genome.fa.s44.2.7.7.80.10.50.1000.9.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: Scaffold44
Parameters: 2 7 7 80 10 50 1000
Length:  3265628

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

This is table  9  of  17  ( 1994 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)
1457157--1457181	13	1.9	13	100	0	50	32	16	16	36	1.90
1457137--1457204	33	2.1	33	91	2	111	35	16	14	33	1.89
1461236--1461276	20	2.0	20	90	0	64	31	12	2	53	1.51
1462327--1462365	13	3.1	12	85	10	51	0	23	2	74	0.94
1463007--1463181	91	1.9	91	80	2	199	48	6	11	34	1.65
1472863--1473425	87	6.5	87	79	9	406	29	26	12	32	1.93
1472905--1473339	175	2.5	172	80	11	433	29	25	12	32	1.93
1475838--1475864	4	6.8	4	100	0	54	77	0	0	22	0.76
1484764--1484827	22	3.1	21	76	14	64	34	4	29	31	1.78
1484770--1484829	19	3.1	19	79	16	61	38	3	30	28	1.73
1485367--1485440	20	3.8	19	80	5	76	32	16	14	36	1.89
1485347--1485439	39	2.3	40	85	8	120	31	19	15	34	1.92
1490462--1490506	23	2.0	22	83	12	56	44	4	0	51	1.21
1491411--1491751	104	3.3	105	83	4	406	45	13	21	19	1.84
1491987--1492064	39	2.0	39	84	0	102	32	25	17	24	1.97
1492026--1492999	49	20.9	49	75	12	714	27	25	17	30	1.97
1492075--1492347	136	2.0	137	83	0	350	27	26	17	28	1.97
1491941--1492714	185	4.2	185	90	1	1194	27	25	17	29	1.98
1492494--1492667	87	2.0	87	89	2	269	25	24	19	29	1.98
1492684--1492841	39	3.8	39	77	18	183	29	24	18	27	1.98
1491941--1492802	370	2.3	371	83	7	1035	27	25	17	29	1.98
1492635--1492890	88	2.9	88	94	1	424	27	25	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492806--1493047	101	2.4	101	79	2	272	26	26	16	31	1.96
1492853--1493047	52	3.8	52	78	6	202	25	25	16	32	1.96
1496317--1496412	32	3.1	31	81	10	115	20	23	14	40	1.90
1496484--1496576	27	3.2	27	77	16	105	19	30	12	37	1.89
1496415--1496594	96	1.9	94	86	6	256	22	30	11	36	1.89
1496388--1496833	129	3.5	128	81	9	548	21	31	11	35	1.89
1496370--1496755	162	2.4	162	81	3	422	21	30	11	36	1.88
1496742--1496797	27	2.1	27	86	6	78	23	28	12	35	1.91
1496706--1496832	60	2.1	61	86	7	179	22	29	12	35	1.91
1496388--1496815	94	4.5	95	77	12	310	21	31	10	35	1.89
1496806--1496913	28	3.7	29	84	12	123	32	26	20	20	1.97
1496918--1497897	49	20.9	48	79	8	918	26	26	17	30	1.97
1496918--1497897	97	10.4	97	78	11	986	26	26	17	30	1.97
1497069--1497320	39	6.0	39	75	13	200	28	25	18	27	1.98
1497144--1497660	185	2.7	186	84	4	660	27	25	16	29	1.97
1497282--1497897	145	4.3	145	85	5	712	26	26	17	30	1.97
1497548--1497620	23	3.0	26	65	21	66	28	27	13	30	1.94
1497626--1497797	88	2.0	88	85	2	238	23	28	19	28	1.98
1497530--1497897	189	2.0	184	81	4	425	25	26	17	29	1.98
1497714--1497991	49	5.6	49	74	8	186	24	25	16	33	1.96
1497710--1497991	101	2.8	100	78	5	248	24	25	17	32	1.96
1500951--1500975	7	3.6	7	100	0	50	0	12	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502409--1502433	13	1.9	13	100	0	50	32	16	16	36	1.90
1502462--1502501	19	2.0	20	86	13	57	25	27	7	40	1.82
1502502--1502577	20	3.7	20	71	13	73	32	13	17	36	1.88
1508125--1508149	13	1.9	13	100	0	50	32	16	16	36	1.90
1508193--1508251	22	2.8	22	78	12	70	30	15	15	38	1.88
1509193--1509509	160	2.0	160	95	0	571	42	12	19	25	1.86
1509454--1509569	44	2.7	43	74	14	119	45	12	18	24	1.83
1509375--1509580	89	2.3	89	83	0	243	43	12	19	24	1.85
1510772--1510798	14	1.9	14	100	0	54	0	11	0	88	0.50
1511874--1511926	19	2.7	21	88	8	76	26	15	16	41	1.88
1519511--1519547	19	1.9	19	100	0	74	35	16	16	32	1.91
1519532--1519557	13	2.0	13	100	0	52	38	15	15	30	1.88
1521930--1521968	21	1.9	21	89	5	62	43	0	23	33	1.54
1526457--1526484	13	2.2	13	100	0	56	39	17	14	28	1.89
