genome.fa.s8428.2.7.7.80.10.50.1000.5.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  5  of  30  ( 3508 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)
1437047--1437099	20	2.8	18	77	16	54	26	1	45	26	1.64
1442136--1442193	21	2.7	23	71	15	61	27	0	44	27	1.54
1444956--1445022	29	2.3	29	100	0	134	73	8	8	8	1.27
1448355--1448423	32	2.2	32	91	0	111	18	24	39	17	1.92
1448950--1448994	20	2.1	22	88	8	67	33	13	2	51	1.53
1449096--1449135	21	1.9	21	94	0	71	40	10	15	35	1.80
1450417--1450475	17	3.3	17	67	28	50	37	3	5	54	1.39
1450404--1450474	37	1.9	37	97	0	133	33	4	7	54	1.47
1450407--1450494	37	2.4	37	88	0	122	38	4	6	50	1.50
1450595--1450659	22	3.3	21	68	28	61	32	4	4	58	1.39
1450608--1450666	17	3.3	17	67	28	50	37	3	5	54	1.39
1450595--1450665	37	1.9	37	97	0	133	33	4	5	56	1.42
1450315--1450737	191	2.2	194	90	3	674	38	10	7	43	1.67
1450598--1450685	37	2.4	37	88	0	122	37	4	5	52	1.46
1452846--1452889	23	1.9	23	90	0	70	22	25	13	38	1.91
1452836--1452890	23	2.4	23	81	0	65	20	25	16	38	1.92
1459084--1459185	23	4.4	23	81	4	116	16	24	27	31	1.96
1459097--1459217	23	5.2	22	79	7	100	18	24	26	30	1.98
1459178--1459254	24	3.2	24	86	0	100	19	20	22	37	1.94
1462567--1462607	22	1.9	21	85	14	57	14	14	4	65	1.42
1462570--1462620	25	1.9	27	88	11	79	13	13	3	68	1.34
1462569--1462626	25	2.2	26	78	6	73	12	12	6	68	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465093--1465257	74	2.2	75	89	2	251	23	20	27	28	1.99
1465852--1465904	18	2.7	19	82	8	54	58	22	1	16	1.48
1467376--1467414	13	2.9	13	88	3	51	41	7	12	38	1.72
1471260--1471299	20	2.0	21	85	5	55	25	17	10	47	1.78
1473356--1473476	54	2.2	54	88	0	179	25	19	24	30	1.98
1478832--1478875	18	2.4	18	78	14	54	22	4	4	68	1.27
1481228--1481395	81	2.1	81	95	1	300	41	18	14	25	1.89
1488777--1488813	18	2.1	18	89	0	56	35	35	8	21	1.83
1494206--1494241	17	2.1	17	89	0	54	33	8	8	50	1.63
1496181--1496206	12	2.2	12	100	0	52	46	34	7	11	1.69
1499137--1499208	24	3.1	24	65	25	64	38	4	5	51	1.45
1501297--1501429	30	4.4	30	95	0	230	33	24	18	24	1.97
1501416--1501539	63	2.0	63	88	4	189	33	20	18	28	1.96
1501415--1501542	31	4.1	31	80	6	141	34	20	17	27	1.95
1502236--1502277	22	2.0	22	85	4	59	33	26	0	40	1.56
1502727--1502771	21	2.1	21	87	0	63	15	24	28	31	1.96
1506105--1506237	30	4.4	30	97	0	248	32	23	21	23	1.98
1506242--1506350	31	3.5	31	79	7	139	34	19	16	29	1.94
1506223--1506350	31	4.1	31	78	6	132	34	21	17	27	1.95
1507042--1507083	22	2.0	22	85	4	59	33	26	0	40	1.56
1507533--1507577	21	2.1	21	83	0	54	15	22	28	33	1.95
1508703--1508994	44	6.5	45	73	9	195	22	20	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1508710--1508961	136	1.9	135	80	7	305	22	19	21	36	1.95
1513083--1513131	19	2.6	18	78	9	53	71	2	6	20	1.18
1513697--1513818	64	1.9	63	90	5	192	54	13	0	31	1.46
1513732--1513871	19	7.2	19	69	14	56	57	12	0	30	1.40
1513799--1513861	32	2.0	32	84	12	85	63	9	0	26	1.25
1513752--1513895	77	1.9	77	88	7	222	58	11	0	29	1.39
1513741--1513916	76	2.3	75	84	6	221	56	10	1	30	1.43
1515812--1515858	11	4.3	11	76	10	51	74	6	6	12	1.20
1515807--1515850	22	2.0	22	86	4	63	77	4	4	13	1.08
1521075--1521102	5	5.6	5	100	0	56	82	0	0	17	0.68
1525703--1525736	17	2.1	16	88	5	50	76	0	8	14	1.01
1532018--1532065	25	2.0	24	83	4	60	60	12	0	27	1.32
1531931--1532069	66	2.1	66	85	6	194	56	12	0	30	1.37
1537672--1537709	20	1.9	20	84	10	51	47	2	15	34	1.60
1539007--1539044	3	12.7	3	100	0	76	34	0	0	65	0.93
