genome.fa.s41.2.7.7.80.10.50.1000.13.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: Scaffold41
Parameters: 2 7 7 80 10 50 1000
Length:  2798036

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  13  of  21  ( 2447 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)
1393745--1393814	33	2.1	33	89	0	104	34	11	14	40	1.82
1393855--1393879	13	1.9	13	100	0	50	32	16	16	36	1.90
1393888--1394008	52	2.3	52	97	0	224	34	18	18	28	1.94
1402266--1402410	31	4.7	31	85	10	190	24	30	19	25	1.98
1402352--1402515	33	4.9	33	78	14	138	20	30	14	34	1.92
1402439--1402603	87	1.9	88	93	1	287	20	33	13	32	1.92
1402544--1403202	34	20.0	33	80	13	675	21	35	13	30	1.91
1402548--1403202	63	10.0	64	82	11	612	21	35	13	30	1.91
1402542--1403179	288	2.2	292	89	5	975	21	35	12	30	1.91
1403165--1403305	65	2.2	64	93	6	250	28	36	17	17	1.92
1403165--1403305	33	4.4	32	89	8	218	28	36	17	17	1.92
1402542--1403277	288	2.5	281	83	8	809	22	35	13	29	1.92
1403303--1403882	49	11.6	49	74	11	412	26	26	17	30	1.97
1403404--1403472	22	3.2	22	61	19	54	28	21	18	30	1.97
1403524--1403742	115	1.9	116	84	0	296	25	26	17	31	1.97
1403640--1403882	48	5.1	48	85	7	334	25	26	17	30	1.97
1403698--1403890	43	4.2	43	78	14	188	26	25	16	31	1.97
1403792--1403951	52	3.0	53	77	7	169	26	23	13	35	1.93
1403698--1403890	95	2.1	91	90	3	296	26	25	16	31	1.97
1403792--1403946	56	2.9	54	81	3	179	26	23	14	36	1.93
1404822--1404846	13	1.9	13	100	0	50	36	16	16	32	1.90
1404802--1404871	33	2.1	33	89	0	104	34	11	14	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404911--1404935	13	1.9	13	100	0	50	32	16	16	36	1.90
1404944--1405064	52	2.3	52	97	0	224	34	18	18	28	1.94
1410346--1410378	17	1.9	17	93	0	57	57	0	30	12	1.35
1411954--1412389	57	7.7	57	79	3	396	32	14	20	32	1.93
1411982--1412394	169	2.4	171	81	4	505	32	15	20	32	1.93
1411953--1412374	226	1.9	227	83	3	555	32	14	20	32	1.93
1422971--1423017	21	2.2	22	88	3	69	0	44	0	55	0.99
1423258--1423308	6	8.5	6	95	0	75	17	29	15	37	1.91
1435674--1435700	13	2.1	13	100	0	54	18	14	22	44	1.86
1436016--1436063	16	3.0	16	81	0	51	54	12	8	25	1.65
1436978--1437009	2	16.0	2	100	0	64	50	0	0	50	1.00
1437556--1437722	8	21.1	8	66	20	59	58	0	0	41	1.03
1437546--1437601	12	4.6	12	80	12	69	62	0	0	37	0.95
1437627--1437703	18	4.7	18	70	15	60	54	0	1	44	1.08
1437591--1437721	14	8.7	16	67	21	61	56	0	0	42	1.04
1437682--1437729	19	2.7	18	81	18	57	64	0	0	35	0.94
1437662--1437729	20	3.2	22	74	17	56	61	0	0	38	0.96
1438990--1439017	2	14.0	2	100	0	56	50	0	0	50	1.00
1440898--1440955	16	3.7	16	73	17	59	62	0	0	37	0.96
1440903--1441003	5	20.0	5	71	17	75	56	0	0	43	0.99
1440898--1440977	27	2.9	27	82	12	92	58	0	0	41	0.98
1440910--1441003	22	4.5	22	73	12	74	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1440869--1440957	32	2.7	35	81	15	91	62	2	0	34	1.07
1440910--1441003	27	3.4	28	81	11	97	56	0	0	43	0.99
1443022--1443081	9	7.0	9	73	17	56	40	0	0	60	0.97
1443037--1443081	19	2.5	17	82	7	54	37	0	0	62	0.96
1443023--1443088	15	4.6	15	72	11	57	37	0	0	62	0.96
1443027--1443109	42	2.0	42	83	4	105	44	0	0	55	0.99
1443086--1443131	10	4.0	12	78	16	53	65	0	0	34	0.93
1443713--1443768	20	3.0	19	85	10	71	60	0	1	37	1.07
1444164--1444215	17	3.1	17	81	8	70	34	3	1	59	1.27
1444183--1444234	22	2.4	21	84	9	61	32	1	1	63	1.16
1444633--1444666	16	2.2	16	89	5	52	58	0	0	41	0.98
1444614--1444705	44	2.0	44	87	8	130	46	7	2	43	1.44
1445331--1445401	30	2.4	31	82	15	87	45	0	1	53	1.09
1445407--1445449	19	2.2	20	83	4	52	32	2	0	65	1.06