1526504--1526540	18	2.1	18	100	0	74	27	16	24	32	1.96
1527860--1527912	19	2.7	20	85	8	72	28	13	18	39	1.88
1527860--1527918	19	3.0	18	80	14	64	25	11	22	40	1.88
1529955--1529997	20	2.1	20	86	4	59	9	30	44	16	1.79
1530439--1530477	13	3.0	13	88	0	60	35	12	17	33	1.88
1530706--1530731	12	2.2	12	100	0	52	57	23	0	19	1.40
1535291--1535363	20	3.6	20	81	3	101	35	13	19	31	1.91
1535309--1535384	21	3.7	21	78	3	91	40	11	17	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535291--1535384	41	2.3	41	96	0	170	38	12	18	30	1.88
1535423--1535447	13	1.9	13	100	0	50	32	16	20	32	1.94
1539510--1539540	15	2.1	15	93	0	53	48	16	22	12	1.80
1541555--1541633	20	3.6	21	72	20	72	27	13	15	43	1.85
1544080--1544152	20	3.6	20	81	3	101	35	13	19	31	1.91
1544098--1544173	21	3.7	21	78	3	91	40	11	17	30	1.85
1544080--1544173	41	2.3	41	96	0	170	38	12	18	30	1.88
1544212--1544237	13	2.0	13	100	0	52	38	15	15	30	1.88
1544980--1545019	12	3.2	12	85	3	53	22	37	2	37	1.68
1546637--1546662	13	2.0	13	100	0	52	30	15	15	38	1.88
1551771--1551823	13	4.5	13	71	26	55	39	16	11	32	1.85
1551771--1551839	33	2.1	33	86	5	95	40	18	11	28	1.86
1554251--1554276	13	2.0	13	100	0	52	30	15	15	38	1.88
1554258--1554317	20	3.0	20	82	4	77	33	13	18	35	1.89
1561336--1561398	19	3.3	18	80	8	72	12	9	0	77	0.98
1561335--1561399	9	7.0	9	72	19	53	13	10	0	75	1.05
1563833--1563874	21	2.0	21	85	0	57	59	2	11	26	1.45
1564763--1564796	13	2.6	13	95	0	59	35	20	14	29	1.93
1564864--1564888	13	1.9	13	100	0	50	32	16	16	36	1.90
1564847--1564910	33	2.0	33	84	3	85	40	15	10	32	1.82
1565597--1565643	23	2.0	23	87	0	67	34	17	4	44	1.68
1566977--1567018	21	2.0	21	95	0	75	40	9	19	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569326--1569460	51	2.6	52	84	5	193	30	27	11	31	1.91
1569444--1569516	27	2.6	28	85	8	96	27	32	17	21	1.96
1569472--1569675	79	2.6	80	93	3	349	25	27	16	29	1.97
1569629--1569701	28	2.6	28	97	0	137	20	30	21	27	1.98
1569659--1569834	79	2.2	80	86	2	248	27	27	14	30	1.95
1569550--1569782	107	2.2	107	85	3	299	25	27	16	30	1.96
1569394--1569834	186	2.4	187	81	4	516	27	27	14	30	1.95
1572657--1572707	20	2.6	20	87	3	68	27	13	15	43	1.85
1575070--1575116	21	2.3	20	78	10	51	42	4	19	34	1.70
1575239--1575277	13	3.0	13	92	0	60	38	15	15	30	1.88
1577344--1577384	15	2.7	15	84	3	55	17	19	17	46	1.85
1581455--1581480	13	2.0	13	100	0	52	30	15	15	38	1.88
1581435--1581498	33	2.0	33	90	3	103	26	14	17	42	1.87
1587083--1587150	19	3.9	18	76	23	83	36	16	11	35	1.85
1587105--1587129	13	1.9	13	100	0	50	32	16	16	36	1.90
1587086--1587148	32	2.0	32	96	0	117	34	17	12	34	1.88
1587188--1587227	21	1.9	21	89	0	62	37	20	10	32	1.85
1587944--1588608	49	13.9	49	86	6	769	30	18	26	24	1.98
1588603--1588724	33	3.8	32	87	4	149	20	17	31	30	1.95
1588728--1589442	34	22.1	33	78	10	394	35	14	29	21	1.92
1588836--1588920	27	3.1	27	87	0	116	38	14	25	21	1.91
1588809--1588988	60	3.0	60	72	20	174	36	13	29	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588820--1588991	95	1.9	92	84	11	239	36	13	30	20	1.91
1589000--1589478	30	14.9	31	80	12	375	33	15	29	22	1.94
1588890--1589413	69	7.9	69	74	13	273	34	14	29	21	1.93
1588890--1589413	265	2.0	264	82	9	649	34	14	29	21	1.93
1588751--1589348	202	3.1	198	76	11	597	35	13	29	20	1.92
1590758--1590803	15	2.9	16	78	21	60	0	0	19	80	0.71
1598085--1598138	19	2.8	19	97	0	99	37	16	11	35	1.84
1598175--1598216	21	2.0	21	90	0	66	35	19	14	30	1.91
1602021--1602737	28	25.1	28	81	8	621	25	16	29	27	1.97
1602021--1602753	55	12.9	55	76	13	399	26	16	29	27	1.97

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