genome.fa.s3360.2.7.7.80.10.50.1000.4.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: scaffold76
Parameters: 2 7 7 80 10 50 1000
Length:  1973630

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 564 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)
1330595--1330671	26	2.9	26	80	5	93	15	14	40	29	1.87
1333729--1333768	18	2.2	19	90	4	64	20	20	0	60	1.37
1346891--1346986	27	3.6	26	81	5	102	41	19	19	18	1.90
1346985--1347052	27	2.5	27	85	4	84	51	16	20	11	1.75
1347030--1347120	43	2.1	43	83	4	112	40	17	17	24	1.90
1347166--1347262	24	4.0	24	83	2	106	26	7	21	44	1.78
1347448--1347602	32	4.9	32	80	9	174	21	18	20	40	1.92
1347445--1347602	63	2.5	64	86	3	221	21	18	20	39	1.92
1347609--1347658	22	2.3	22	78	0	55	20	14	20	46	1.84
1347833--1347920	46	1.9	46	86	4	124	22	21	18	37	1.94
1369010--1369062	20	2.7	20	81	0	70	13	24	15	47	1.81
1376103--1376215	43	2.7	42	83	9	133	26	18	26	28	1.98
1382119--1382173	25	2.2	25	78	12	60	20	27	21	30	1.98
1386169--1386224	5	11.8	5	87	9	82	41	1	16	41	1.58
1386536--1386601	29	2.2	30	78	2	71	42	3	7	46	1.47
1387640--1387679	11	3.6	11	79	0	53	20	15	7	57	1.61
1387717--1387780	29	2.2	30	85	2	85	25	1	12	60	1.40
1396022--1396068	7	6.6	7	83	9	51	14	0	38	46	1.45
1403391--1403425	17	2.1	17	88	0	52	54	0	8	37	1.31
1403554--1403592	3	13.0	3	88	0	51	61	2	5	30	1.31
1403575--1403634	21	2.9	20	74	16	59	65	6	1	26	1.27
1403909--1403955	23	2.0	24	87	4	69	38	17	6	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403947--1403972	12	2.2	12	100	0	52	42	15	7	34	1.75
1406658--1406755	32	3.0	33	86	7	130	40	10	10	38	1.73
1408852--1408980	49	2.6	49	75	8	120	24	25	19	30	1.98
1408942--1409040	50	2.0	50	87	0	144	19	26	26	28	1.99
1409432--1409487	29	1.9	29	85	0	76	28	26	5	39	1.78
1411766--1411812	13	3.8	12	78	10	51	63	0	2	34	1.06
1411766--1411815	12	4.0	13	76	7	59	64	0	2	34	1.05
1412324--1412348	13	1.9	13	100	0	50	44	0	8	48	1.32
1413789--1413830	21	2.0	21	100	0	84	42	19	23	14	1.87
1420239--1420270	14	2.3	14	94	0	55	31	9	28	31	1.88
1426872--1427041	50	3.4	48	79	7	135	30	22	26	21	1.99
1427339--1429639	472	4.9	472	92	1	3659	32	12	19	35	1.89
1427339--1429639	943	2.4	943	91	1	3688	32	12	19	35	1.89
1433802--1433858	13	4.4	13	80	8	53	26	3	15	54	1.57
1435096--1435159	25	2.6	23	76	13	65	21	14	15	48	1.80
1441492--1441616	41	3.0	43	78	11	132	27	26	16	29	1.97
1441751--1442171	92	4.6	92	85	2	526	43	16	8	31	1.78
1441751--1442171	123	3.4	122	88	2	560	43	16	8	31	1.78
1441751--1442171	31	13.7	31	87	2	537	43	16	8	31	1.78
1443190--1443216	4	6.8	4	100	0	54	25	0	0	74	0.83
1448890--1448958	26	2.7	26	95	0	120	15	17	24	42	1.88
1453156--1453183	10	2.8	10	100	0	56	60	7	0	32	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459870--1459993	62	2.0	62	88	0	185	35	13	21	29	1.92
1461407--1461445	15	2.7	15	84	4	53	17	5	28	48	1.68
1465095--1465182	43	2.0	45	95	4	162	42	6	11	39	1.68
1477193--1478385	593	2.0	594	98	0	2325	44	3	20	31	1.69
1478602--1478697	40	2.4	39	81	8	106	30	8	19	41	1.81
1478626--1478709	40	2.1	41	86	2	116	29	8	19	42	1.80
1478917--1479021	45	2.3	44	87	4	147	23	14	16	45	1.84
1478997--1479046	18	2.7	18	84	3	64	24	16	12	48	1.79
1478997--1479046	12	4.1	13	75	12	52	24	16	12	48	1.79
1481774--1481850	22	3.2	22	67	22	64	54	2	7	35	1.43
1485030--1485271	50	4.7	50	79	6	211	24	28	20	26	1.99
1497226--1497284	25	2.4	25	79	0	64	33	15	23	27	1.95
1505165--1505461	27	11.1	28	77	10	219	22	15	20	40	1.90
1505188--1505461	54	5.1	54	81	4	295	23	15	19	41	1.90
