genome.fa.s173.2.7.7.80.10.50.1000.11.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  11  of  16  ( 1814 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)
1403745--1405007	266	4.8	266	94	2	2132	31	16	19	32	1.94
1405467--1405500	17	2.0	17	88	11	52	64	0	0	35	0.94
1407298--1407343	19	2.5	18	79	6	65	28	0	0	71	0.86
1407293--1407361	30	2.4	28	76	16	70	34	0	0	65	0.93
1407315--1407348	16	2.1	16	88	0	50	29	0	0	70	0.87
1407776--1407800	2	12.5	2	100	0	50	48	0	0	52	1.00
1408632--1408694	25	2.4	26	78	17	69	55	0	3	41	1.16
1408647--1408697	22	2.4	22	77	12	61	58	0	1	39	1.09
1408654--1408694	21	2.0	21	85	9	57	58	0	2	39	1.11
1408713--1408765	24	2.2	25	89	3	81	32	0	0	67	0.91
1408716--1408760	13	3.7	12	80	14	56	28	0	0	71	0.87
1408693--1408856	17	9.8	17	67	21	55	38	1	0	59	1.10
1408716--1408760	12	3.6	13	80	19	60	28	0	0	71	0.87
1408755--1408812	13	3.3	20	65	34	60	43	0	0	56	0.99
1408684--1408824	32	5.0	27	71	19	83	40	1	0	58	1.07
1408751--1408829	16	4.9	17	71	25	73	43	0	0	56	0.99
1408744--1408829	32	2.7	32	89	5	120	41	0	0	58	0.98
1408713--1408830	18	6.9	18	67	24	67	38	0	0	61	0.96
1408701--1408845	11	13.9	11	67	20	62	37	1	0	60	1.11
1409815--1409846	2	16.0	2	93	0	55	46	0	0	53	1.00
1410119--1410169	16	3.3	16	72	10	52	47	0	1	50	1.12
1412042--1412215	5	33.6	5	67	19	63	40	0	0	59	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412093--1412214	6	21.5	6	65	24	52	37	0	0	61	1.02
1412052--1412165	41	2.7	39	76	12	102	40	0	0	59	0.97
1414253--1414335	34	2.4	34	100	0	166	42	38	0	19	1.51
1414308--1414360	23	2.4	22	84	6	63	41	33	1	22	1.65
1419078--1419160	34	2.4	34	93	0	139	42	34	0	22	1.54
1421611--1421827	34	6.4	34	85	2	276	25	7	26	40	1.82
1421611--1421827	102	2.1	101	89	1	335	25	7	26	40	1.82
1426090--1426303	34	6.5	34	82	7	253	25	6	26	41	1.80
1426090--1426303	63	3.2	65	80	8	238	25	6	26	41	1.80
1428301--1428339	17	2.2	17	86	13	53	64	5	10	20	1.44
1428961--1429001	20	2.0	20	100	0	82	51	9	9	29	1.67
1430017--1430041	2	12.5	2	100	0	50	48	0	0	52	1.00
1431337--1431385	20	2.5	20	77	9	55	51	0	6	42	1.27
1432388--1432460	27	2.7	27	82	0	83	49	15	9	26	1.74
1438434--1438506	16	4.3	16	71	23	60	41	0	0	58	0.98
1438429--1438508	31	2.5	32	76	13	83	41	0	0	58	0.98
1440209--1440241	13	2.5	13	95	0	57	42	6	42	9	1.61
1440321--1440397	27	2.9	27	84	0	100	46	22	5	25	1.72
1444774--1444806	13	2.5	13	95	0	57	42	6	42	9	1.61
1444891--1444958	27	2.5	27	85	0	91	48	17	5	27	1.70
1446579--1446626	12	4.2	12	81	7	64	2	22	16	58	1.49
1446662--1446704	11	3.8	11	79	14	52	32	4	0	62	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446917--1446980	16	4.0	16	74	13	60	43	0	0	56	0.99
1446916--1446988	31	2.3	32	85	4	103	42	0	0	57	0.98
1446916--1446963	15	3.1	15	75	16	53	41	0	0	58	0.98
1447706--1447751	18	2.5	17	83	13	56	21	4	4	69	1.24
1451963--1452038	26	3.0	26	71	9	66	47	21	5	26	1.71
1453557--1453608	21	2.5	21	100	0	104	21	25	11	42	1.86
1453970--1454015	21	2.1	22	84	4	58	19	30	19	30	1.97
1456578--1456641	28	2.3	28	91	5	103	53	20	7	18	1.69
1456588--1456642	28	2.0	28	100	0	110	49	21	10	18	1.78
1457815--1457851	18	2.0	20	84	10	51	43	0	2	54	1.14
1458116--1458154	17	2.4	16	86	4	51	66	0	2	30	1.05
1458572--1458609	20	1.9	20	88	0	58	71	2	0	26	1.00
1458569--1458606	15	2.4	16	86	4	51	73	2	0	23	0.95
1458625--1458675	18	3.1	18	71	28	58	52	3	0	43	1.19
1459010--1459059	24	2.1	24	81	7	57	16	22	12	50	1.77
