genome.fa.s163.2.7.7.80.10.50.1000.11.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: Scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1788591

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

This is table  11  of  13  ( 1505 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)
1333534--1333569	18	2.0	18	88	0	54	27	0	0	72	0.85
1335086--1335139	22	2.5	22	96	3	101	18	11	9	61	1.55
1340117--1340164	22	2.1	22	84	3	60	35	2	0	62	1.07
1340001--1340740	131	5.6	130	89	4	1088	40	2	2	54	1.27
1340095--1340207	53	2.1	55	81	6	133	38	2	1	57	1.23
1340262--1340297	15	2.4	15	90	0	54	22	0	0	77	0.76
1340007--1340740	397	1.8	397	90	3	1192	40	2	2	54	1.27
1340001--1340740	265	2.8	263	88	5	1132	40	2	2	54	1.27
1352279--1352358	20	4.0	20	78	1	88	32	12	11	43	1.78
1364796--1364857	9	6.7	9	78	15	56	85	8	3	3	0.81
1364794--1364845	14	3.8	14	85	10	63	88	7	1	1	0.66
1364797--1364857	23	2.6	22	84	7	77	85	8	3	3	0.82
1364794--1364847	1	54.0	1	77	0	54	88	7	1	1	0.64
1366067--1367691	28	57.0	28	85	3	1858	27	31	18	22	1.97
1366075--1367645	483	3.3	479	90	2	2296	27	31	18	22	1.97
1368252--1368331	20	4.0	20	78	1	97	32	13	11	42	1.80
1371754--1371806	20	2.8	19	78	13	56	49	0	0	50	1.00
1372394--1372430	19	1.9	19	88	0	56	45	0	2	51	1.15
1372633--1372671	16	2.4	16	86	4	51	46	5	7	41	1.55
1373438--1373515	20	3.7	21	68	21	65	44	1	0	53	1.08
1375554--1375613	29	2.0	30	83	3	77	60	1	1	36	1.17
1377846--1377886	21	2.0	20	85	4	55	39	0	2	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384081--1384190	23	4.9	23	66	27	58	58	0	1	39	1.15
1384124--1384188	6	10.3	6	75	15	60	63	0	1	35	1.04
1384124--1384188	13	5.2	12	78	12	60	63	0	1	35	1.04
1384146--1384187	15	3.1	14	86	10	52	66	0	0	33	0.92
1384112--1384195	34	2.4	35	77	18	86	59	0	2	38	1.10
1384218--1384265	11	4.3	11	77	12	53	64	0	0	35	0.94
1390597--1390967	42	9.3	42	83	10	458	31	18	24	25	1.97
1390738--1390880	33	4.1	33	76	14	151	34	18	21	24	1.96
1390618--1390964	192	1.8	192	89	2	554	31	17	24	25	1.97
1396978--1397024	21	2.3	21	81	3	51	46	0	0	53	1.00
1398289--1398400	11	10.4	11	69	21	60	64	0	0	35	0.94
1398295--1398410	26	4.0	29	68	25	86	61	0	0	38	0.96
1398305--1398402	33	2.9	33	80	16	105	63	0	0	36	0.95
1398305--1398406	18	5.9	18	69	22	76	62	0	0	37	0.95
1398268--1398405	53	2.5	55	75	14	144	60	0	0	37	1.07
1398797--1398868	25	2.9	24	76	11	74	51	2	2	43	1.30
1398790--1398841	20	2.6	18	77	19	50	51	0	1	46	1.12
1400413--1400452	7	5.6	7	88	5	62	85	2	0	12	0.71
1400413--1400452	15	2.7	16	88	11	59	85	2	0	12	0.71
1401004--1401034	13	2.3	13	94	5	53	58	0	0	41	0.98
1401086--1401162	40	1.9	39	82	7	93	50	1	3	44	1.28
1401252--1401324	17	4.4	17	71	11	62	36	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401704--1401756	22	2.4	22	90	6	81	71	0	0	28	0.86
1401707--1401796	29	3.0	29	75	14	85	64	0	0	35	0.94
1401710--1401744	11	3.2	11	84	15	54	68	0	0	31	0.90
1401708--1401755	7	6.9	7	80	15	55	70	0	0	29	0.87
1401767--1401816	16	3.1	17	72	21	61	54	0	0	46	1.00
1401746--1401817	32	2.2	33	90	2	119	56	0	0	43	0.99
1402061--1402115	11	4.8	11	79	16	58	63	1	0	34	1.05
1402077--1402120	19	2.4	19	84	3	54	63	0	0	36	0.95
1402111--1402281	82	2.1	82	85	5	238	47	9	1	40	1.46
1402249--1402302	19	2.8	20	75	16	60	40	3	0	55	1.17
1404975--1405110	35	3.9	35	89	4	213	45	5	27	21	1.73
1404973--1405120	70	2.1	70	96	1	271	44	4	29	20	1.72
1406330--1406836	79	6.4	79	92	0	836	26	26	14	32	1.95
1406771--1406914	51	2.8	51	78	7	159	27	22	12	38	1.90
