genome.fa.s221.2.7.7.80.10.50.1000.12.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

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

This is table  12  of  19  ( 2279 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)
1405752--1405806	26	2.1	26	86	3	74	38	0	1	60	1.08
1405766--1405813	12	3.8	12	75	20	53	39	0	0	60	0.97
1406382--1406418	5	7.0	5	90	6	56	40	0	2	56	1.13
1407035--1407075	17	2.6	16	85	11	57	48	0	0	51	1.00
1407144--1407170	11	2.5	11	100	0	54	37	0	7	55	1.28
1407172--1407209	14	2.5	15	87	8	51	55	2	0	42	1.14
1409337--1409396	31	1.9	31	86	10	86	55	3	0	41	1.16
1409989--1410018	14	2.2	13	94	5	51	40	0	0	60	0.97
1411834--1411858	2	12.5	2	100	0	50	52	0	48	0	1.00
1412531--1412599	17	4.1	17	75	19	65	52	2	0	44	1.16
1412541--1412610	32	2.1	34	86	5	99	52	2	0	44	1.15
1412541--1412612	17	4.4	15	74	20	56	54	2	0	43	1.15
1412816--1412848	2	16.5	2	100	0	66	48	0	0	51	1.00
1414295--1414354	12	5.3	12	77	15	58	66	0	1	31	1.01
1414307--1414354	23	2.0	24	88	4	71	68	0	2	29	1.01
1414811--1414864	18	2.9	18	73	13	56	48	1	3	46	1.30
1415421--1415456	2	18.0	2	100	0	72	50	0	0	50	1.00
1416385--1416447	21	3.0	21	79	6	65	65	1	0	33	1.03
1416402--1416438	14	2.5	15	80	20	51	70	0	0	29	0.88
1416373--1416433	32	1.9	32	86	6	88	67	0	0	32	0.91
1416372--1416440	17	3.9	18	72	22	58	68	0	0	31	0.90
1417025--1417066	12	3.6	12	77	6	50	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1417489--1417532	22	2.0	22	86	8	63	63	4	2	29	1.26
1417567--1417701	70	1.9	70	84	0	180	48	4	3	43	1.41
1417862--1417946	23	3.8	23	74	15	70	42	8	0	49	1.32
1417862--1417923	20	2.9	21	77	18	65	41	9	0	48	1.36
1417919--1417969	15	3.3	15	75	25	52	45	1	0	52	1.12
1420394--1420421	12	2.3	12	100	0	56	7	17	0	75	1.03
1421725--1421796	34	2.1	34	92	0	117	20	0	38	40	1.53
1424546--1424609	21	3.0	21	74	17	60	35	34	7	21	1.83
1429774--1429798	2	12.5	2	100	0	50	52	0	0	48	1.00
1435389--1435415	14	1.9	14	100	0	54	37	3	0	59	1.15
1435388--1435454	22	2.9	22	78	10	64	41	1	0	56	1.08
1436481--1436537	16	3.4	17	76	21	50	54	0	1	43	1.10
1436604--1436637	18	1.9	17	88	5	50	38	0	0	61	0.96
1439921--1439948	2	14.0	2	100	0	56	50	0	50	0	1.00
1441276--1441312	2	18.5	2	100	0	74	51	0	48	0	1.00
1441430--1441456	3	9.0	3	100	0	54	33	0	0	66	0.92
1441522--1441571	19	2.7	17	77	17	55	54	0	0	46	1.00
1442503--1442571	16	4.2	17	72	17	56	43	0	0	56	0.99
1442513--1442578	33	2.0	33	85	5	89	43	0	0	56	0.99
1443593--1443678	25	3.3	25	73	10	75	61	1	1	36	1.11
1444883--1444932	20	2.5	20	81	15	59	50	0	0	50	1.00
1445365--1445405	21	2.0	20	86	13	57	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445946--1445990	24	1.9	24	90	4	74	44	0	2	53	1.13
1446083--1446115	16	2.0	17	88	5	50	75	0	0	24	0.80
1446427--1446480	17	3.2	17	75	19	60	38	0	0	61	0.96
1446504--1446537	17	1.9	18	88	5	52	58	0	0	41	0.98
1448003--1448621	151	4.0	152	85	4	789	37	11	17	33	1.85
1450026--1450067	19	2.3	19	87	4	59	61	0	0	38	0.96
1450873--1450902	2	15.0	2	100	0	60	50	0	0	50	1.00
1451283--1451326	12	3.7	12	81	9	54	56	0	0	43	0.99
1451573--1451630	30	1.9	30	96	0	107	62	3	10	24	1.43
1453072--1453115	22	2.0	22	82	8	54	61	0	0	38	0.96
1462304--1462365	26	2.4	25	84	7	79	62	3	0	33	1.11
1462304--1462376	26	2.8	26	82	10	78	61	2	1	34	1.19
1462820--1462865	5	9.2	5	77	17	51	39	0	0	60	0.97
1463298--1463345	24	2.1	22	84	7	60	35	0	6	58	1.23
1464297--1464361	26	2.6	24	81	15	78	53	1	0	44	1.09