1445422--1445460	18	2.2	17	86	4	51	30	2	0	66	1.05
1445454--1445494	21	2.0	21	85	0	55	29	2	2	65	1.18
1446521--1446571	21	2.3	23	83	6	61	58	0	0	41	0.98
1447895--1447928	16	2.1	17	88	5	52	41	0	0	58	0.98
1448135--1448181	20	2.3	21	88	3	78	46	4	6	42	1.48
1448356--1448395	20	2.0	20	85	9	55	50	2	0	47	1.14
1448479--1448524	23	1.9	25	86	8	69	32	4	0	63	1.14
1449388--1449431	15	3.0	14	83	6	52	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450637--1450695	27	2.2	27	100	0	118	54	3	10	32	1.51
1451388--1451433	17	2.8	16	83	6	56	54	4	6	34	1.46
1451374--1451426	17	3.1	17	75	8	54	58	3	5	32	1.39
1452960--1453016	19	3.0	19	71	7	53	43	1	7	47	1.40
1453317--1453346	2	15.5	2	93	6	53	50	0	0	50	1.00
1456062--1456112	19	2.7	19	76	11	59	56	1	1	39	1.22
1456062--1456173	36	3.1	36	83	7	120	51	3	2	41	1.33
1456263--1456315	17	2.8	18	78	16	63	39	0	0	60	0.97
1457230--1457257	2	14.0	2	100	0	56	50	0	0	50	1.00
1460695--1460747	25	2.1	26	86	10	74	37	0	1	60	1.08
1460906--1460930	6	4.2	6	100	0	50	48	0	0	52	1.00
1471585--1471659	32	2.4	29	79	14	80	57	0	0	42	0.98
1474697--1474745	2	24.5	2	100	0	98	51	0	0	48	1.00
1475919--1475950	13	2.3	15	89	10	50	34	0	0	65	0.93
1476235--1476273	18	2.2	18	85	0	51	69	0	28	2	1.02
1476890--1476981	45	2.0	45	89	0	139	25	10	19	44	1.83
1477126--1477156	15	2.1	15	100	0	62	25	0	12	61	1.32
1479798--1479975	75	2.4	75	81	3	198	43	21	14	20	1.87
1484724--1484766	20	2.2	20	83	8	52	51	11	6	30	1.65
1486887--1486921	17	2.1	17	94	0	61	77	2	11	8	1.10
1486893--1486931	17	2.2	16	86	13	51	79	5	7	7	1.05
1489760--1489787	13	2.2	13	100	0	56	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1490996--1491033	20	1.9	20	88	0	58	68	0	0	31	0.90
1491875--1491901	2	13.5	2	100	0	54	48	0	0	51	1.00
1492673--1492699	13	2.1	13	100	0	54	29	14	14	40	1.86
1492685--1492722	20	1.9	20	100	0	76	39	13	15	31	1.86
1492768--1492792	13	1.9	13	100	0	50	32	8	16	44	1.76
1492749--1492817	33	2.1	33	86	5	95	31	11	17	39	1.85
1496891--1496952	24	2.6	25	85	12	69	38	4	11	45	1.61
1496904--1496952	24	2.0	24	92	7	82	40	4	14	40	1.64
1497520--1497551	11	2.9	11	95	0	55	65	0	12	21	1.25
1499681--1499752	28	2.6	29	82	6	85	12	19	8	59	1.58
1503149--1503196	20	2.3	20	86	10	62	41	12	18	27	1.86
1509535--1509568	16	2.0	16	88	11	50	70	8	17	2	1.25
1510122--1510152	8	3.8	8	95	4	53	12	0	0	87	0.55
1511966--1512047	29	2.8	28	81	7	92	62	4	1	31	1.24
1518867--1518970	32	3.2	32	84	1	136	16	12	26	44	1.83
1518877--1518961	16	5.3	16	78	0	98	16	15	25	42	1.87
1520150--1520772	152	4.1	152	77	5	562	38	18	19	24	1.93
1520877--1521255	156	2.6	144	79	10	376	41	19	12	26	1.87
1520998--1521393	156	2.6	154	84	7	484	42	19	13	24	1.87
1523135--1523481	165	2.1	161	79	12	352	51	6	10	32	1.60
1524503--1525275	85	9.1	83	74	8	522	47	13	20	17	1.81
1524503--1525275	170	4.6	170	79	7	730	47	13	20	17	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524503--1525275	255	3.0	252	76	6	625	47	13	20	17	1.81
1525135--1525377	128	1.9	128	83	1	317	48	14	20	16	1.80
1525260--1526170	85	10.8	85	78	3	777	48	15	19	16	1.81
1525135--1526167	43	24.4	42	66	14	228	48	15	19	16	1.81
1525260--1526172	255	3.6	250	80	6	912	48	15	19	16	1.82
1526411--1526450	11	2.9	15	72	27	52	17	20	0	62	1.33
1526686--1527020	92	3.6	92	78	2	287	34	11	25	28	1.91
1526961--1527163	78	2.6	78	86	0	262	30	12	25	32	1.92
1527183--1527356	91	1.9	91	86	6	246	31	13	26	29	1.94
1527965--1528106	73	1.9	73	88	2	214	40	16	19	23	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21