genome.fa.s8314.2.7.7.80.10.50.1000.7.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: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2414839

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

This is table  7  of  10  ( 1196 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)
1362100--1362146	21	2.2	21	100	0	94	34	34	12	19	1.89
1380915--1380939	2	12.5	2	100	0	50	48	0	0	52	1.00
1384884--1384925	20	2.1	20	100	0	84	38	14	28	19	1.90
1394414--1394483	24	2.9	24	76	0	68	45	12	17	24	1.83
1396448--1396488	7	5.9	7	97	0	73	24	43	2	29	1.67
1401269--1401304	16	2.2	16	95	0	63	36	13	27	22	1.92
1409694--1409731	16	2.5	15	91	4	58	36	0	0	63	0.95
1410912--1410954	14	2.9	15	79	6	52	37	2	2	58	1.24
1411795--1411835	17	2.4	17	87	0	55	51	2	7	39	1.43
1416459--1416489	12	2.5	12	94	5	53	32	0	0	67	0.91
1416604--1416680	38	2.0	38	89	0	118	45	7	5	41	1.55
1426342--1426392	2	25.5	2	100	0	102	50	0	0	49	1.00
1433211--1433264	25	2.3	23	77	6	54	57	0	7	35	1.27
1433496--1433575	40	2.0	41	87	2	117	31	16	18	33	1.93
1433984--1434093	41	2.6	40	80	12	114	27	18	20	34	1.95
1433982--1434097	42	2.8	39	79	12	115	27	18	18	35	1.94
1435200--1435225	12	2.2	12	100	0	52	26	42	0	30	1.56
1438314--1438354	17	2.4	17	95	0	73	17	24	41	17	1.89
1438348--1438418	19	3.7	20	86	5	92	26	28	25	19	1.99
1438350--1438418	9	7.1	10	73	12	63	27	28	23	20	1.99
1445582--1445622	17	2.4	17	95	0	73	17	24	41	17	1.89
1445616--1445686	19	3.7	20	86	5	92	26	28	25	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445618--1445686	9	7.1	10	73	12	63	27	28	23	20	1.99
1452474--1452559	21	4.1	21	84	3	102	38	19	40	1	1.60
1452478--1452572	21	4.4	22	78	12	90	40	20	38	1	1.59
1453021--1453130	43	2.5	44	81	10	120	26	22	18	32	1.97
1454520--1454570	26	2.0	26	96	0	84	54	13	7	23	1.65
1464504--1464530	12	2.2	12	100	0	54	55	0	0	44	0.99
1465484--1465518	17	2.2	16	90	10	54	20	0	22	57	1.41
1466297--1466690	6	65.8	6	89	1	378	57	2	7	31	1.41
1466297--1466690	9	43.9	9	77	1	378	57	2	7	31	1.41
1472581--1472606	13	2.0	13	100	0	52	46	23	15	15	1.83
1479399--1479522	60	2.0	61	81	4	144	32	13	17	36	1.89
1482072--1482115	23	1.9	23	85	0	61	50	0	2	47	1.13
1482078--1482298	119	1.9	117	83	7	286	46	8	7	37	1.62
1482393--1482435	3	14.3	3	80	9	52	69	0	4	25	1.07
1482392--1482457	12	5.5	12	72	21	50	66	1	4	27	1.20
1483788--1483849	3	22.0	3	84	12	78	66	1	0	32	1.02
1483788--1483853	22	3.0	23	82	6	84	66	1	0	31	1.01
1483788--1483859	25	3.0	24	88	8	101	68	2	0	29	1.04
1484231--1484973	113	6.6	113	95	0	1252	27	21	14	36	1.92
1484119--1484973	226	3.8	226	91	2	1309	27	21	14	36	1.93
1484119--1484973	339	2.5	338	90	2	1316	27	21	14	36	1.93
1485409--1485464	23	2.5	22	80	5	67	35	12	14	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491827--1492084	128	2.0	128	99	0	507	32	15	22	29	1.95
1494026--1494064	15	2.7	15	88	4	53	51	12	15	20	1.76
1494018--1494073	14	3.9	14	79	4	58	55	8	12	23	1.65
1496243--1496286	23	1.9	23	85	0	61	50	0	2	47	1.13
1496248--1496517	122	2.2	122	80	9	293	47	6	7	38	1.58
1496460--1496518	28	2.1	28	81	9	66	57	0	5	37	1.21
1496558--1496622	12	5.2	12	76	10	58	66	1	4	27	1.20
1496558--1496595	16	2.5	15	91	4	58	71	0	5	23	1.07
1496558--1496600	3	14.3	3	80	9	52	69	0	4	25	1.07
1496628--1496669	15	3.0	14	83	10	50	66	0	2	30	1.04
1497933--1498015	3	29.0	3	77	13	68	60	1	0	38	1.05
1497954--1498025	25	3.0	24	84	8	92	66	2	0	30	1.06
1497954--1498015	28	2.2	28	85	0	79	64	1	0	33	1.03
1497955--1498025	23	3.0	23	79	8	81	67	2	0	29	1.05