1465145--1465187	22	2.0	21	90	4	68	39	0	0	60	0.97
1466291--1466352	22	2.8	23	76	11	67	43	6	0	50	1.28
1466692--1466734	22	2.0	22	86	9	61	41	0	0	58	0.98
1466980--1467016	3	12.7	3	94	5	67	32	0	0	67	0.91
1467206--1467248	17	2.5	17	78	17	52	44	0	2	53	1.13
1467797--1467881	6	14.0	6	78	14	61	48	0	0	51	1.00
1467790--1467888	46	2.2	47	85	10	145	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467797--1467880	11	8.0	11	70	15	54	48	0	0	51	1.00
1475090--1475137	18	2.4	22	76	20	59	52	0	0	47	1.00
1475220--1475259	20	2.0	20	95	0	71	45	2	0	52	1.14
1475246--1475291	18	2.6	19	86	10	62	39	2	0	58	1.10
1476694--1476728	3	11.7	3	93	0	61	37	0	62	0	0.95
1478378--1478431	18	2.9	19	82	15	60	55	0	0	44	0.99
1478749--1478829	25	3.0	25	71	16	65	66	0	0	33	0.92
1478773--1478848	25	3.2	24	80	14	77	61	0	0	38	0.96
1478783--1478885	21	4.7	22	74	23	78	60	0	0	38	1.04
1479189--1479240	16	3.1	16	76	10	59	55	0	0	44	0.99
1479229--1479268	19	2.0	20	90	4	64	42	0	0	57	0.98
1483685--1483739	28	1.9	29	85	3	76	49	7	3	40	1.48
1485847--1485930	15	5.3	15	70	14	62	46	3	1	48	1.27
1487627--1487674	23	2.0	25	92	8	82	52	2	0	45	1.12
1487639--1487680	18	2.3	19	87	4	59	52	2	0	45	1.13
1487653--1487724	32	2.4	31	81	9	78	51	1	0	47	1.09
1495207--1495239	13	2.4	14	90	5	50	60	0	15	24	1.35
1497149--1497186	17	2.5	15	87	12	51	2	2	5	89	0.64
1499022--1499070	11	4.5	11	85	12	66	65	0	0	34	0.93
1499023--1499071	21	2.4	20	83	12	64	67	0	0	32	0.91
1499023--1499071	10	4.9	10	77	22	50	67	0	0	32	0.91
1502379--1502439	25	2.4	26	86	5	81	62	3	0	34	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502379--1502450	25	2.8	25	82	14	76	61	2	1	34	1.19
1502896--1502944	18	2.7	18	82	14	57	38	0	0	61	0.96
1502933--1502980	25	1.9	25	83	8	62	37	2	4	56	1.30
1503368--1503415	24	2.1	22	84	7	60	35	0	6	58	1.23
1503881--1503918	17	2.4	16	86	8	51	34	10	5	50	1.59
1504359--1504428	26	2.8	24	78	18	79	52	1	0	45	1.09
1507028--1507064	3	12.7	3	94	5	67	32	0	0	67	0.91
1507254--1507296	17	2.5	17	78	17	52	44	0	2	53	1.13
1507554--1507585	2	16.0	2	93	0	55	53	0	0	46	1.00
1507848--1507932	6	14.0	6	78	14	61	48	0	0	51	1.00
1507841--1507939	46	2.2	47	85	10	145	49	0	0	50	1.00
1507848--1507931	11	8.0	11	70	15	54	48	0	0	51	1.00
1515140--1515187	18	2.4	22	76	20	59	52	0	0	47	1.00
1515270--1515309	20	2.0	20	95	0	71	45	2	0	52	1.14
1515296--1515341	18	2.6	19	86	10	62	39	2	0	58	1.10
1516740--1516774	3	11.7	3	93	0	61	37	0	62	0	0.95
1518411--1518460	20	2.5	22	78	18	63	56	0	0	44	0.99
1518759--1518929	26	6.7	26	69	23	80	61	1	0	36	1.08
1518777--1518922	38	3.8	39	74	20	130	63	0	0	36	1.00
1518783--1518880	20	5.1	19	74	17	71	66	0	0	33	0.92
1519267--1519306	19	2.0	20	90	4	64	42	0	0	57	0.98
1520132--1520205	36	2.1	36	100	0	148	33	12	5	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1520132--1520187	18	3.1	18	71	19	62	33	12	7	46	1.69
1520147--1520205	18	3.3	18	73	17	68	33	11	3	50	1.56
1523409--1523459	17	2.9	18	69	16	52	43	0	0	56	0.99
1523748--1523803	13	4.0	14	77	13	62	55	0	1	42	1.10
1523755--1523811	28	2.0	28	100	0	114	57	0	0	42	0.98
1523712--1523857	61	2.5	62	73	16	139	54	1	2	42	1.20
1524001--1524091	36	2.5	35	78	8	103	48	1	0	50	1.08
1535568--1535596	14	2.1	14	100	0	58	41	0	13	44	1.44
1535714--1535758	22	2.0	22	82	4	54	55	0	2	42	1.12
1536024--1536072	25	2.0	25	84	8	64	55	0	4	40	1.19

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