genome.fa.s221.2.7.7.80.10.50.1000.13.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  13  of  19  ( 2279 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)
1536087--1536192	53	2.0	50	81	18	119	46	0	0	52	1.06
1536153--1536208	20	2.6	21	75	11	51	55	1	0	42	1.10
1536567--1536595	12	2.3	13	94	5	51	44	3	0	51	1.18
1536589--1536635	10	4.5	10	79	10	58	55	0	6	38	1.26
1536576--1536628	22	2.3	23	90	3	81	54	1	3	39	1.29
1536620--1536696	39	2.1	35	90	9	118	50	0	3	45	1.20
1538205--1538249	19	2.4	19	82	14	58	57	0	0	42	0.98
1538442--1538506	21	2.8	23	75	15	62	32	0	9	58	1.30
1538453--1538493	21	1.9	22	90	5	66	31	0	7	60	1.24
1552568--1552626	28	2.2	28	84	6	77	55	1	3	38	1.26
1552870--1552907	19	2.1	19	90	5	60	55	0	5	39	1.23
1553192--1553230	20	1.9	20	84	5	51	69	2	0	28	1.02
1553665--1553725	30	2.1	28	81	6	68	40	1	0	57	1.08
1553970--1554011	13	3.3	13	86	6	59	64	0	0	35	0.94
1554215--1554247	15	2.1	16	88	5	50	54	0	0	45	0.99
1554270--1554318	15	3.0	15	80	16	53	48	2	0	48	1.12
1556468--1556509	22	1.9	22	85	9	59	47	9	9	33	1.68
1558413--1558474	32	2.0	32	84	9	83	43	0	1	54	1.09
1558575--1558657	31	2.8	31	72	18	77	48	1	0	50	1.08
1558581--1558650	33	2.2	31	82	12	79	48	1	0	50	1.09
1562222--1562295	33	2.3	31	78	13	78	56	0	2	40	1.13
1565350--1565397	10	4.9	10	85	9	55	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565358--1565416	11	5.1	12	82	15	63	66	1	1	30	1.12
1565363--1565416	25	2.2	25	83	12	67	66	1	1	29	1.12
1565362--1565398	15	2.5	15	91	4	58	70	0	0	29	0.88
1565362--1565402	4	10.0	4	85	15	57	70	0	0	29	0.87
1567444--1567470	6	4.5	6	100	0	54	33	0	0	66	0.92
1567754--1567810	2	28.5	2	92	0	96	50	3	0	45	1.18
1570510--1570547	13	3.1	12	85	14	51	36	0	2	60	1.11
1570516--1570544	13	2.2	13	100	0	58	37	0	0	62	0.96
1571162--1571345	34	5.4	34	85	2	237	23	7	27	41	1.81
1571162--1571345	68	2.7	68	90	0	271	23	7	27	41	1.81
1571162--1571345	102	1.8	101	87	5	273	23	7	27	41	1.81
1575754--1575938	34	5.5	34	85	2	239	23	7	27	41	1.81
1575754--1575938	68	2.7	68	90	0	273	23	7	27	41	1.81
1575754--1575938	102	1.8	101	87	5	275	23	7	27	41	1.81
1578280--1578308	13	2.1	14	93	6	51	41	3	24	31	1.71
1578831--1578906	33	2.3	32	80	12	93	57	0	0	42	0.98
1580275--1580329	28	2.0	27	86	10	76	49	0	0	50	1.00
1581795--1581839	2	22.5	2	90	0	72	46	0	4	48	1.22
1582124--1582189	35	1.9	34	84	9	89	42	0	3	54	1.15
1582128--1582229	10	9.6	10	69	17	64	43	0	1	53	1.18
1582205--1582281	25	3.5	22	75	24	65	33	1	0	64	1.01
1582413--1582601	98	1.9	99	86	1	272	56	5	3	34	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582697--1582734	17	2.3	17	86	4	51	36	10	0	52	1.36
1583704--1583750	19	2.5	19	80	16	53	53	2	0	44	1.12
1585636--1585674	20	2.0	19	85	5	51	51	5	2	41	1.38
1585805--1585837	16	1.9	18	88	11	52	51	6	3	39	1.42
1587050--1587168	39	3.1	37	73	14	100	36	1	0	60	1.13
1587361--1587391	16	1.9	16	93	0	53	41	9	0	48	1.36
1587765--1587828	20	3.1	21	84	8	78	31	0	10	57	1.33
1589787--1589817	2	15.5	2	93	0	53	51	3	0	45	1.17
1592275--1592353	29	2.8	29	80	10	76	39	1	0	59	1.06
1592326--1592381	14	3.9	14	72	11	51	41	0	0	58	0.98
1592358--1592406	11	4.7	11	79	18	52	34	2	0	63	1.06
1593044--1593095	27	2.0	26	81	11	61	44	0	0	55	0.99
1593471--1593605	27	4.9	28	70	22	81	42	0	0	57	1.04
1593554--1593601	17	2.7	19	81	15	66	35	0	0	64	0.94
1593546--1593644	30	3.3	31	75	20	88	38	2	2	57	1.22
