genome.fa.s187.2.7.7.80.10.50.1000.10.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: Scaffold187
Parameters: 2 7 7 80 10 50 1000
Length:  2169796

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  10  of  13  ( 1529 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)
1481743--1481923	82	2.2	82	79	3	188	24	26	14	34	1.94
1485524--1485612	43	2.0	44	89	2	135	35	6	21	35	1.80
1488777--1488826	25	2.0	25	100	0	100	28	8	8	56	1.57
1495081--1495360	144	1.9	144	81	0	335	39	8	13	39	1.74
1496450--1496479	13	2.3	13	94	0	51	36	16	13	33	1.88
1496435--1496499	33	2.0	33	84	6	87	35	12	16	35	1.87
1504090--1504181	1	92.0	1	78	0	76	0	7	5	86	0.69
1504089--1504183	32	3.0	32	93	6	160	0	10	5	84	0.77
1512979--1513050	20	3.6	20	100	0	144	43	11	15	30	1.81
1512959--1513053	40	2.4	39	82	5	127	40	11	13	34	1.81
1515554--1515599	19	2.3	20	88	3	67	32	15	17	34	1.91
1516849--1516887	20	2.0	20	85	5	53	38	10	10	41	1.73
1516918--1516969	19	2.7	20	84	6	70	30	11	15	42	1.82
1519056--1519110	20	2.8	20	94	0	92	9	25	43	21	1.82
1519561--1519586	13	2.0	13	100	0	52	30	15	15	38	1.88
1522111--1522177	33	2.0	33	88	0	98	34	11	13	40	1.81
1522131--1522155	13	1.9	13	100	0	50	36	16	16	32	1.90
1522221--1522245	13	1.9	13	100	0	50	32	16	16	36	1.90
1522254--1522380	52	2.5	52	96	2	231	33	18	18	30	1.94
1529418--1529443	13	2.0	13	100	0	52	30	15	15	38	1.88
1529398--1529461	32	2.0	33	87	3	94	29	12	15	42	1.84
1533659--1533707	17	3.0	16	82	11	55	40	2	4	53	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533705--1533775	30	2.4	30	83	4	90	52	1	2	43	1.24
1533742--1533786	23	2.0	23	90	0	72	53	0	2	44	1.13
1542328--1542371	17	2.7	16	86	13	63	38	11	9	40	1.73
1542328--1542376	16	3.1	16	85	14	66	36	10	8	44	1.68
1547839--1547919	34	2.2	34	79	14	83	49	0	8	41	1.33
1549171--1549229	18	3.2	18	86	13	77	52	0	1	45	1.10
1549739--1549799	16	3.5	17	78	12	61	59	1	0	39	1.08
1549745--1549850	56	1.9	54	81	7	124	54	1	0	43	1.11
1549873--1549902	15	1.9	16	93	6	53	76	3	0	20	0.92
1550025--1550052	2	14.0	2	100	0	56	50	0	0	50	1.00
1550127--1550194	20	3.3	21	76	8	59	61	1	0	36	1.05
1550288--1550340	25	2.2	24	86	6	72	58	0	0	41	0.98
1550587--1550645	31	1.9	32	86	10	88	52	0	0	47	1.00
1550567--1550697	70	1.9	70	89	4	205	54	0	0	44	1.05
1550624--1550680	22	2.6	22	74	15	55	57	1	0	40	1.09
1551059--1551231	89	2.0	88	80	8	201	39	2	4	52	1.37
1554063--1554097	15	2.2	16	90	5	54	54	0	2	42	1.15
1553872--1554107	122	1.9	122	84	7	318	52	2	3	41	1.30
1554392--1554454	23	2.7	23	82	7	65	31	1	6	60	1.31
1554472--1554548	35	2.3	35	86	8	106	46	1	0	51	1.09
1554426--1554826	119	3.4	115	83	9	388	43	1	1	52	1.22
1554529--1554826	119	2.5	117	85	8	415	43	1	2	52	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554607--1554771	40	4.2	40	65	26	98	44	2	1	51	1.22
1554971--1555036	14	4.8	14	75	1	62	51	1	0	46	1.10
1554969--1555008	13	2.9	14	88	7	55	55	2	0	42	1.13
1556210--1556251	21	2.0	21	81	9	50	57	0	0	42	0.99
1556551--1556660	55	2.0	55	96	0	202	26	11	26	35	1.91
1556694--1556737	17	2.9	14	78	21	52	27	0	2	70	0.99
1556691--1556731	17	2.5	17	88	11	59	26	0	0	73	0.84
1560179--1560242	31	2.1	31	85	5	85	60	9	1	28	1.36
1563538--1563927	56	7.0	56	79	6	387	36	14	20	27	1.92
1563538--1563973	168	2.6	167	87	1	595	36	14	20	28	1.92
1563539--1563973	56	7.8	56	76	6	362	36	14	20	28	1.92
1564820--1564892	20	3.7	20	78	14	96	39	15	16	28	1.89
1564821--1564911	40	2.3	40	100	0	182	36	15	17	30	1.91
1564841--1564911	20	3.5	20	78	14	92	33	15	18	32	1.92
1565610--1565669	26	2.2	27	85	5	77	26	25	1	46	1.62
