genome.fa.s50.2.7.7.80.10.50.1000.9.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: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Length:  2541760

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

This is table  9  of  16  ( 1865 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)
1430001--1430073	20	3.6	20	81	3	101	36	13	17	31	1.89
1430018--1430094	21	3.7	21	77	6	86	42	11	16	28	1.84
1430001--1430094	41	2.3	41	94	3	163	39	12	18	29	1.88
1430133--1430158	13	2.0	13	100	0	52	38	15	15	30	1.88
1430460--1430502	22	1.9	22	81	13	52	18	16	9	55	1.67
1440546--1441891	61	23.3	58	82	9	1264	27	27	19	26	1.99
1440578--1441890	55	22.9	55	82	10	1231	27	27	19	26	1.99
1440546--1441890	232	5.8	231	85	6	1672	27	27	19	26	1.99
1443884--1445025	61	18.7	59	80	7	1078	25	25	19	29	1.98
1443884--1445028	122	9.4	121	83	4	1288	25	25	19	29	1.98
1443884--1445013	183	6.2	182	84	4	1337	25	25	19	29	1.99
1444993--1445161	86	2.0	85	82	5	207	19	26	11	42	1.85
1445897--1445934	20	1.9	20	94	0	67	34	10	10	44	1.73
1446176--1446233	21	2.8	21	100	0	116	31	10	20	37	1.86
1446176--1446252	21	3.7	20	91	6	102	32	12	18	36	1.89
1446289--1446339	19	2.7	19	96	0	93	31	11	17	39	1.86
1446370--1446427	21	2.8	21	92	2	91	27	17	10	44	1.81
1448819--1448986	51	3.3	51	80	4	187	27	25	13	32	1.94
1448858--1449038	52	3.5	52	76	13	167	29	24	11	34	1.91
1449022--1449103	28	2.9	28	83	7	87	24	30	17	28	1.97
1448645--1449128	262	1.8	263	87	4	728	29	26	12	32	1.92
1452549--1452701	80	1.9	77	82	3	189	29	25	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452682--1453058	79	4.8	78	75	8	334	27	25	13	32	1.94
1452425--1452826	130	3.1	128	83	4	472	29	24	11	34	1.91
1452680--1453058	158	2.4	158	86	3	505	27	25	13	32	1.94
1453673--1453755	19	4.7	19	76	19	90	34	10	18	36	1.85
1453713--1453763	13	3.5	13	76	23	57	33	13	17	35	1.89
1453694--1453763	31	2.2	32	94	2	124	34	11	18	35	1.87
1453840--1453968	52	2.5	52	92	0	213	35	18	18	27	1.94
1458524--1458620	20	4.8	20	88	5	126	35	12	14	38	1.84
1458587--1458719	51	2.6	51	90	2	196	30	17	8	43	1.78
1465977--1466010	12	2.8	12	90	0	50	29	29	0	41	1.57
1467601--1467654	20	2.7	20	83	11	67	35	16	14	33	1.90
1467683--1467737	19	2.9	19	91	0	92	38	16	16	29	1.90
1470602--1470628	13	2.1	13	100	0	54	29	14	14	40	1.86
1470614--1470669	19	2.8	21	81	8	71	35	14	16	33	1.88
1470699--1470751	20	2.7	19	85	5	61	37	11	16	33	1.85
1473040--1473305	133	2.0	133	100	0	532	47	14	16	21	1.82
1476872--1476900	13	2.2	13	100	0	58	27	13	17	41	1.87
1479365--1479420	19	2.8	20	81	8	69	33	12	17	35	1.88
1479465--1479495	13	2.4	13	94	0	53	35	16	12	35	1.87
1479449--1479515	33	2.0	32	88	11	100	35	13	17	32	1.89
1486717--1486943	68	3.3	68	81	2	251	15	14	36	32	1.89
1487482--1487530	14	3.5	14	75	8	55	22	0	4	73	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1487884--1488297	146	2.8	145	84	3	533	39	19	17	23	1.92
1490211--1490593	167	2.3	166	80	3	385	49	10	10	30	1.70
1491574--1491933	42	8.5	42	68	5	179	48	13	20	18	1.81
1491574--1491958	85	4.5	85	80	4	393	47	13	20	18	1.82
1491574--1491958	170	2.3	169	82	6	465	47	13	20	18	1.82
1491616--1491958	85	4.0	84	82	4	395	47	13	20	18	1.82
1492025--1492233	81	2.6	81	83	3	242	43	10	20	25	1.83
1492340--1492468	35	3.7	35	80	1	125	45	12	19	22	1.83
1494860--1494960	21	4.8	21	69	15	73	7	17	0	73	1.13
1494900--1494948	23	2.1	23	85	7	64	8	16	0	75	1.03
1497397--1497958	166	3.4	163	77	8	503	30	11	9	48	1.71
1497502--1497959	166	2.8	165	81	6	521	30	11	10	47	1.73
1503115--1503149	11	3.1	11	91	4	52	88	8	2	0	0.61
