genome.fa.s409.2.7.7.80.10.50.1000.11.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

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   

This is table  11  of  25  ( 2882 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)
1598091--1598140	21	2.3	22	93	6	84	52	0	22	26	1.48
1598231--1598278	22	2.3	20	75	10	53	41	0	20	37	1.53
1598825--1599411	167	3.5	164	81	6	632	30	9	8	51	1.64
1599722--1599786	12	5.7	12	77	20	52	69	0	23	7	1.14
1599734--1599787	23	2.3	22	81	15	56	72	0	22	5	1.05
1600868--1601118	79	3.2	77	86	4	349	33	13	26	27	1.93
1603430--1603544	50	2.3	50	87	0	167	38	13	19	28	1.90
1606327--1606352	13	2.0	13	100	0	52	30	15	15	38	1.88
1606307--1606370	32	2.0	33	87	3	94	28	14	17	40	1.88
1607032--1607067	16	2.2	16	100	0	72	13	38	5	41	1.68
1607068--1607111	21	2.1	21	83	8	54	25	31	4	38	1.76
1611540--1611584	21	2.1	21	84	8	56	22	20	4	53	1.63
1611718--1611750	16	2.1	16	88	5	50	30	12	3	54	1.52
1613805--1613830	13	2.0	13	100	0	52	30	15	15	38	1.88
1613785--1613848	32	2.0	33	87	3	94	28	14	17	40	1.88
1617972--1618030	20	2.8	20	82	7	82	38	11	16	32	1.86
1618096--1618148	19	2.6	21	85	8	74	30	13	11	45	1.78
1618186--1618227	21	2.0	21	100	0	84	38	19	19	23	1.93
1618845--1619154	85	3.7	85	80	6	309	40	14	24	20	1.90
1618845--1619154	42	7.5	42	79	5	292	40	14	24	20	1.90
1619219--1619919	62	11.3	62	81	4	680	35	18	22	23	1.96
1619227--1619924	122	5.6	126	83	2	772	35	18	22	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619227--1619922	63	11.2	62	81	7	707	35	18	22	23	1.96
1619880--1619950	37	1.9	37	97	0	133	38	19	23	18	1.93
1619787--1620079	159	1.8	158	87	0	433	36	18	21	23	1.95
1619816--1620015	95	2.0	97	83	5	251	36	18	23	22	1.95
1619946--1620331	63	6.1	63	85	0	468	35	17	22	23	1.95
1619443--1620823	473	2.9	471	86	4	1815	33	18	23	24	1.97
1620289--1620370	37	2.2	37	91	0	128	39	17	26	17	1.91
1620226--1620433	100	2.1	100	90	0	326	33	17	26	22	1.96
1620326--1621356	63	16.1	63	78	7	916	32	18	23	25	1.97
1620175--1620493	163	2.0	162	86	1	442	33	17	25	23	1.96
1620101--1620558	225	2.0	225	84	4	602	33	17	25	24	1.96
1621368--1621465	30	3.2	30	81	2	124	29	16	28	25	1.97
1622397--1622429	12	2.8	12	90	0	57	0	0	9	90	0.44
1622397--1622428	6	5.7	6	92	7	50	0	0	9	90	0.45
1627507--1627568	33	1.9	32	90	3	97	25	12	17	43	1.85
1629622--1629815	79	2.5	79	80	4	212	34	13	24	27	1.93
1629749--1629866	51	2.3	51	85	5	150	35	12	22	28	1.91
1629670--1629926	130	2.0	130	81	3	302	36	11	23	28	1.90
1633733--1633787	28	2.0	28	89	7	85	32	18	29	20	1.96
1633707--1634211	76	6.6	77	75	9	435	37	11	21	30	1.88
1633703--1634234	150	3.5	150	82	6	574	36	10	22	30	1.88
1636595--1636652	20	2.7	22	86	7	84	44	13	17	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636640--1636773	20	6.7	20	69	15	71	25	14	19	40	1.90
1636701--1636773	21	3.5	20	84	3	92	28	15	16	39	1.89
1639463--1639526	20	3.7	18	74	25	66	43	15	12	28	1.83
1639481--1639506	13	2.0	13	100	0	52	38	15	15	30	1.88
1639463--1639526	32	2.0	33	93	3	112	43	15	12	28	1.83
1641736--1641785	21	2.3	21	80	10	57	56	4	18	22	1.58
1643583--1643613	15	2.1	15	93	0	53	48	16	22	12	1.80
1645695--1645732	13	2.9	13	96	0	67	34	18	15	31	1.92
1647593--1647709	58	2.0	58	94	0	207	35	4	23	35	1.75
1648213--1648267	19	2.8	19	91	2	83	38	16	16	29	1.90
1648319--1648382	20	3.7	18	74	25	66	43	15	12	28	1.83
1648337--1648362	13	2.0	13	100	0	52	38	15	15	30	1.88
1648319--1648382	32	2.0	33	93	3	112	43	15	12	28	1.83
1648415--1648454	20	2.1	19	90	4	62	42	15	7	35	1.75
1651933--1651986	21	2.7	20	75	16	58	29	14	12	42	1.83