1568710--1568784	20	3.8	20	81	0	96	33	13	12	41	1.81
1574817--1574841	12	2.1	12	100	0	50	24	32	0	44	1.54
1581954--1581984	16	1.9	16	100	0	62	38	19	22	19	1.93
1585636--1585694	25	2.4	25	94	0	100	52	5	18	23	1.65
1586116--1586324	102	2.0	102	89	1	321	35	21	18	24	1.95
1591582--1591620	21	2.0	21	85	10	55	23	20	10	46	1.81
1602810--1602848	13	3.0	13	100	0	78	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)
1602832--1602894	19	3.3	18	85	12	90	34	14	17	33	1.90
1602874--1602974	43	2.3	43	100	0	202	25	21	20	31	1.98
1602961--1603013	20	2.7	20	88	5	72	33	13	18	33	1.90
1610062--1610087	13	2.0	13	100	0	52	30	15	15	38	1.88
1610785--1610828	21	2.1	21	83	8	54	27	31	2	38	1.69
1612635--1612673	13	3.0	13	96	0	69	35	15	17	30	1.91
1612659--1612697	20	2.0	20	94	0	69	51	10	15	23	1.73
1614750--1614780	15	2.1	15	93	0	53	12	22	16	48	1.80
1616584--1616628	21	2.1	21	84	8	56	22	20	4	53	1.63
1618846--1618871	13	2.0	13	100	0	52	30	15	15	38	1.88
1621628--1621681	19	2.8	20	82	2	65	29	14	16	38	1.89
1621725--1621777	13	4.5	13	71	26	55	33	13	16	35	1.88
1621709--1621777	33	2.1	33	89	5	104	31	13	18	36	1.89
1624216--1624297	10	8.0	10	78	9	85	84	12	2	1	0.79
1624220--1624282	7	8.7	7	80	16	67	85	12	1	0	0.66
1624220--1624308	24	3.6	23	81	15	90	83	11	3	2	0.86
1624217--1624297	1	81.0	1	72	0	54	85	11	2	1	0.76
1624218--1624296	9	8.9	9	81	14	78	84	11	2	1	0.77
1625520--1626166	28	22.1	28	77	11	559	29	29	17	23	1.97
1625516--1626148	89	7.2	89	82	6	679	29	30	17	23	1.97
1626229--1626338	49	2.3	47	84	6	134	20	27	19	32	1.97
1627044--1627118	20	3.8	20	81	0	87	33	13	13	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627163--1627282	59	2.0	59	93	6	208	35	20	10	34	1.86
1629996--1630020	13	1.9	13	100	0	50	36	16	16	32	1.90
1629976--1630042	33	2.0	33	88	0	98	32	11	14	40	1.83
1634846--1635082	78	3.0	78	81	6	257	31	13	17	37	1.89
1637131--1637209	20	3.8	20	74	12	70	40	12	7	39	1.72
1645965--1646035	20	3.6	20	79	11	83	30	16	11	40	1.84
1648238--1648581	97	3.5	97	88	0	508	28	29	13	29	1.94
1656061--1656181	52	2.3	52	97	0	224	28	18	18	34	1.94
1656061--1656201	52	2.7	51	90	4	212	30	17	18	33	1.94
1656190--1656214	13	1.9	13	100	0	50	36	16	16	32	1.90
1656279--1656303	13	1.9	13	100	0	50	32	16	16	36	1.90
1656257--1656323	33	2.0	33	88	0	98	40	13	11	34	1.81
1657321--1657388	22	3.1	21	66	26	52	30	17	25	26	1.97
1657434--1658585	101	11.4	100	96	1	1663	32	17	26	23	1.96
1657246--1658585	202	6.7	200	93	3	1846	32	17	26	23	1.97
1657197--1658585	303	4.6	302	92	3	1880	32	17	26	24	1.97
1658590--1658682	33	2.8	33	93	6	163	15	19	36	29	1.92
1658684--1659260	34	15.9	35	70	17	294	34	12	33	19	1.90
1658687--1658877	71	2.7	70	92	3	305	35	12	34	18	1.88
1658800--1658969	87	1.9	88	91	1	279	33	14	32	19	1.91
1658889--1659260	70	5.3	70	83	6	439	33	12	32	20	1.91
1658886--1659260	141	2.7	137	81	7	468	33	12	33	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660224--1660262	1	39.0	1	84	0	51	0	2	5	92	0.46
1660224--1660263	17	2.4	16	91	4	62	0	2	7	90	0.55
1667576--1667628	19	2.7	19	91	8	81	37	11	13	37	1.80
1667524--1667680	71	2.2	72	97	1	298	31	15	16	36	1.90
1667595--1667711	52	2.2	52	96	0	216	29	17	17	35	1.93
1667595--1667731	52	2.6	52	88	4	197	31	16	18	33	1.93
1667720--1667744	13	1.9	13	100	0	50	36	16	16	32	1.90
1667809--1667833	13	1.9	13	100	0	50	32	16	16	36	1.90
1667787--1667853	33	2.0	33	88	0	98	40	13	11	34	1.81
1668209--1668283	20	3.8	20	80	3	80	40	12	13	34	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13