genome.fa.s8301.2.7.7.80.10.50.1000.8.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

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

This is table  8  of  18  ( 2065 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)
1456257--1456311	29	1.9	28	92	0	83	32	12	9	45	1.74
1459843--1459873	2	15.5	2	100	0	62	48	0	0	51	1.00
1471373--1471429	21	2.7	22	89	8	91	47	15	12	24	1.80
1473119--1473174	24	2.3	24	81	6	69	51	10	5	32	1.59
1473119--1473155	18	2.1	18	89	0	56	54	8	5	32	1.53
1475731--1475801	36	2.0	36	94	0	124	35	4	33	26	1.76
1475735--1475796	18	3.4	18	72	16	65	38	4	33	22	1.76
1475749--1475812	18	3.6	17	73	23	60	35	3	34	26	1.72
1476090--1476133	21	2.0	21	91	4	70	52	9	9	29	1.64
1476097--1476137	21	2.0	20	95	4	73	46	9	9	34	1.70
1476097--1478859	200	13.8	200	89	2	4080	32	14	12	40	1.84
1476694--1476734	21	1.9	22	95	5	75	51	9	9	29	1.67
1477298--1477337	21	2.0	20	90	9	64	50	10	10	30	1.69
1477495--1477534	21	1.9	21	94	0	71	50	12	10	27	1.72
1481179--1481221	21	2.0	21	95	0	77	65	13	16	4	1.43
1483519--1483559	9	4.6	9	84	0	55	7	56	2	34	1.40
1483519--1483563	18	2.6	18	89	3	65	6	55	4	33	1.46
1488336--1488369	18	1.9	18	88	5	52	50	0	20	29	1.49
1493701--1493734	18	1.9	18	88	5	52	50	0	20	29	1.49
1494571--1494605	17	2.1	17	100	0	70	40	20	11	28	1.87
1496008--1496853	367	2.3	359	91	2	1372	27	15	13	43	1.85
1496008--1496853	183	4.7	183	89	2	1260	27	15	13	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1503522--1503567	3	14.7	3	86	8	65	63	2	0	34	1.07
1503688--1505555	134	14.0	134	85	1	2271	29	16	23	30	1.96
1503688--1505555	936	2.0	936	91	1	3010	29	16	23	30	1.96
1507063--1507112	14	3.8	13	76	10	57	0	20	2	78	0.86
1507063--1507104	22	1.9	22	85	9	59	0	21	2	76	0.90
1509229--1509266	15	2.5	15	91	0	58	60	0	0	39	0.97
1509390--1510022	257	2.5	258	87	2	891	34	17	16	31	1.92
1509803--1510232	197	2.2	196	87	2	630	34	18	16	30	1.93
1511679--1511967	144	2.0	145	99	0	571	31	18	14	35	1.91
1516352--1516462	35	3.2	35	88	2	161	31	3	36	27	1.74
1519909--1519970	30	2.1	30	100	0	124	58	25	3	12	1.50
1520251--1520299	16	2.9	16	84	6	53	61	0	22	16	1.34
1520508--1520548	13	3.1	13	82	3	55	0	14	4	80	0.87
1520500--1520548	27	1.9	24	88	12	71	0	16	4	79	0.88
1520880--1520908	11	2.6	11	100	0	58	37	0	27	34	1.57
1520934--1521044	35	3.2	35	89	2	161	32	3	36	27	1.74
1523158--1523268	35	3.2	35	87	2	152	32	3	36	27	1.74
1526779--1526817	12	3.4	11	83	13	51	71	0	0	28	0.86
1526777--1526848	28	2.7	26	79	10	67	62	0	0	37	0.95
1529625--1529654	10	3.0	10	100	0	60	70	0	0	30	0.88
1534379--1534591	103	2.1	103	95	1	383	26	14	23	36	1.93
1534608--1534675	23	3.0	23	87	8	86	20	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1539604--1539821	103	2.1	103	94	0	382	25	14	23	36	1.93
1539838--1539905	23	3.0	23	86	0	91	20	26	26	26	1.99
1542243--1542292	26	1.9	26	92	8	84	34	14	12	40	1.82
1553901--1553959	29	2.0	29	96	0	109	47	13	13	25	1.79
1555865--1555892	2	14.0	2	100	0	56	50	0	0	50	1.00
1555929--1555971	16	2.6	17	79	17	54	60	0	0	39	0.97
1557199--1557252	3	17.3	3	84	7	72	62	0	0	37	0.95
1557199--1557240	13	3.3	13	90	9	61	66	0	0	33	0.92
1557199--1557252	16	3.4	16	92	2	83	62	0	0	37	0.95
1557405--1558270	76	11.4	76	97	0	1615	34	22	19	23	1.96
1558267--1558606	170	2.0	171	92	1	567	37	12	13	36	1.83
1559564--1559651	40	2.2	41	95	2	160	28	22	12	36	1.91
1561791--1562010	114	1.9	114	94	0	386	30	20	15	33	1.94
1564038--1564093	7	7.7	7	80	13	60	0	12	1	85	0.67