1652799--1652933	49	2.8	49	84	4	182	35	19	22	22	1.96
1652751--1652933	98	1.8	100	84	3	253	33	18	25	22	1.97
1652902--1653524	39	14.6	39	70	17	339	25	19	28	26	1.98
1652954--1653585	87	7.3	87	89	1	935	26	18	27	26	1.98
1653655--1654242	27	19.2	28	73	15	258	35	13	30	20	1.92
1653754--1654066	33	9.6	33	70	15	138	36	12	30	20	1.90
1653714--1654155	62	7.0	61	77	11	417	35	13	30	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1653803--1654301	33	15.8	33	72	12	275	35	14	29	20	1.92
1653603--1654155	129	4.4	126	79	10	521	34	13	31	20	1.91
1653843--1654256	89	4.4	94	80	10	302	34	14	30	20	1.92
1653583--1654265	163	4.4	156	75	14	524	34	13	31	20	1.92
1653995--1654429	89	4.7	90	80	10	380	34	14	29	21	1.93
1654122--1654429	62	4.9	62	78	9	164	34	14	28	21	1.94
1654218--1654432	31	6.7	31	84	9	256	33	15	28	22	1.95
1655090--1655146	31	1.9	28	86	10	78	36	3	19	40	1.69
1655732--1655772	14	2.9	14	89	10	57	0	0	14	85	0.60
1663717--1663887	51	3.4	51	85	3	218	29	12	28	29	1.93
1664013--1664126	51	2.2	51	82	3	131	34	14	21	29	1.93
1666533--1666597	33	2.0	33	84	0	85	41	15	16	26	1.88
1667241--1667513	42	6.6	41	72	17	133	42	12	27	18	1.85
1667330--1667511	42	4.2	42	76	10	170	42	12	26	18	1.85
1667346--1667620	45	6.5	44	75	13	208	40	13	25	20	1.89
1667368--1667620	83	3.0	83	83	5	294	41	12	26	19	1.87
1667593--1667712	61	2.0	61	90	3	188	27	20	27	25	1.99
1668822--1668890	11	6.9	10	82	14	81	0	1	10	88	0.58
1668822--1668891	1	70.0	1	76	0	68	0	1	10	88	0.57
1668822--1668891	17	4.3	16	85	8	97	0	1	10	88	0.57
1668833--1668890	27	2.1	27	93	6	100	0	0	10	89	0.48
1673642--1673685	17	2.6	17	79	13	54	38	0	6	54	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673839--1673905	33	2.0	34	94	2	118	38	7	13	40	1.73
1674847--1674989	29	4.9	30	75	9	118	16	10	11	62	1.54
1683661--1683703	15	2.8	16	92	3	70	76	0	16	6	0.99
1683664--1683703	16	2.5	16	91	0	62	80	0	15	5	0.88
1683942--1683993	16	3.5	15	77	17	63	84	5	9	0	0.77
1683959--1683996	10	3.7	10	86	6	58	84	2	13	0	0.73
1684925--1685196	62	4.4	61	80	7	289	24	29	17	28	1.97
1684925--1685195	126	2.2	126	82	5	320	24	29	17	28	1.97
1684924--1685256	31	10.8	30	74	11	255	25	29	16	29	1.96
1685262--1685806	34	17.2	34	75	13	420	20	35	13	30	1.91
1685417--1685503	27	3.1	27	85	4	129	19	36	16	27	1.93
1685417--1685540	62	2.1	56	83	8	149	21	33	13	30	1.92
1685273--1685695	124	3.3	121	79	12	385	21	36	13	29	1.91
1685324--1685824	95	5.3	94	79	8	543	20	35	13	31	1.91
1685573--1685762	65	2.9	65	86	3	240	20	35	12	31	1.90
1685702--1685789	27	3.2	27	80	6	113	20	31	15	31	1.94
1685883--1686495	49	12.7	49	83	4	741	26	25	17	30	1.97
1686314--1686451	43	3.1	43	87	5	186	25	24	19	30	1.98
1686405--1686558	52	2.9	53	79	6	177	25	23	15	35	1.94
1686508--1686634	67	1.9	68	86	1	184	23	25	12	38	1.90
1687376--1687400	13	1.9	13	100	0	50	36	16	16	32	1.90
1687356--1687422	33	2.0	33	88	0	98	32	11	14	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691224--1691266	10	3.8	11	81	12	52	0	20	0	79	0.74
1691756--1691793	19	2.0	20	89	5	60	60	2	0	36	1.11
1696106--1696392	159	1.8	159	79	8	343	40	11	16	31	1.84
1695907--1696999	158	6.9	157	70	10	541	39	11	16	32	1.85
1697757--1697912	73	2.1	73	100	0	312	26	15	18	39	1.91
1706483--1706517	18	1.9	18	88	11	54	77	0	20	2	0.90
1706475--1706523	16	2.9	16	78	18	55	73	0	20	6	1.04
1706475--1706531	16	3.3	17	75	9	53	73	0	19	7	1.05
1709511--1709954	97	4.6	96	79	3	397	19	19	29	31	1.96
1709511--1709958	193	2.3	194	79	4	476	19	18	29	31	1.96

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