1505182--1505461	80	3.5	79	80	3	319	23	15	19	41	1.89
1506626--1506679	25	2.2	25	83	6	65	20	44	11	24	1.83
1511634--1511688	26	2.1	26	89	0	83	38	23	18	20	1.93
1513204--1513435	41	5.7	41	86	0	329	28	18	28	24	1.98
1513187--1513442	82	3.1	82	95	0	449	28	18	28	24	1.98
1515447--1515574	48	2.7	48	80	0	148	42	8	29	18	1.80
1527198--1527237	20	2.0	20	85	9	55	32	22	32	12	1.91
1527231--1527296	20	3.3	20	71	0	60	40	16	30	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538736--1538850	19	5.7	21	80	8	71	40	16	6	37	1.73
1538772--1538863	19	4.8	19	89	0	148	36	16	9	36	1.82
1538765--1538863	38	2.7	38	92	3	166	36	17	9	37	1.81
1538965--1538995	14	2.2	14	94	0	53	12	0	9	77	0.99
1539993--1540033	19	2.2	19	86	0	55	0	21	0	78	0.76
1540001--1540044	12	3.6	12	85	14	63	0	18	0	81	0.68
1540001--1540044	18	2.4	19	92	3	72	0	18	0	81	0.68
1540012--1540051	18	2.2	18	90	0	62	0	20	0	80	0.72
1539992--1540053	24	2.6	23	82	5	79	0	25	0	74	0.82
1544962--1545039	19	3.8	20	81	11	88	38	19	7	34	1.80
1544950--1545023	19	3.5	22	80	10	66	43	16	5	35	1.71
1544986--1545039	19	2.8	19	91	0	90	37	18	9	35	1.83
1544963--1545039	38	1.9	41	87	10	115	38	18	7	35	1.79
1546305--1546346	16	2.6	16	88	0	57	45	7	21	26	1.77
1546586--1546655	34	2.0	35	97	2	133	58	8	5	27	1.50
1546597--1546651	17	3.2	17	71	19	60	60	9	3	27	1.44
1548336--1548367	15	2.1	15	100	0	64	43	6	12	37	1.68
1560372--1560401	15	2.0	15	100	0	60	53	13	0	33	1.40
1564578--1564608	10	3.1	10	95	0	53	38	6	19	35	1.77
1564803--1564840	1	38.0	1	100	0	76	100	0	0	0	0.00
1572737--1572770	16	2.1	16	94	0	59	29	8	14	47	1.75
1574434--1574590	82	1.9	82	92	0	260	42	21	12	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576470--1576498	5	5.8	5	100	0	58	0	0	17	82	0.66
1585851--1585958	24	4.6	24	86	6	150	47	2	29	20	1.64
1588407--1588587	91	2.0	92	90	2	283	32	27	16	24	1.96
1594728--1594774	18	2.4	19	82	13	60	23	36	4	36	1.75
1607695--1607799	40	2.6	41	79	4	108	40	19	18	22	1.92
1607860--1608210	41	8.6	41	89	0	513	17	19	29	33	1.95
1613840--1614132	43	6.8	43	79	2	302	21	18	30	29	1.97
1613822--1614081	86	3.0	86	90	1	371	22	18	29	30	1.97
1615287--1615338	19	2.8	19	75	11	54	69	5	0	25	1.10
1615274--1615330	29	1.9	30	85	3	80	68	5	0	26	1.11
1615305--1615378	30	2.6	28	83	10	96	68	5	0	25	1.10
1615561--1615618	19	2.8	22	73	21	63	29	8	1	60	1.36
1618165--1618868	140	5.0	140	88	3	909	39	8	6	45	1.61
1618165--1618873	278	2.5	277	87	5	937	39	8	6	45	1.60
1618646--1618868	67	3.1	67	62	26	148	38	8	7	46	1.62
1618596--1618895	150	2.0	150	100	0	600	36	8	8	46	1.64
1618939--1618971	17	1.9	17	88	11	50	54	9	0	36	1.32
1623533--1623577	18	2.5	18	82	7	56	37	4	17	40	1.70
1626189--1626252	27	2.4	27	86	2	85	29	10	17	42	1.83
1627946--1627994	23	2.1	23	96	0	89	48	8	10	32	1.66
1629898--1629945	24	2.0	24	100	0	96	37	12	29	20	1.90
1631610--1631685	33	2.3	33	90	0	116	27	23	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1643006--1643147	41	3.5	41	87	1	196	33	19	16	30	1.95
1643006--1643166	41	3.9	40	81	3	146	33	20	17	28	1.95
1646809--1646833	13	1.9	13	100	0	50	40	24	4	32	1.73
1648723--1648771	24	2.0	24	84	0	62	24	18	18	38	1.93
1648747--1649014	43	6.2	43	91	3	373	30	26	16	25	1.97
1653480--1653527	21	2.3	21	88	0	69	47	10	27	14	1.76
1655331--1655378	15	3.3	15	77	16	55	43	35	0	20	1.52
1655395--1655427	14	2.4	14	94	0	57	48	33	0	18	1.48
1655546--1655615	7	10.0	7	78	6	63	54	30	1	14	1.49
1655627--1655666	17	2.4	17	86	0	62	32	22	22	22	1.98

Tables:   1   2   3   4   5