1593753--1593842	8	11.5	8	73	17	82	40	0	0	60	0.97
1593738--1593867	29	4.4	29	75	14	90	37	1	0	60	1.06
1593782--1593866	16	5.6	16	68	25	58	38	0	0	61	0.96
1593754--1593882	45	2.9	43	78	10	125	37	0	0	60	1.08
1593783--1593838	25	2.3	25	84	9	71	41	0	0	58	0.98
1594047--1594099	5	10.6	5	78	15	56	35	1	0	62	1.06
1594270--1594367	9	10.9	9	68	19	53	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594289--1594376	44	2.0	42	82	10	106	43	0	0	56	0.99
1594973--1595007	6	6.0	6	86	6	54	82	0	17	0	0.66
1594973--1595006	17	2.0	17	94	0	59	85	0	14	0	0.60
1599438--1599474	17	2.3	17	86	9	51	32	2	18	45	1.64
1605278--1605323	24	2.0	23	82	4	56	50	2	4	43	1.34
1609117--1609162	16	2.8	17	83	9	51	54	26	4	15	1.59
1610359--1610392	2	17.5	2	93	6	61	50	0	0	50	1.00
1610392--1610416	2	12.5	2	100	0	50	52	0	48	0	1.00
1610955--1610992	18	2.0	20	90	10	62	47	0	0	52	1.00
1611815--1611933	15	8.0	14	65	25	57	57	2	0	39	1.12
1611818--1611927	7	13.4	8	70	25	70	58	2	0	39	1.13
1611815--1611949	16	8.9	16	70	24	91	58	2	0	39	1.10
1611865--1611919	18	3.0	18	80	17	60	56	0	0	43	0.99
1611997--1612032	16	2.2	16	90	5	54	61	0	0	38	0.96
1618909--1618956	4	11.8	4	91	4	78	27	0	25	47	1.52
1620245--1620285	22	1.9	22	90	5	66	46	2	4	46	1.37
1620245--1620292	22	2.2	22	85	7	62	50	2	4	43	1.33
1629887--1629920	18	1.9	17	88	5	50	52	2	0	44	1.16
1630004--1630042	20	2.0	20	89	0	60	43	0	0	56	0.99
1634735--1634783	17	2.8	17	82	11	55	36	0	2	61	1.08
1634737--1634788	23	2.3	23	83	6	63	36	0	1	61	1.07
1639057--1639117	29	2.0	31	84	6	81	59	4	6	29	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639437--1639486	13	3.9	13	80	15	52	60	0	0	40	0.97
1639448--1639486	13	2.8	15	81	18	57	61	0	0	38	0.96
1639715--1639758	20	2.3	19	88	11	63	61	0	0	38	0.96
1641573--1641633	23	2.6	24	80	15	74	36	1	1	60	1.16
1641580--1641677	18	5.7	18	69	25	52	36	3	2	58	1.25
1641835--1641886	25	2.1	25	85	7	70	57	1	0	40	1.10
1652960--1653024	19	3.2	20	80	18	71	53	0	1	44	1.09
1653992--1654084	6	16.0	6	72	17	54	60	2	0	37	1.09
1654085--1654131	18	2.5	19	80	13	53	48	2	0	48	1.13
1654370--1654412	22	2.0	22	86	9	61	34	11	0	53	1.37
1654473--1654507	18	1.9	18	88	0	52	65	2	0	31	1.07
1654593--1654645	19	2.8	20	81	16	67	41	0	0	58	0.98
1654590--1654632	16	2.6	16	77	3	50	41	0	0	58	0.98
1654593--1654653	19	3.0	20	79	15	63	42	0	0	57	0.98
1654599--1654645	20	2.5	19	76	16	53	42	0	0	57	0.98
1654588--1654723	57	2.2	61	78	8	145	48	1	1	48	1.19
1661176--1661217	21	2.0	21	86	9	59	47	0	0	52	1.00
1666838--1666919	40	2.0	40	88	4	121	42	3	1	52	1.26
1668491--1668541	2	26.5	2	88	7	79	49	0	0	50	1.00
1669813--1669880	2	34.0	2	87	0	73	42	1	8	47	1.43
1670116--1670154	2	19.5	2	94	0	69	51	46	0	2	1.14
1670154--1670181	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672699--1672740	14	2.9	14	85	3	57	50	0	0	50	1.00
1672862--1672948	33	2.6	33	78	15	97	42	0	0	57	0.98
1673200--1673239	21	1.9	22	85	10	57	50	0	0	50	1.00
1673244--1673277	12	2.9	12	91	4	52	44	0	23	32	1.54
1677001--1677030	13	2.2	14	94	5	53	50	0	0	50	1.00
1677567--1677593	14	1.9	14	100	0	54	66	3	0	29	1.09
1677731--1677784	15	3.4	16	75	10	56	50	0	0	50	1.00
1677724--1677791	32	2.1	32	86	5	91	55	0	0	44	0.99
1677698--1677791	18	5.3	18	70	17	65	56	0	1	42	1.06
1677724--1677791	33	2.1	33	83	10	86	55	0	0	44	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19