genome.fa.s8746.2.7.7.80.10.50.1000.8.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: VEPZ01008746.1 Hibiscus syriacus cultivar Beakdansim tig00111835_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2013901

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

This is table  8  of  10  ( 1164 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)
1409443--1409494	22	2.4	21	83	3	68	44	3	11	40	1.59
1409467--1409627	41	4.2	39	77	16	158	42	4	8	44	1.55
1409467--1409627	40	4.2	39	75	18	158	42	4	8	44	1.55
1409467--1409627	81	2.1	76	86	9	218	42	4	8	44	1.55
1409555--1409589	14	2.4	14	90	4	52	45	2	5	45	1.41
1409609--1409650	19	2.2	19	91	8	68	35	4	11	47	1.61
1410976--1411052	39	2.0	39	89	5	120	27	14	0	58	1.37
1410976--1411069	39	2.4	38	85	5	116	25	13	0	60	1.34
1411055--1411096	12	3.3	12	86	6	57	23	2	0	73	0.94
1411063--1411103	13	3.2	13	83	16	50	24	4	0	70	1.06
1428621--1428661	2	20.5	2	100	0	82	51	0	0	48	1.00
1431687--1431974	144	2.0	144	92	0	477	41	17	9	31	1.81
1439505--1439564	30	2.0	30	87	6	86	31	26	20	21	1.98
1440375--1440427	27	2.0	27	100	0	106	26	16	3	52	1.61
1440975--1441074	49	2.0	49	100	0	200	35	19	20	26	1.96
1441697--1441728	17	1.9	16	93	6	55	25	0	0	75	0.81
1441696--1441730	8	4.4	8	89	10	54	25	0	0	74	0.82
1441694--1441735	22	2.0	21	85	4	57	28	0	0	71	0.86
1442156--1442189	10	3.4	10	83	0	50	61	17	11	8	1.54
1443605--1443673	35	1.9	36	88	8	106	43	5	8	42	1.59
1443616--1443717	47	2.2	46	82	12	118	37	3	11	47	1.59
1443662--1443691	14	2.1	14	93	0	51	36	3	13	46	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443677--1443775	34	2.8	34	84	4	117	37	1	14	47	1.51
1443606--1443762	83	1.9	85	81	7	196	38	3	12	45	1.58
1443712--1443956	38	6.6	37	77	10	171	44	3	10	41	1.56
1445177--1445209	16	2.0	17	94	5	59	18	6	0	75	1.00
1448675--1448727	15	3.5	15	73	0	61	30	3	20	45	1.69
1448679--1448746	30	2.3	30	89	0	109	29	4	22	44	1.72
1448870--1448921	24	2.2	24	89	3	79	17	23	26	32	1.96
1448870--1448940	23	3.0	24	82	8	67	21	21	26	30	1.98
1448932--1448978	24	2.0	24	91	0	76	19	23	23	34	1.97
1454144--1454280	68	2.0	68	97	0	256	37	1	18	41	1.60
1455512--1455596	15	5.7	15	67	10	57	30	8	20	41	1.81
1455522--1455594	30	2.4	30	90	0	110	28	9	20	41	1.84
1455728--1455775	24	2.0	24	83	0	60	20	20	25	33	1.97
1460367--1460664	55	5.4	55	93	0	499	36	17	10	34	1.85
1464291--1464325	16	2.2	16	94	0	61	20	28	14	37	1.91
1464595--1464641	14	3.7	14	71	26	50	44	0	4	51	1.21
1464594--1464644	23	2.2	24	96	3	95	47	0	3	49	1.20
1464895--1464952	13	4.4	14	73	16	52	55	0	3	41	1.17
1465237--1465316	14	5.7	14	77	14	85	22	0	32	45	1.53
1465244--1465316	28	2.6	28	84	0	101	23	0	31	45	1.53
1465278--1465317	21	1.9	21	89	0	62	22	0	30	47	1.52
1465588--1465787	2	102.0	2	67	16	98	45	5	3	46	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465713--1465767	21	3.1	17	77	22	60	41	7	5	45	1.55
1465974--1466055	19	4.3	19	78	6	76	26	26	1	45	1.61
1466181--1466219	13	2.7	15	84	15	64	38	5	7	48	1.54
1466193--1466232	11	3.5	11	89	6	53	40	5	7	47	1.54
1466193--1466362	13	14.2	12	70	24	69	44	2	4	48	1.36
1466242--1466362	2	63.5	2	70	21	73	44	1	3	50	1.28
1467993--1468121	68	1.9	68	81	13	158	37	9	1	51	1.44
1470588--1470713	18	7.0	18	89	0	189	23	31	24	19	1.98
1475231--1475281	21	2.4	21	96	0	93	31	17	31	19	1.95
1477177--1477210	17	2.0	17	100	0	68	17	11	11	58	1.62
1484074--1484154	28	3.1	25	78	13	92	39	0	3	56	1.17
1485209--1485305	29	3.2	29	65	30	76	23	13	8	54	1.65
1485207--1485333	62	2.0	62	98	0	245	25	13	7	52	1.67
1485377--1485441	27	2.3	27	78	10	76	46	1	1	50	1.20
