genome.fa.s7849.2.7.7.80.10.50.1000.6.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: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3141433

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1357 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)
1442787--1442819	17	1.9	17	93	0	57	63	0	0	36	0.95
1448686--1448893	105	2.0	105	84	1	274	28	23	14	33	1.94
1451152--1451344	104	1.8	105	80	5	230	25	25	15	33	1.95
1456339--1456369	2	15.5	2	100	0	62	51	0	0	48	1.00
1458068--1458197	68	1.9	68	85	6	183	50	10	6	31	1.63
1458629--1458714	24	3.5	23	77	22	86	29	17	16	37	1.91
1458629--1458715	23	3.5	24	78	15	88	29	17	16	36	1.91
1458676--1458755	40	2.0	41	87	2	117	38	13	13	33	1.85
1458676--1458743	22	3.3	22	72	21	65	42	13	13	30	1.82
1465098--1465247	60	2.5	60	79	11	148	38	4	26	30	1.76
1466224--1466389	80	2.1	80	97	0	314	27	27	19	25	1.99
1472422--1472460	21	2.0	20	85	10	53	43	0	20	35	1.52
1481700--1481803	52	2.0	52	96	0	190	49	3	17	29	1.64
1483405--1483746	169	2.0	169	94	4	611	30	14	21	33	1.94
1487099--1487174	25	3.2	24	75	19	70	53	1	44	0	1.08
1487122--1487226	29	3.4	29	73	15	88	58	0	41	0	0.98
1487140--1487213	37	2.1	37	82	12	93	56	0	43	0	0.99
1491378--1491544	78	2.1	78	82	4	203	31	11	36	20	1.88
1491454--1491675	45	5.0	45	86	1	151	28	11	35	24	1.90
1491464--1491840	90	4.4	90	70	16	301	28	10	36	25	1.88
1491571--1491799	118	1.9	119	87	2	336	27	9	37	25	1.87
1491532--1491841	163	1.9	165	91	1	507	27	9	36	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491691--1491842	45	3.4	45	88	0	241	26	9	38	25	1.86
1491689--1491879	90	2.1	90	90	0	292	28	8	36	26	1.86
1491689--1491879	45	4.2	45	83	1	150	28	8	36	26	1.86
1493193--1493245	18	2.9	17	83	8	61	43	9	3	43	1.55
1495462--1495714	45	5.7	45	71	12	200	29	8	35	26	1.86
1495460--1495558	46	2.2	45	81	1	117	30	10	33	26	1.89
1495432--1495674	133	1.8	132	87	4	364	31	8	35	25	1.85
1495454--1495827	176	2.1	177	86	1	525	29	8	35	27	1.86
1495502--1496008	87	5.7	86	74	12	402	29	8	36	25	1.86
1495502--1496008	176	2.8	179	81	5	429	29	8	36	25	1.86
1509758--1509810	24	2.3	23	80	9	63	28	9	13	49	1.73
1510121--1510174	19	2.8	20	78	16	67	35	5	25	33	1.80
1510131--1510172	19	2.2	19	95	0	75	38	4	26	30	1.77
1510567--1510657	21	4.4	21	81	5	123	30	25	23	20	1.98
1510559--1510636	40	2.0	40	97	0	147	32	23	23	21	1.98
1510560--1510668	40	2.7	38	80	10	119	32	22	22	22	1.98
1510683--1510763	21	3.9	21	73	9	76	20	16	22	40	1.91
1519492--1519534	15	2.9	15	96	0	77	53	0	0	46	1.00
1519538--1519593	22	2.5	22	94	0	94	42	1	5	50	1.35
1519551--1519657	54	2.0	54	94	0	187	39	0	8	51	1.39
1519605--1519647	22	2.0	22	95	0	77	37	0	11	51	1.39
1519672--1519730	31	1.9	31	92	0	100	42	10	6	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528283--1528311	14	2.0	15	93	6	51	37	6	6	48	1.57
1531095--1531340	126	2.0	125	91	2	404	29	20	18	32	1.96