1460893--1460954	31	2.0	32	87	3	90	29	11	9	50	1.70
1461887--1461918	10	3.2	10	95	0	55	81	6	0	12	0.87
1463480--1463881	165	2.4	165	89	4	596	41	5	6	46	1.53
1463815--1463877	32	1.9	34	87	6	94	49	0	3	47	1.17
1463952--1464206	130	2.0	130	87	5	374	38	7	1	52	1.40
1465818--1465871	25	2.3	23	87	12	83	44	11	0	44	1.39
1466772--1466818	10	4.7	10	76	7	51	76	0	4	19	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1466772--1466818	20	2.3	20	82	7	60	76	0	4	19	0.95
1467570--1467704	28	4.8	27	72	21	98	39	0	0	60	1.02
1467613--1467697	31	2.7	32	80	8	95	43	0	0	56	0.99
1467570--1467704	11	12.9	11	67	22	69	39	0	0	60	1.02
1468440--1468482	7	6.3	7	81	13	54	32	0	0	67	0.91
1468440--1468486	19	2.4	19	89	3	67	31	0	0	68	0.90
1468800--1468892	31	2.9	31	81	15	84	47	1	0	51	1.07
1469451--1469487	15	2.2	18	86	13	53	37	0	0	62	0.96
1469513--1469572	27	2.1	30	87	9	90	38	0	3	58	1.15
1469536--1470316	260	3.0	260	95	0	1384	41	6	7	44	1.59
1470393--1470433	20	2.0	20	85	9	55	78	0	0	21	0.76
1471058--1471219	82	2.0	82	88	2	245	30	16	20	31	1.95
1472331--1472355	3	8.3	3	100	0	50	32	0	0	68	0.90
1475676--1475764	47	2.0	45	81	14	105	57	3	2	37	1.28
1477618--1477652	2	17.5	2	100	0	70	51	0	0	48	1.00
1478701--1478760	16	3.8	16	80	2	68	31	1	11	55	1.46
1484727--1484763	17	2.2	16	90	4	56	64	0	0	35	0.94
1486992--1487071	32	2.5	32	80	11	92	36	12	7	43	1.71
1487023--1487064	16	2.6	16	78	14	59	38	11	4	45	1.62
1489806--1489838	2	17.0	2	87	6	50	51	3	0	45	1.16
1490237--1490281	2	23.0	2	90	4	65	48	4	0	46	1.22
1490775--1490813	11	3.5	11	79	6	51	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1490838--1490915	37	2.1	37	80	4	86	61	3	0	34	1.14
1491064--1491097	6	5.7	6	85	0	50	5	14	8	70	1.31
1491064--1491097	12	2.8	12	100	0	68	5	14	8	70	1.31
1491140--1491211	22	3.4	22	71	21	80	48	2	1	47	1.25
1491145--1491229	42	2.0	42	90	4	136	48	3	2	45	1.32
1491140--1491219	20	3.8	20	74	21	74	47	3	1	47	1.28
1492301--1492334	17	2.0	17	94	0	59	29	8	0	61	1.26
1496447--1496484	2	19.0	2	100	0	76	50	0	0	50	1.00
1497065--1497107	20	2.2	20	100	0	86	27	20	18	32	1.96
1497656--1497780	38	3.3	38	82	4	110	26	26	16	31	1.96
1497671--1497824	38	3.9	38	82	10	159	25	27	16	29	1.97
1497745--1497831	45	1.9	45	92	0	147	25	31	17	26	1.97
1501903--1502049	38	3.9	38	85	0	186	27	23	15	33	1.95
1501914--1502056	76	1.9	76	86	0	205	27	22	14	34	1.93
1505985--1506060	32	2.4	33	80	10	88	31	5	7	55	1.51
1506678--1506712	17	2.1	17	100	0	70	34	22	5	37	1.78
1507637--1507671	17	2.1	17	94	0	61	34	20	5	40	1.76
1505645--1508410	959	2.9	954	89	4	4106	38	10	8	42	1.70
1507934--1508010	32	2.4	33	82	6	95	31	9	9	50	1.65
1508447--1508476	15	2.0	15	100	0	60	20	26	46	6	1.75
1509390--1509445	22	2.5	24	80	16	75	42	0	0	57	0.99
1509403--1509451	26	1.9	25	83	4	62	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510041--1510082	22	1.9	22	85	0	57	57	4	7	30	1.47
1510502--1510535	6	5.7	6	92	0	50	2	14	8	73	1.19
1510502--1510539	12	3.2	12	92	0	58	5	15	7	71	1.28
1510589--1510661	22	3.4	22	71	21	82	49	2	1	46	1.24
1510595--1510679	42	2.0	42	93	0	143	48	4	2	44	1.36
1511512--1511582	27	2.6	29	85	12	96	36	0	0	63	0.95
1511512--1511582	28	2.6	27	85	12	92	36	0	0	63	0.95
1511524--1511595	15	4.9	15	83	16	80	37	0	0	62	0.95
1513468--1513547	27	2.9	27	79	1	97	46	21	8	23	1.79
1523263--1523340	20	3.9	19	78	6	75	42	14	10	33	1.79

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