1485384--1485443	28	2.2	26	82	14	68	43	1	1	53	1.20
1485634--1485695	25	2.5	24	80	15	72	48	0	1	50	1.10
1486865--1486898	17	2.0	17	94	0	59	67	0	0	32	0.91
1491817--1491976	43	3.7	43	84	2	169	21	21	21	35	1.96
1499761--1499795	10	3.5	10	88	11	54	14	34	11	40	1.82
1504647--1504802	65	2.4	64	83	3	188	30	17	23	28	1.97
1506604--1506703	23	4.6	22	70	13	73	26	20	23	31	1.98
1506584--1506703	44	2.8	44	86	5	156	25	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510509--1510548	21	1.9	21	85	10	55	30	5	7	57	1.48
1514368--1514420	27	2.0	27	85	7	72	73	3	3	18	1.14
1514684--1514747	28	2.3	27	76	15	67	68	4	9	17	1.34
1514721--1514763	15	2.8	15	85	3	50	67	4	2	25	1.22
1530349--1530388	16	2.6	16	88	4	55	70	0	10	20	1.16
1538110--1538191	29	2.8	29	94	1	137	32	14	9	42	1.79
1542877--1542958	29	2.8	29	94	1	137	32	14	9	42	1.79
1546495--1546546	21	2.5	21	87	3	70	38	17	25	19	1.93
1546535--1546648	20	5.7	20	83	6	113	31	25	18	24	1.97
1546532--1546648	61	1.9	61	85	0	162	33	24	17	23	1.97
1547167--1547233	19	3.5	19	85	2	89	47	25	16	10	1.78
1547229--1547413	19	10.1	19	77	14	174	11	22	22	43	1.85
1547229--1547413	33	5.1	38	79	12	174	11	22	22	43	1.85
1547356--1547413	20	2.9	20	80	10	64	13	24	18	43	1.87
1549415--1549537	42	2.9	42	80	4	106	23	35	17	23	1.95
1550896--1550931	14	2.6	14	95	0	63	30	0	25	44	1.54
1551058--1551116	19	3.4	19	73	22	74	13	22	18	45	1.84
1551039--1551115	33	2.3	34	84	6	104	18	22	20	38	1.93
1553409--1553433	12	2.1	12	100	0	50	0	28	0	72	0.86
1553608--1553661	24	2.2	24	90	0	81	38	20	16	24	1.92
1554716--1554786	20	3.5	20	96	0	133	35	26	22	15	1.94
1554718--1554805	40	2.4	36	83	11	99	38	23	23	13	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554816--1554889	19	4.5	16	83	16	66	13	20	18	47	1.82
1554812--1554879	19	3.8	19	87	12	101	13	22	17	47	1.82
1554874--1554911	20	1.9	20	94	0	67	15	21	23	39	1.92
1554997--1555033	14	2.6	14	86	0	56	48	21	0	29	1.50
1556906--1556972	19	3.5	19	83	4	89	37	23	23	14	1.93
1556961--1557018	14	3.9	14	75	16	62	48	24	17	10	1.78
1556945--1557023	32	2.4	33	93	2	133	46	22	18	11	1.81
1557052--1557109	14	3.9	14	79	16	71	8	17	25	48	1.75
1557035--1557117	32	2.5	33	96	3	159	9	19	22	48	1.78
1557646--1557690	18	2.5	18	88	0	72	13	15	44	26	1.83
1559010--1559047	20	1.9	20	88	0	58	50	21	15	13	1.78
1559542--1559635	20	4.7	20	80	2	89	23	18	24	34	1.96
1559522--1559636	20	5.7	20	78	5	88	23	17	23	35	1.95
1559625--1559700	21	3.7	21	80	3	100	15	25	18	40	1.90
1559564--1559698	41	3.3	41	82	4	139	19	21	20	38	1.94
1559644--1559710	20	3.3	20	79	4	89	16	23	17	41	1.89
1559625--1559714	41	2.2	41	100	0	180	16	24	17	41	1.90
1561163--1561189	13	2.1	13	100	0	54	29	22	0	48	1.51
1567071--1567117	24	2.0	24	91	8	78	2	38	8	51	1.45
1568524--1568564	14	2.9	14	92	0	64	14	12	14	58	1.63
1568829--1568880	21	2.5	20	81	6	68	7	11	17	63	1.50
1568829--1568880	10	5.1	10	86	4	68	7	11	17	63	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570162--1570210	3	16.3	3	100	0	98	65	0	34	0	0.93
1570341--1570392	20	2.7	19	77	11	52	63	5	7	23	1.43
1571984--1572008	12	2.1	12	100	0	50	8	0	40	52	1.31
1581054--1581102	24	2.0	24	96	0	89	42	14	12	30	1.82
1589713--1589874	80	2.0	80	95	2	290	29	17	14	38	1.89
1594209--1594246	20	1.9	20	100	0	76	23	21	34	21	1.97
1595007--1595037	16	1.9	16	93	0	53	54	25	0	19	1.44
1596869--1596945	21	3.6	21	81	8	84	31	20	28	19	1.97
1602645--1602682	20	1.9	20	94	0	67	26	21	31	21	1.98
1608362--1608426	2	33.0	2	96	3	123	50	0	0	49	1.00

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