1539410--1539459	23	2.2	23	88	0	73	30	24	24	22	1.99
1539422--1539470	23	2.1	23	100	0	98	26	24	24	24	2.00
1543912--1543961	3	16.7	3	100	0	100	68	0	0	32	0.90
1548127--1548175	20	2.5	19	81	15	55	67	4	6	22	1.30
1548763--1548822	32	1.9	31	82	3	75	21	13	21	43	1.87
1555135--1555180	13	3.5	13	84	0	65	30	21	19	28	1.98
1555158--1555380	85	2.6	84	82	9	256	30	21	17	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555428--1555464	2	19.5	2	89	10	60	51	0	0	48	1.00
1557263--1557293	12	2.6	12	94	0	53	70	9	6	12	1.31
1557812--1557901	39	2.2	40	83	11	105	4	32	5	57	1.42
1557857--1557953	51	1.9	50	87	10	144	4	34	6	55	1.44
1565604--1565688	42	2.0	42	86	4	118	35	17	18	28	1.94
1568066--1568090	13	1.9	13	100	0	50	56	12	16	16	1.68
1569904--1569951	19	2.5	18	80	10	51	70	8	12	8	1.32
1570753--1570793	6	7.0	6	83	10	50	2	0	14	82	0.76
1570753--1570795	12	3.7	11	84	9	59	2	0	13	83	0.74
1570755--1570792	17	2.2	17	86	9	51	2	0	13	84	0.73
1574260--1574303	18	2.5	18	82	13	56	81	0	4	13	0.83
1574261--1574314	25	2.1	25	83	10	65	79	1	5	12	0.98
1574639--1574681	3	15.0	3	85	9	63	34	2	0	62	1.08
1574640--1574673	11	3.1	11	91	8	52	35	0	0	64	0.94
1574639--1574681	14	3.0	14	96	3	77	34	2	0	62	1.08
1575402--1575448	22	2.1	22	100	0	94	25	8	42	23	1.82
1576385--1576454	35	2.0	35	94	0	122	30	21	20	28	1.98
1576420--1576554	54	2.5	53	91	3	216	34	17	17	30	1.94
1577476--1577519	20	2.1	21	83	4	54	45	29	2	22	1.65
1577640--1577688	25	2.0	25	84	8	64	48	16	0	34	1.46
1583507--1583667	54	3.0	55	89	4	265	31	17	18	32	1.94
1585976--1586022	14	3.4	14	76	5	60	25	12	0	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588643--1588679	14	2.6	14	95	0	65	13	35	8	43	1.74
1589061--1589118	26	2.2	25	85	11	73	72	8	3	15	1.23
1589103--1589132	11	2.9	10	90	9	51	56	20	3	20	1.56
1608627--1608682	29	1.9	29	88	0	85	42	16	23	17	1.88
1610261--1610325	20	3.3	20	64	12	53	41	13	21	23	1.89
1611109--1611177	5	12.2	5	75	22	57	20	2	4	72	1.15
1611109--1611176	23	2.9	23	83	12	86	20	2	4	72	1.16
1611438--1611471	15	2.3	14	85	14	50	29	5	5	58	1.45
1611440--1611476	16	2.3	15	90	9	56	24	5	5	64	1.36
1612247--1612432	64	2.9	65	87	4	243	31	20	15	31	1.94
1618483--1618515	12	2.6	13	90	4	50	36	12	6	45	1.66
1620231--1620264	12	2.7	13	86	9	52	44	8	5	41	1.60
1620583--1620772	65	2.9	65	89	1	274	30	21	17	31	1.96
1623761--1623825	31	2.1	31	88	0	94	26	24	4	44	1.73
1632063--1632099	19	1.9	19	88	0	56	35	29	13	21	1.92
1632125--1632211	20	4.3	20	81	5	104	29	26	18	25	1.98
1632358--1632412	17	3.2	17	97	0	101	32	32	5	29	1.80
1635379--1635413	18	1.9	18	88	0	52	54	25	0	20	1.45
1635584--1635750	20	8.7	20	78	10	170	32	20	19	26	1.97
1635743--1635781	20	2.0	20	100	0	78	10	20	23	46	1.81
1635743--1635796	20	2.7	20	88	5	65	12	18	25	42	1.86
1635916--1635954	14	2.8	14	84	0	60	46	15	0	38	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637331--1637400	21	3.3	20	70	7	59	21	20	35	22	1.96
1637331--1637453	42	2.9	42	81	2	140	24	17	35	21	1.95
1637351--1637449	21	4.7	21	74	0	90	25	19	33	22	1.97
1638074--1638145	33	2.1	34	87	2	101	13	19	19	47	1.83
1638141--1638209	20	3.5	20	84	11	88	17	18	26	37	1.93
1640094--1640147	20	2.7	20	85	0	72	40	25	16	16	1.89
1640519--1640565	22	2.1	22	96	0	85	19	14	44	21	1.86
1640711--1640785	21	3.6	21	73	10	82	20	16	25	38	1.92
1640732--1640805	20	3.7	20	75	10	78	22	17	27	32	1.97
1640710--1640807	41	2.4	41	94	0	178	22	16	24	36	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30