genome.fa.s8007.2.7.7.80.10.50.1000.9.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: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1953294

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

This is table  9  of  11  ( 1251 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)
1512885--1513076	37	5.2	37	84	12	234	46	4	3	45	1.41
1513105--1513171	2	34.0	2	96	3	127	50	0	0	49	1.00
1513208--1513694	58	8.4	57	74	9	403	29	25	9	34	1.88
1513208--1513702	116	4.3	116	92	1	821	29	25	10	34	1.89
1520105--1520138	17	1.9	18	88	5	52	35	17	8	38	1.81
1520355--1521068	116	6.1	116	93	0	1142	30	24	9	34	1.88
1526199--1526255	29	2.0	29	89	0	87	40	8	14	36	1.76
1527936--1528052	12	9.8	12	70	7	85	48	17	14	18	1.81
1527934--1528066	24	5.5	24	81	8	146	48	17	15	18	1.81
1540871--1540909	19	2.0	19	90	5	60	25	20	17	35	1.95
1545570--1545614	16	2.8	16	82	0	63	53	31	8	6	1.58
1545586--1545685	32	3.1	32	80	7	105	48	26	8	18	1.75
1546241--1546285	21	2.2	20	84	15	56	51	0	8	40	1.33
1547061--1547092	15	2.2	15	94	5	57	50	0	0	50	1.00
1547578--1547690	52	2.2	52	98	0	217	10	28	14	46	1.77
1548453--1548484	16	2.0	16	93	0	55	34	18	15	31	1.93
1548611--1548663	21	2.4	21	81	6	61	47	1	0	50	1.12
1548639--1548745	55	2.0	55	82	10	132	45	2	1	49	1.27
1548743--1548846	27	3.7	26	75	15	84	47	0	1	50	1.19
1552628--1553086	3	152.7	3	82	3	348	33	9	3	53	1.50
1553308--1553349	18	2.4	18	84	11	52	50	2	0	47	1.14
1558999--1559050	20	2.6	20	81	9	70	38	25	19	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558999--1559048	19	2.5	20	83	6	66	38	24	20	18	1.93
1559085--1559213	20	6.4	20	70	13	79	31	17	12	38	1.87
1559043--1559188	40	3.6	40	82	7	154	28	20	12	38	1.89
1559084--1559211	40	3.2	39	82	2	130	30	17	12	39	1.87
1559326--1559373	22	2.2	22	100	0	96	18	50	14	16	1.79
1559326--1559387	22	2.9	21	88	9	65	16	54	11	17	1.70
1559720--1559787	20	3.3	20	74	11	66	51	16	11	20	1.75
1559772--1559801	13	2.3	13	100	0	60	56	10	10	23	1.62
1561206--1561371	42	4.0	42	90	2	248	25	39	12	22	1.89
1561471--1561766	21	14.1	21	83	2	290	19	11	33	34	1.88
1561473--1561766	84	3.5	84	84	2	342	19	11	33	35	1.88
1562068--1562197	21	6.2	21	78	5	111	22	36	14	26	1.93
1564325--1564439	20	5.8	20	81	4	142	22	13	22	41	1.88
1564963--1565003	18	2.3	18	91	0	64	19	2	24	53	1.57
1567304--1567363	24	2.5	24	83	5	77	38	16	18	26	1.92
1568347--1568430	20	4.2	19	72	6	60	36	14	22	26	1.92
1568366--1568444	40	2.0	40	85	5	106	36	12	21	29	1.90
1568975--1569070	37	2.6	35	79	9	86	70	0	4	25	1.04
1569037--1569074	17	2.2	17	90	9	60	73	0	5	21	1.02
1569174--1569268	49	2.0	48	81	10	113	54	0	3	42	1.16
1569870--1569912	22	2.0	22	95	0	77	25	9	9	55	1.61
1570775--1570834	26	2.3	27	88	8	97	23	28	23	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573352--1573432	25	3.3	24	77	6	74	25	4	1	67	1.18
1573389--1573520	35	3.8	33	71	18	106	33	2	0	63	1.12
1573452--1573507	29	1.9	29	92	0	94	35	1	0	62	1.06
1573467--1573571	48	2.3	44	78	15	106	22	3	0	72	1.07
1573511--1573582	18	3.9	17	75	13	72	18	2	1	77	0.96
1573492--1573636	47	2.9	47	75	18	127	20	6	2	71	1.17
1573496--1573584	9	9.2	10	71	13	53	20	3	1	75	1.01
1576748--1576881	68	2.0	69	95	1	243	38	20	14	27	1.91
1577810--1577894	32	2.6	31	76	7	89	29	14	20	36	1.91
1578471--1578733	106	2.7	96	85	7	323	34	24	20	21	1.97
1578536--1578781	106	2.3	106	85	0	321	32	22	21	23	1.98
1579013--1579169	65	2.4	65	81	4	183	28	20	11	39	1.87
1578931--1579455	167	3.1	167	92	0	836	28	17	12	41	1.86
1579080--1579263	102	1.8	102	83	4	246	27	17	12	41	1.86