1497955--1498026	22	3.1	22	75	16	74	66	2	0	30	1.06
1502642--1502760	3	39.0	3	85	9	161	32	0	3	63	1.17
1503553--1503664	42	2.7	42	92	0	188	19	16	16	47	1.83
1503836--1503956	31	4.1	31	75	18	89	47	0	0	50	1.12
1503851--1503894	22	2.0	23	86	4	63	45	0	0	54	0.99
1503910--1504010	29	3.5	28	79	17	93	41	0	2	55	1.15
1503922--1503968	24	2.0	23	83	4	58	40	0	2	57	1.11
1504013--1504057	23	2.0	23	86	0	63	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1508034--1508848	149	5.8	141	79	10	776	21	33	20	24	1.97
1508193--1508867	137	4.8	137	82	8	718	21	33	20	24	1.97
1508051--1508841	286	2.8	285	84	6	974	21	32	20	24	1.97
1508486--1508867	136	2.8	136	88	3	529	21	33	20	23	1.97
1517001--1517166	59	2.8	60	88	4	248	32	15	16	36	1.90
1517696--1517902	60	3.5	60	86	4	249	33	17	16	32	1.93
1516761--1518572	723	2.5	721	87	3	2569	37	11	17	33	1.86
1518282--1518313	4	7.8	4	96	3	55	78	0	21	0	0.76
1519580--1519621	13	3.3	13	81	15	52	21	0	2	76	0.90
1519587--1519633	19	2.5	19	86	6	60	25	0	2	72	0.96
1519644--1519749	39	2.7	39	82	2	124	34	17	0	46	1.55
1522007--1522079	15	5.1	15	71	15	64	53	2	1	42	1.23
1522006--1522094	42	2.1	42	100	0	178	51	4	2	41	1.34
1534782--1534916	60	2.3	58	82	6	157	33	12	6	47	1.68
1534869--1534981	60	1.9	59	83	7	147	31	15	8	43	1.78
1539011--1539090	32	2.6	31	86	5	108	38	7	2	51	1.44
1538880--1539285	30	13.5	30	72	9	219	38	6	1	52	1.39
1539364--1539515	31	5.2	29	75	9	105	57	2	3	36	1.31
1539382--1539480	29	3.4	29	84	4	128	58	1	5	35	1.27
1539520--1539568	24	2.0	24	85	14	66	55	0	6	38	1.25
1539726--1539766	20	2.1	19	90	4	64	60	0	0	39	0.96
1555725--1555778	12	4.3	12	75	15	56	42	9	1	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563280--1563565	144	2.0	142	91	2	457	33	16	11	38	1.85
1564204--1564228	11	2.3	11	100	0	50	52	0	0	48	1.00
1565323--1565380	12	4.6	14	78	20	65	56	0	1	41	1.09
1565389--1565423	18	1.9	18	88	11	54	74	0	5	20	1.02
1566979--1568037	106	10.0	106	91	1	1653	22	18	25	33	1.96
1566979--1568037	211	5.0	211	91	1	1676	22	18	25	33	1.96
1570820--1570862	22	2.0	21	82	13	52	53	6	18	20	1.67
1576404--1576440	18	1.9	19	89	10	58	45	10	0	43	1.39
1582604--1582656	26	2.1	25	82	3	61	26	5	3	64	1.33
1585997--1586056	28	2.1	28	90	0	93	33	3	21	41	1.70
1591045--1591126	24	3.4	24	98	0	155	23	0	20	56	1.43
1591834--1591914	39	2.1	38	86	6	110	46	0	3	49	1.19
1592062--1592101	20	2.1	19	90	4	62	25	22	10	42	1.84
1595541--1595583	20	2.3	18	80	11	50	25	25	4	44	1.73
1601815--1601855	2	20.5	2	100	0	82	48	0	0	51	1.00
1606591--1606617	2	13.5	2	100	0	54	51	0	0	48	1.00
1607947--1608027	29	2.8	30	76	9	80	55	2	1	40	1.21
1615004--1615054	23	2.2	23	86	6	68	21	3	1	72	1.11
1625831--1625868	17	2.3	17	86	4	51	78	5	15	0	0.91
1626948--1627132	99	1.9	99	83	2	246	37	22	17	21	1.94
1626978--1627530	280	2.0	273	89	3	847	34	24	17	23	1.96
1627251--1627447	106	1.9	106	85	0	277	35	27	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628549--1628627	2	39.5	2	100	0	158	49	0	0	50	1.00
1628668--1628703	18	1.9	18	88	5	54	22	5	0	72	1.05
1632449--1632492	24	1.9	22	82	17	54	40	2	2	54	1.25
1632439--1632496	29	2.0	28	80	9	64	36	3	1	58	1.25
1633796--1633845	2	25.0	2	100	0	100	50	0	0	50	1.00
1634232--1634334	51	2.0	51	81	9	122	42	6	13	36	1.71
1636449--1636625	35	5.1	35	100	0	354	51	0	14	34	1.42
1637413--1637443	14	2.2	14	100	0	62	61	0	0	38	0.96
1646359--1646383	13	1.9	13	100	0	50	56	16	8	20	1.65
1651784--1651848	29	2.2	29	86	5	87	30	10	30	27	1.91

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