1503116--1503156	18	2.3	18	91	0	64	85	9	2	2	0.78
1503488--1503526	9	4.1	10	90	9	64	82	0	17	0	0.68
1503828--1503872	21	2.3	21	85	11	60	77	0	13	8	0.98
1505762--1505861	34	2.9	34	84	0	128	33	22	13	32	1.92
1506289--1506348	21	2.9	21	80	12	79	35	11	13	40	1.81
1509327--1509360	17	2.0	17	88	0	50	64	11	5	17	1.45
1511317--1511381	34	1.9	34	87	0	94	32	21	13	32	1.93
1512523--1512577	22	2.5	22	85	5	76	25	21	10	41	1.86
1514674--1514730	21	2.7	21	82	15	73	52	1	26	19	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516193--1516228	13	2.8	13	91	0	54	33	19	13	33	1.91
1517878--1517926	22	2.2	22	92	0	80	28	22	10	38	1.87
1517900--1518020	63	1.9	63	86	0	170	28	21	11	38	1.88
1519260--1519284	13	1.9	13	100	0	50	36	16	16	32	1.90
1521710--1521756	23	2.0	24	88	12	71	63	17	4	14	1.45
1522527--1522584	21	2.8	21	80	15	66	20	24	3	51	1.62
1525237--1525298	26	2.4	25	76	12	63	19	19	40	20	1.92
1525494--1525737	46	5.3	46	83	6	287	24	13	33	29	1.93
1525562--1525633	20	3.3	20	68	26	56	27	9	34	27	1.88
1525534--1525747	93	2.3	94	89	5	328	24	14	32	28	1.94
1525676--1525820	74	2.0	74	92	0	245	20	16	33	30	1.94
1525862--1525930	35	2.0	35	85	0	93	20	11	34	33	1.89
1526537--1526578	20	2.1	20	100	0	84	14	4	4	76	1.12
1526540--1526590	20	2.5	20	90	3	75	17	3	5	72	1.20
1527106--1527901	42	18.9	42	83	1	777	38	17	29	14	1.90
1534135--1534197	19	3.7	18	70	24	55	41	22	12	23	1.88
1534136--1534197	32	1.9	32	90	0	97	41	22	12	22	1.88
1539827--1539871	21	2.1	21	84	8	56	53	4	20	22	1.63
1543782--1543807	13	2.0	13	100	0	52	30	15	15	38	1.88
1550017--1550042	8	3.2	8	100	0	52	15	0	23	61	1.33
1550245--1550282	13	2.9	13	96	0	67	31	15	18	34	1.92
1552863--1552888	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553774--1553823	19	2.5	21	90	6	77	38	12	16	34	1.85
1556260--1556557	79	3.8	79	80	4	329	27	26	14	31	1.95
1556494--1556609	50	2.3	51	83	10	157	29	30	12	28	1.92
1556620--1556741	51	2.4	51	85	0	172	27	27	14	29	1.95
1556453--1556840	130	3.0	129	76	7	376	27	27	13	31	1.94
1559902--1559946	22	2.0	23	82	4	56	44	2	20	33	1.63
1564081--1564105	13	1.9	13	100	0	50	36	16	16	32	1.90
1564060--1564124	32	2.0	33	87	3	96	30	16	15	36	1.90
1572725--1572775	19	2.6	20	90	3	77	25	17	17	39	1.92
1572843--1572873	13	2.4	13	94	0	53	35	16	12	35	1.87
1572830--1572893	33	1.9	33	90	0	101	39	14	15	31	1.87
1573128--1573167	18	2.2	19	86	4	55	30	17	10	42	1.82
1575044--1575093	26	1.9	26	87	0	73	18	20	42	20	1.90
1579129--1579185	19	2.9	19	89	5	78	35	17	15	31	1.92
1579170--1579196	13	2.1	13	100	0	54	40	14	14	29	1.86
1579151--1579215	32	2.0	32	90	3	103	40	16	16	26	1.90
1584880--1584935	22	2.5	23	97	2	105	62	8	10	17	1.52
1585846--1585920	20	3.8	20	80	3	80	40	12	13	34	1.81
1585843--1585920	40	2.0	39	87	2	111	39	12	12	34	1.82
1586448--1587561	32	34.8	32	96	0	1942	14	18	35	31	1.91
1587544--1588199	27	24.0	27	88	3	965	27	14	34	23	1.93
1587544--1588199	82	8.0	81	89	3	965	27	14	34	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587544--1588199	109	6.0	108	90	3	983	27	14	34	23	1.93
1595706--1595752	21	2.2	21	100	0	94	65	8	8	17	1.44
1596671--1596745	20	3.8	20	80	3	80	40	12	13	34	1.81
1596668--1596745	40	2.0	39	87	2	111	39	12	12	34	1.82
1605347--1605668	129	2.5	125	81	8	355	32	12	25	29	1.93
1605554--1605821	51	5.3	51	81	4	247	32	11	25	30	1.91
1608253--1608295	21	2.0	22	90	4	70	34	11	13	39	1.82
1612889--1613078	94	2.0	94	97	0	362	37	17	21	23	1.94
1617706--1617895	94	2.0	94	97	0	362	37	17	20	24	1.93
1619004--1619083	42	1.9	42	84	5	108	45	17	22	15	1.85

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