1564044--1564091	10	4.7	10	87	7	62	0	12	2	85	0.69
1564052--1564092	11	3.5	12	83	12	50	0	12	2	85	0.70
1564038--1564094	27	2.1	27	87	12	82	0	12	1	85	0.66
1564038--1564120	36	2.2	38	79	10	100	2	12	4	80	0.96
1569049--1569083	15	2.2	16	90	5	54	74	0	5	20	1.02
1569685--1569728	21	2.0	22	82	4	54	45	0	6	47	1.29
1569937--1569980	2	22.0	2	95	0	79	52	0	0	47	1.00
1569990--1570023	17	2.0	17	88	11	52	64	0	5	29	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570029--1570061	16	2.1	16	88	11	50	60	0	0	39	0.97
1571275--1571334	12	5.0	12	81	4	59	56	0	0	43	0.99
1571275--1571312	3	12.3	3	94	5	67	63	0	0	36	0.95
1576408--1576448	3	13.7	3	85	10	57	60	0	0	39	0.96
1577531--1577578	22	2.1	23	85	11	64	54	4	6	35	1.45
1579914--1579958	21	2.2	20	88	4	63	57	6	15	20	1.60
1581705--1581760	21	2.7	21	94	0	94	30	21	12	35	1.90
1581961--1582363	39	10.4	39	90	2	623	34	15	16	33	1.91
1581994--1582055	20	3.2	20	68	13	65	41	17	14	25	1.88
1582095--1582159	22	3.2	22	62	28	52	27	16	15	40	1.89
1582448--1582553	42	2.6	41	79	5	124	33	20	20	25	1.97
1582612--1582778	57	2.9	57	82	10	191	41	17	8	31	1.80
1584714--1584864	4	35.8	4	68	25	64	2	22	2	72	1.10
1584713--1584867	16	10.0	15	71	15	77	2	22	2	72	1.10
1584725--1584826	10	10.5	10	71	18	56	1	22	3	71	1.12
1584713--1584816	35	2.9	35	83	10	124	1	22	2	73	1.07
1584730--1584860	46	2.9	44	72	24	103	2	22	3	71	1.11
1588323--1588376	26	2.1	26	83	13	67	72	9	0	18	1.11
1588405--1588454	21	2.4	20	83	9	64	64	8	12	16	1.49
1588411--1588454	21	2.0	22	91	4	72	65	6	13	13	1.44
1589500--1589600	48	2.1	48	100	0	202	21	12	39	25	1.89
1589687--1589734	24	2.0	23	84	11	62	16	4	37	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590343--1590372	14	2.1	14	93	0	51	36	0	0	63	0.95
1603208--1603248	18	2.3	18	95	0	73	48	0	12	39	1.41
1603410--1603480	36	2.0	36	94	0	124	25	5	11	57	1.55
1604460--1604586	41	3.1	41	81	0	155	27	18	16	37	1.93
1610231--1610278	21	2.3	21	92	0	78	25	0	25	50	1.50
1610512--1610649	44	3.2	43	68	4	116	32	23	15	28	1.95
1610504--1610688	88	2.2	84	89	5	275	32	21	14	31	1.93
1613182--1613238	17	3.0	19	77	12	55	24	3	3	68	1.21
1613191--1613225	18	2.0	18	88	5	54	25	2	0	71	1.00
1613291--1613330	8	4.7	9	90	6	57	20	0	2	77	0.88
1613300--1613342	4	10.8	4	87	7	61	20	2	0	76	0.89
1618648--1619242	86	7.0	85	86	2	768	34	22	19	23	1.97
1618649--1619242	255	2.3	253	88	1	857	34	22	19	23	1.96
1618648--1619242	169	3.5	169	85	2	798	34	22	19	23	1.97
1619629--1619663	16	2.2	16	89	0	52	31	22	14	31	1.94
1620002--1620035	2	17.0	2	100	0	68	50	0	0	50	1.00
1621139--1621195	26	2.2	26	96	3	107	24	7	3	64	1.34
1621390--1621559	13	13.0	12	70	19	60	15	6	2	75	1.13
1621390--1621559	9	18.4	9	67	19	75	15	6	2	75	1.13
1621392--1621457	34	1.9	34	81	6	80	12	6	3	78	1.04
1621421--1621496	29	2.6	29	75	18	86	17	5	3	73	1.17
1621435--1621474	21	2.0	20	85	14	55	17	7	0	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621426--1621537	16	7.5	15	72	14	74	16	6	1	75	1.10
1621479--1621536	21	2.8	20	78	19	57	15	5	1	77	1.02
1622014--1622071	20	3.0	20	84	2	64	10	10	24	55	1.65
1622026--1622071	19	2.3	20	85	3	67	8	13	23	54	1.66
1622169--1622235	33	2.0	33	94	0	116	8	31	25	34	1.87
1627280--1627342	23	2.6	23	82	10	72	39	15	14	30	1.87
1628084--1628171	20	4.3	20	75	2	95	32	22	18	26	1.97
1628165--1628304	20	7.0	19	76	15	113	40	23	17	18	1.91
1628145--1628275	40	3.3	40	84	8	194	39	24	17	18	1.92
1628145--1628304	80	2.0	80	93	0	275	40	23	17	19	1.92

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