1410859--1410912	13	4.5	13	73	21	55	37	16	11	35	1.84
1410957--1411016	20	3.0	20	78	7	77	35	16	15	33	1.90
1410957--1411012	19	2.8	20	86	2	78	35	16	16	32	1.90
1410997--1411023	13	2.1	13	100	0	54	40	14	14	29	1.86
1417927--1418096	52	3.3	52	75	4	148	30	14	17	38	1.89
1427400--1427489	44	2.0	44	93	0	153	23	17	7	51	1.71
1442401--1442432	16	2.0	17	88	11	50	71	0	12	15	1.14
1442637--1442695	30	2.2	26	82	14	66	64	6	8	20	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1444364--1444406	22	2.0	20	86	8	59	39	4	0	55	1.20
1444807--1444860	20	2.7	21	75	21	62	51	0	0	48	1.00
1445182--1445219	3	12.7	3	100	0	76	68	0	0	31	0.90
1445991--1446035	16	2.6	17	83	10	56	28	8	2	60	1.39
1446415--1446439	12	2.1	12	100	0	50	52	0	0	48	1.00
1446464--1446522	14	4.3	14	70	12	50	42	0	0	57	0.98
1446475--1446529	27	2.0	29	86	10	80	36	0	0	63	0.95
1447130--1447222	38	2.5	37	74	16	93	40	2	2	54	1.24
1447511--1447553	18	2.4	19	81	14	56	16	4	0	79	0.90
1448135--1448179	19	2.4	19	88	0	72	75	2	0	22	0.91
1448648--1448677	16	1.9	15	93	6	51	30	3	0	66	1.07
1448989--1449014	9	2.9	9	100	0	52	76	0	0	23	0.78
1450021--1450059	20	1.9	21	89	5	62	20	10	7	61	1.52
1450086--1450118	14	2.5	14	90	9	52	30	0	0	69	0.88
1451069--1451222	58	2.7	58	76	4	150	47	13	9	29	1.75
1453844--1453932	25	3.2	25	69	22	79	32	7	7	51	1.60
1454488--1454529	21	2.0	21	90	9	68	38	4	28	28	1.77
1454612--1454647	17	2.1	17	100	0	72	30	11	25	33	1.90
1455396--1455447	20	2.6	20	90	0	77	34	9	17	38	1.82
1456466--1456549	23	3.9	23	66	21	65	44	0	0	55	0.99
1456506--1456537	9	3.7	9	91	8	57	31	0	0	68	0.90
1456466--1456554	16	5.6	16	74	12	67	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459021--1459050	15	1.9	16	93	6	53	53	13	13	20	1.72
1463027--1463054	13	2.2	13	100	0	56	28	28	14	28	1.95
1464402--1464427	13	2.0	13	100	0	52	30	15	15	38	1.88
1464382--1464445	32	2.0	33	90	3	103	28	14	15	42	1.86
1471295--1471348	20	2.7	20	88	5	74	37	16	12	33	1.87
1471376--1471433	19	3.1	18	85	11	80	32	15	15	36	1.89
1474630--1474663	11	3.1	11	91	8	52	29	0	0	70	0.87
1474633--1474705	16	4.6	16	72	5	58	38	0	0	61	0.96
1474641--1474708	27	2.6	27	79	9	68	38	0	0	61	0.96
1477752--1477816	31	2.1	29	83	13	76	43	3	0	53	1.16
1479174--1479214	17	2.4	16	84	11	55	70	0	0	29	0.87
1480167--1480200	15	2.3	15	90	10	52	44	0	0	55	0.99
1480190--1480233	19	2.5	17	78	10	52	45	0	0	54	0.99
1481824--1481892	24	2.8	24	77	4	66	23	5	26	44	1.75
1485374--1485889	257	2.0	257	100	0	1032	31	13	23	31	1.93
1491183--1491272	36	2.5	36	85	5	112	55	0	8	35	1.31
1491304--1491408	20	5.5	19	72	19	85	64	0	0	34	1.00
1491280--1491406	58	2.2	58	87	2	175	61	0	1	37	1.06
1491325--1491375	11	5.0	10	78	19	52	68	0	1	29	1.00
1491307--1491378	38	1.9	38	83	13	96	66	0	1	31	1.00
1503212--1503390	89	2.0	89	84	2	234	34	18	17	29	1.94
1505573--1505616	23	1.9	23	86	9	63	20	2	2	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506719--1506761	22	2.0	22	86	9	61	58	0	0	41	0.98
1514782--1514806	2	12.5	2	100	0	50	0	0	48	52	1.00
1517813--1517838	13	2.0	13	100	0	52	61	15	15	7	1.55
1518008--1518060	26	2.1	25	89	6	81	15	3	16	64	1.44
1520830--1520939	20	5.5	19	73	17	73	50	2	1	44	1.26
1520825--1520912	19	4.4	18	71	23	61	52	3	1	43	1.25
1520823--1520952	60	2.2	60	84	4	163	51	3	1	43	1.29
1520886--1520934	19	2.4	19	80	10	53	48	4	2	44	1.33
1521452--1521493	14	2.9	15	82	6	52	57	0	7	35	1.26
1522356--1522444	24	3.8	24	71	12	60	47	0	0	52	1.00

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