genome.fa.s364.2.7.7.80.10.50.1000.7.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: Scaffold364
Parameters: 2 7 7 80 10 50 1000
Length:  2089110

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

This is table  7  of  10  ( 1160 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)
1352046--1352082	17	2.2	18	80	14	51	72	0	0	27	0.84
1352054--1352168	15	7.1	17	73	20	68	61	0	0	36	1.08
1352126--1352150	13	1.9	13	100	0	50	68	0	0	32	0.90
1352063--1352156	33	2.9	33	80	12	122	60	1	0	38	1.04
1352312--1352403	41	2.3	38	80	12	96	53	3	0	43	1.17
1352314--1352408	39	2.4	40	77	11	90	52	3	0	44	1.17
1356908--1356949	21	2.0	21	81	9	50	38	0	0	61	0.96
1357003--1357072	26	3.1	23	74	18	67	41	0	0	58	0.98
1370670--1370695	2	13.0	2	100	0	52	50	0	0	50	1.00
1372853--1372894	14	2.6	17	75	25	54	47	4	0	47	1.23
1372863--1372891	14	2.1	14	100	0	58	44	0	0	55	0.99
1380984--1381015	2	16.0	2	100	0	64	50	0	0	50	1.00
1382350--1382421	30	2.4	31	86	4	94	63	0	2	33	1.08
1382950--1382988	18	2.2	18	86	9	53	41	0	0	58	0.98
1382965--1383041	20	4.0	20	75	17	74	35	0	0	64	0.93
1382974--1383017	6	7.0	6	80	10	52	31	0	0	68	0.90
1383956--1384015	26	2.3	27	80	11	72	48	0	1	50	1.11
1384410--1384449	3	13.7	3	89	5	64	30	0	0	70	0.88
1385398--1385433	18	2.0	18	88	0	54	38	0	0	61	0.96
1385401--1385434	11	3.0	11	87	8	50	32	0	0	67	0.91
1385420--1385457	12	3.0	13	84	7	51	36	0	0	63	0.95
1385403--1385446	23	1.9	23	90	9	72	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385405--1385453	12	4.2	12	77	12	50	36	0	0	63	0.95
1386315--1386396	14	5.9	14	68	9	51	58	1	1	39	1.14
1389788--1389817	2	15.0	2	100	0	60	0	50	0	50	1.00
1393786--1393819	2	17.0	2	93	0	59	50	2	47	0	1.16
1393789--1393823	8	4.4	8	96	0	52	51	5	42	0	1.25
1394458--1394558	22	4.8	20	70	21	64	57	0	2	39	1.14
1394451--1394568	19	6.0	19	66	20	55	58	0	2	38	1.12
1394509--1394576	19	3.6	19	71	13	59	58	0	1	39	1.07
1394539--1394606	30	2.4	28	75	17	68	54	0	0	45	0.99
1394805--1394833	12	2.4	12	100	0	58	27	0	31	41	1.56
1394979--1395003	6	4.2	6	100	0	50	68	16	0	16	1.22
1395983--1396010	2	14.0	2	100	0	56	50	0	0	50	1.00
1399490--1399566	18	4.3	18	77	4	66	49	1	0	49	1.09
1399487--1399566	19	4.3	18	74	4	70	50	1	0	48	1.08
1399681--1399744	11	6.2	11	74	18	66	40	0	0	59	0.97
1399693--1399742	19	2.8	18	85	11	68	38	0	0	62	0.96
1399672--1399747	21	3.6	21	76	20	77	39	0	0	60	0.97
1402456--1402502	20	2.4	19	82	10	58	21	0	2	76	0.89
1404193--1404238	14	3.4	14	76	8	51	58	0	0	41	0.98
1405522--1405586	27	2.5	26	80	9	69	43	0	1	55	1.09
1409276--1409307	2	16.0	2	100	0	64	50	0	0	50	1.00
1409718--1409758	21	2.0	21	85	0	55	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1409825--1409918	30	3.1	31	75	6	102	44	2	2	51	1.25
1418220--1418271	5	10.4	5	80	12	54	78	1	19	0	0.84
1419976--1420101	62	2.0	62	98	0	243	16	19	13	50	1.77
1426847--1426915	13	5.7	13	74	19	53	42	1	0	56	1.08
1427098--1427138	16	2.5	17	80	7	50	68	0	7	24	1.15
1431509--1431551	2	21.5	2	100	0	86	48	0	0	51	1.00
1431714--1431741	2	14.0	2	100	0	56	50	0	0	50	1.00
1436252--1436286	18	2.0	18	94	5	63	57	17	0	25	1.40
1438262--1438289	2	14.0	2	100	0	56	50	0	0	50	1.00
1438982--1439015	15	2.3	15	90	5	52	44	0	0	55	0.99
1439127--1439155	2	15.0	2	92	7	51	48	0	0	51	1.00
1460484--1460514	3	10.3	3	100	0	62	32	0	0	67	0.91
1463572--1463619	21	2.2	22	82	14	64	41	0	0	58	0.98
1464198--1464255	23	2.6	23	84	10	68	44	6	5	43	1.53