1579182--1579328	65	2.3	65	85	2	188	29	17	12	40	1.86
1579231--1579617	102	3.8	101	83	1	425	29	18	13	38	1.89
1579500--1579575	36	2.1	36	82	0	89	26	19	14	39	1.90
1579681--1579757	21	4.0	21	75	17	76	23	19	12	44	1.85
1579638--1579731	34	2.7	35	76	5	109	22	20	13	43	1.87
1579788--1579870	35	2.4	34	88	5	123	42	16	8	32	1.79
1581058--1581118	2	30.5	2	80	6	70	40	1	0	57	1.08
1581048--1581138	40	2.3	41	87	9	127	35	2	0	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581130--1581284	5	31.6	5	72	19	64	20	4	0	74	1.04
1581138--1581284	9	15.2	9	73	18	75	20	4	0	74	1.05
1581048--1581284	4	58.8	4	72	17	66	26	3	0	69	1.08
1581100--1581202	28	3.5	29	74	16	88	23	2	0	72	1.04
1581112--1581261	53	3.0	47	78	18	128	20	5	0	74	1.06
1581237--1581284	23	2.1	22	92	3	78	25	0	0	75	0.81
1582456--1582523	31	2.2	31	84	5	84	29	10	11	48	1.73
1582764--1582802	15	2.7	15	84	4	53	69	0	0	30	0.89
1583816--1584017	98	2.1	98	99	0	395	27	17	19	35	1.95
1585383--1585467	31	2.7	31	87	3	107	34	15	10	40	1.82
1586994--1587053	22	2.7	22	94	0	102	11	25	45	18	1.83
1594287--1594365	9	8.3	9	80	6	77	26	27	29	16	1.97
1594289--1594366	19	4.1	19	77	14	88	26	28	26	17	1.98
1603755--1603846	39	2.5	35	77	16	96	51	3	7	38	1.47
1603755--1603846	37	2.5	34	78	16	94	51	3	7	38	1.47
1603917--1604066	35	4.1	34	70	22	101	44	4	4	46	1.42
1604080--1604123	14	3.3	13	84	12	54	15	2	0	81	0.78
1604080--1604115	19	1.9	19	88	5	56	19	0	0	80	0.71
1605388--1605428	12	3.7	11	82	17	50	17	7	0	75	1.02
1605565--1605602	18	2.0	20	85	10	53	34	2	2	60	1.24
1606709--1606741	17	1.9	17	93	0	57	6	12	9	72	1.26
1607354--1607395	19	2.3	19	91	4	68	11	14	9	64	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610803--1611580	84	9.4	81	79	6	688	30	25	20	23	1.98
1610803--1611576	163	4.7	166	86	1	986	30	25	20	23	1.98
1610899--1611576	165	4.1	164	86	3	941	30	25	20	23	1.98
1612154--1612255	40	2.4	43	82	6	120	46	2	7	43	1.48
1612210--1612285	32	2.3	34	84	6	93	46	2	5	46	1.39
1612244--1612367	41	3.1	40	71	19	116	45	3	6	44	1.45
1612245--1612419	77	2.3	75	79	13	180	45	2	8	44	1.48
1612398--1612441	22	2.0	22	90	0	70	50	0	2	47	1.13
1612345--1612477	64	2.1	64	80	9	157	45	3	5	46	1.41
1612490--1612527	14	2.8	13	88	7	58	13	2	0	84	0.73
1612489--1612534	20	2.3	20	81	7	58	10	6	0	82	0.83
1613798--1613896	11	8.8	11	66	15	51	20	4	4	71	1.18
1614199--1614228	6	5.0	6	95	0	51	30	0	0	70	0.88
1616905--1617041	42	3.3	40	81	11	143	33	16	22	27	1.96
1618107--1618265	52	3.1	52	98	0	309	32	7	16	43	1.76
1621308--1621445	43	3.2	43	84	4	170	25	21	19	34	1.96
1621611--1621766	43	3.6	43	75	10	122	28	23	17	30	1.97
1624571--1624798	43	5.3	41	92	4	321	25	22	23	28	1.99
1624571--1624841	129	2.1	129	87	2	384	26	21	23	28	1.99
1624571--1624841	86	3.2	86	88	1	373	26	21	23	28	1.99
1624571--1624841	43	6.3	42	89	3	312	26	21	23	28	1.99
1624614--1624882	129	2.1	129	81	5	312	27	22	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624993--1625051	21	2.8	21	84	0	73	55	20	5	18	1.61
1627728--1628212	41	11.6	41	80	6	476	35	17	18	28	1.94
1627816--1628163	127	2.8	126	85	1	484	35	16	18	29	1.92
1627732--1628196	165	2.8	166	86	4	627	34	17	18	29	1.94
1637816--1637889	37	2.0	37	100	0	148	40	27	16	16	1.89
1639425--1639468	22	2.0	23	86	8	65	50	0	0	50	1.00
1654655--1654688	16	2.1	16	89	10	52	70	20	0	8	1.13
1655898--1655925	13	2.2	13	100	0	56	39	0	0	60	0.97
1655986--1656058	33	2.2	33	97	0	137	35	41	0	23	1.55
1679375--1679409	15	2.2	16	90	5	54	71	2	2	22	1.13

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