65	35	0	0	64	0.94
1637332--1637374	15	2.8	15	82	13	52	34	0	0	65	0.93
1637553--1637599	24	2.0	24	91	8	78	36	0	0	63	0.94
1637770--1637812	5	8.4	5	80	14	52	74	2	0	23	0.93
1637780--1637821	19	2.1	20	86	8	59	71	0	0	28	0.86
1637772--1637805	16	2.1	16	88	5	50	70	2	0	26	1.01
1637767--1637821	13	4.0	14	76	23	55	70	1	0	27	0.97
1639443--1639492	19	2.6	19	77	0	64	18	6	6	70	1.29
1639680--1639728	25	2.0	25	87	0	71	61	6	4	28	1.38
1641398--1641433	18	2.0	18	88	0	54	36	2	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641961--1641990	2	15.0	2	92	0	51	50	3	0	46	1.18
1644588--1644627	12	3.1	13	92	7	64	60	0	0	40	0.97
1644588--1644624	6	5.8	6	96	3	56	62	0	0	37	0.96
1646148--1646195	17	2.7	17	83	6	51	60	0	2	37	1.09
1648553--1648587	6	5.8	6	89	0	52	42	0	2	54	1.15
1649428--1649462	16	2.2	16	100	0	70	22	5	0	71	1.07
1650117--1650188	24	2.5	31	68	31	86	51	0	2	45	1.15
1650133--1650180	14	3.6	14	71	23	50	47	0	4	47	1.21
1650136--1650184	24	2.0	24	100	0	98	46	0	4	48	1.20
1651100--1651148	22	2.2	22	85	7	64	0	18	2	79	0.83
1651222--1651254	2	16.5	2	100	0	66	48	0	0	51	1.00
1651840--1651869	3	10.0	3	100	0	60	33	0	0	66	0.92
1657988--1658038	20	2.5	20	96	0	93	43	15	5	35	1.71
1658716--1658770	20	2.7	20	80	2	56	47	9	14	29	1.75
1658792--1658873	20	4.1	19	77	13	74	35	14	10	39	1.82
1658815--1658870	20	2.7	20	89	10	78	28	16	12	42	1.84
1661234--1661285	27	1.9	27	84	0	68	26	19	15	38	1.91
1661838--1661862	13	1.9	13	100	0	50	36	16	16	32	1.90
1661818--1661887	33	2.1	33	89	0	104	34	11	14	40	1.82
1661927--1661951	13	1.9	13	100	0	50	32	16	16	36	1.90
1661940--1662080	52	2.7	52	91	0	228	34	18	17	30	1.94
1667069--1667149	1	81.0	1	77	0	63	0	7	6	86	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667071--1667151	27	3.0	27	92	3	137	0	9	6	83	0.79
1678719--1678785	25	2.7	25	74	4	73	38	25	1	34	1.65
1690094--1690132	15	2.5	16	83	8	62	87	5	7	0	0.68
1694825--1694962	61	2.2	60	85	2	177	34	11	28	25	1.91
1694970--1695103	52	2.6	51	82	7	171	35	19	22	22	1.96
1695230--1695322	43	2.1	43	84	2	114	27	18	27	25	1.98
1695326--1695517	32	6.0	32	78	10	166	21	17	30	30	1.96
1695327--1695508	63	2.9	62	82	8	215	21	18	30	30	1.97
1695330--1695517	64	3.0	63	81	7	193	22	16	30	30	1.96
1695326--1695517	95	2.0	96	85	3	262	21	17	30	30	1.96
1695690--1695751	28	2.3	27	88	2	88	29	22	22	25	1.99
1695801--1695841	13	3.2	13	85	0	55	36	17	14	31	1.90
1695817--1695859	14	3.1	14	86	3	52	39	13	6	39	1.72
1697108--1697182	16	5.2	15	72	18	61	1	2	14	81	0.87
1697117--1697184	12	5.4	12	74	19	59	1	1	16	80	0.85
1697108--1697182	27	2.8	27	75	16	75	1	2	14	81	0.87
1697117--1697182	14	4.9	13	78	12	62	1	1	15	81	0.83
1697110--1697184	25	3.0	24	76	17	82	1	2	16	80	0.90
1706669--1706731	19	3.6	19	74	24	66	38	12	12	36	1.82
1706658--1706771	32	3.6	32	91	0	183	38	12	12	36	1.80
1706701--1706763	19	3.6	19	68	24	66	39	12	9	38	1.76
1706816--1706843	13	2.2	13	100	0	56	28	14	17	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712982--1713048	33	2.0	33	85	0	89	35	11	11	40	1.79
1713002--1713026	13	1.9	13	100	0	50	36	16	16	32	1.90
1713091--1713115	13	1.9	13	100	0	50	32	16	16	36	1.90
1713104--1713243	51	2.7	52	91	4	230	32	17	17	31	1.94
1724365--1724439	10	7.6	9	72	22	53	84	10	5	0	0.78
1724353--1724439	29	3.1	29	80	14	101	83	9	6	0	0.80
1724358--1724421	34	1.9	34	87	3	94	85	4	9	0	0.72
1724351--1724427	24	3.2	23	84	15	102	84	7	7	0	0.78
1724353--1724421	1	69.0	1	73	0	57	86	4	8	0	0.68
1725868--1725952	30	3.0	28	80	13	109	31	34	16	17	1.93

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