1464967--1464994	2	14.0	2	100	0	56	50	0	0	50	1.00
1467035--1467079	21	2.1	21	84	15	58	53	0	0	46	1.00
1469559--1469616	28	2.1	27	81	12	64	63	1	5	29	1.25
1469657--1469719	25	2.4	25	84	10	74	61	1	0	36	1.05
1469661--1469750	25	3.8	23	70	18	69	62	4	1	32	1.22
1469740--1469803	33	2.0	30	82	8	74	59	4	0	35	1.18
1470403--1470486	38	2.2	37	79	8	89	63	2	0	34	1.08
1471071--1471130	27	2.2	28	85	8	79	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)
1471484--1471547	32	2.1	32	83	11	82	43	0	10	45	1.39
1471758--1471816	24	2.4	23	83	8	73	42	0	0	57	0.98
1471776--1471828	24	2.3	23	83	3	61	45	0	0	54	0.99
1473753--1473859	15	6.7	15	71	16	54	58	8	31	0	1.34
1473767--1473808	18	2.3	18	87	4	57	64	9	26	0	1.24
1473792--1473859	15	4.3	16	75	14	61	60	7	30	1	1.33
1473753--1473845	33	2.9	31	76	10	98	56	9	32	1	1.39
1473799--1473899	48	2.2	47	87	7	145	61	6	30	0	1.29
1474989--1475013	3	8.3	3	100	0	50	64	0	0	36	0.94
1479276--1479308	2	16.5	2	93	0	57	45	0	3	51	1.16
1483104--1483147	22	2.0	22	82	8	54	50	4	2	43	1.35
1483595--1483703	20	5.0	22	65	24	61	43	0	0	56	0.99
1483651--1483697	19	2.5	20	76	13	55	36	0	0	63	0.94
1483578--1483690	32	3.5	34	77	18	116	43	0	0	55	1.05
1485538--1485603	27	2.5	26	83	11	82	53	0	0	46	1.00
1485551--1485601	22	2.4	21	81	15	61	52	0	0	47	1.00
1485590--1485642	19	2.9	18	83	10	63	39	0	0	60	0.97
1485676--1485751	35	2.2	34	81	9	84	64	3	1	30	1.20
1486770--1486809	18	2.2	18	86	8	55	0	20	0	80	0.72
1494047--1494304	50	5.2	50	92	3	414	29	20	20	29	1.97
1498696--1498952	50	5.2	50	90	0	374	31	19	19	29	1.96
1499762--1499812	15	3.5	15	80	15	54	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512643--1512710	34	2.0	34	97	0	127	54	16	5	23	1.63
1513390--1513419	2	15.0	2	92	0	51	53	0	0	46	1.00
1518324--1518387	32	2.0	32	100	0	128	37	28	15	18	1.92
1521278--1521303	13	2.0	13	100	0	52	46	7	0	46	1.31
1521799--1521898	10	9.5	10	71	23	57	57	4	0	39	1.18
1521798--1521904	21	5.1	20	82	7	115	56	3	0	40	1.17
1522624--1522660	14	2.6	15	83	12	51	54	0	0	45	1.00
1522626--1522671	16	3.0	16	81	6	51	56	0	0	43	0.99
1522730--1522763	17	2.0	17	88	11	52	35	0	0	64	0.94
1523305--1523366	28	2.3	26	83	5	70	67	1	3	27	1.15
1525606--1525632	2	13.5	2	100	0	54	48	0	0	51	1.00
1526010--1526063	19	2.8	20	75	13	67	53	0	0	46	1.00
1526009--1526072	20	3.2	20	76	14	71	53	0	0	46	1.00
1527684--1527747	29	2.3	29	83	5	78	39	1	1	57	1.17
1530756--1530804	23	2.1	23	82	14	57	59	0	0	40	0.98
1530755--1530814	30	1.9	32	86	6	88	58	0	0	41	0.98
1530755--1530831	30	2.5	29	80	16	75	54	0	1	44	1.08
1531046--1531071	11	2.4	11	100	0	52	92	0	7	0	0.39
1532345--1532421	38	2.0	38	100	0	154	33	16	10	38	1.83
1533512--1533590	26	3.0	26	100	0	158	26	7	30	35	1.84
1538544--1538594	22	2.3	21	80	12	59	54	1	1	41	1.22
1538724--1538780	29	1.9	30	85	3	80	29	12	1	56	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538838--1538871	17	1.9	18	94	5	61	64	0	0	35	0.94
1538858--1538925	22	3.0	22	73	14	59	63	0	0	36	0.95
1549395--1549454	30	2.0	30	96	0	111	43	31	8	16	1.78
1551137--1551214	22	3.4	22	68	18	52	51	0	2	46	1.14
1553345--1553396	11	4.5	11	78	7	50	30	0	1	67	1.02
1557557--1557655	38	2.6	37	78	12	103	37	2	2	58	1.21
1557580--1557609	14	2.1	15	93	6	53	30	0	6	63	1.20
1558414--1558465	27	1.9	27	88	7	79	57	0	0	42	0.98
1558424--1558492	16	4.2	16	73	10	59	60	0	0	39	0.97
1558824--1558850	11	2.5	11	100	0	54	92	7	0	0	0.38

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