1543955--1544013	22	2.7	22	89	5	93	27	13	8	50	1.70
1548072--1548155	20	4.2	20	70	8	71	40	17	8	33	1.80
1548748--1548813	18	3.7	18	79	0	69	56	10	3	30	1.49
1548750--1548814	30	2.2	30	86	10	89	55	10	3	30	1.50
1548762--1548814	6	8.8	6	81	8	54	54	13	1	30	1.49
1549559--1549687	26	5.0	25	80	8	89	23	9	10	56	1.62
1549616--1549729	26	4.3	26	80	10	124	27	7	7	57	1.55
1549617--1549719	53	1.9	55	92	4	174	28	7	7	56	1.55
1549592--1549729	26	5.3	27	74	19	107	25	7	9	57	1.57
1549815--1549944	25	5.2	25	76	6	111	50	28	0	20	1.53
1549895--1549948	27	2.1	25	86	6	72	53	24	0	22	1.46
1553454--1553479	3	8.7	3	100	0	52	69	0	0	30	0.89
1566528--1566559	2	16.0	2	100	0	64	50	0	0	50	1.00
1568914--1569036	58	2.2	58	95	2	223	39	17	11	31	1.85
1569069--1569138	22	3.2	22	71	15	63	40	12	7	40	1.71
1569069--1569157	44	2.0	44	91	0	142	38	12	8	40	1.74
1569084--1569155	22	3.3	21	75	14	74	37	9	11	41	1.74
1569286--1569885	293	2.0	304	94	5	1064	30	16	9	43	1.80
1573015--1573100	43	2.0	43	91	8	140	26	22	17	33	1.96
1575570--1575599	15	2.0	15	93	0	51	53	36	0	10	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580551--1580687	3	46.3	3	86	5	190	35	0	2	62	1.13
1581942--1581996	19	2.9	19	94	2	94	20	5	5	69	1.29
1582023--1582061	18	2.2	18	85	0	51	33	2	5	58	1.33
1582758--1582806	18	2.8	18	78	9	57	24	0	2	73	0.94
1593415--1593510	27	3.4	27	79	14	113	80	0	18	1	0.78
1593418--1593513	30	3.3	30	78	10	117	81	0	17	1	0.75
1594481--1594805	52	6.2	52	96	2	582	24	15	23	36	1.94
1594830--1595036	52	4.0	52	94	2	371	24	14	23	37	1.93
1594643--1594992	187	1.9	187	95	2	632	25	14	23	36	1.93
1594591--1595102	239	2.1	239	96	0	945	25	14	22	37	1.92
1595664--1596334	119	5.7	119	94	3	1150	37	14	20	27	1.92
1595664--1596334	237	2.9	238	94	3	1159	37	14	20	27	1.92
1596470--1596619	3	49.3	3	89	2	228	34	0	2	62	1.11
1597889--1597943	19	2.9	19	94	2	94	20	5	5	69	1.29
1597970--1598008	18	2.2	18	85	0	51	33	2	5	58	1.33
1627267--1627306	19	2.0	20	85	4	55	47	27	2	22	1.64
1630840--1630913	34	2.1	36	92	5	125	43	14	10	31	1.80
1635355--1635385	15	2.0	16	93	6	55	12	48	25	12	1.77
1635805--1635878	35	2.1	36	94	2	132	41	14	10	32	1.81
1638227--1638332	52	2.0	52	90	0	167	48	7	8	35	1.62
1639465--1639502	20	1.9	20	88	0	58	21	26	10	42	1.85
1653030--1653084	2	28.0	2	96	3	103	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660953--1661001	23	2.1	23	81	7	55	30	34	4	30	1.76
1673415--1673540	63	2.0	63	95	0	225	38	16	20	24	1.93
1673440--1673536	31	3.1	30	68	13	88	38	14	21	25	1.92
1674502--1674580	41	1.9	41	94	0	140	45	3	13	36	1.62
1674958--1675869	105	8.7	105	93	1	1488	22	18	25	33	1.96
1674958--1675869	419	2.2	421	92	1	1519	22	18	25	33	1.96
1676587--1676615	10	3.0	10	95	5	51	6	20	0	72	1.07
1676607--1676705	52	1.9	51	85	2	135	15	25	14	45	1.83
1686068--1686111	20	2.2	20	88	8	63	72	2	6	18	1.17
1687463--1687588	63	2.0	63	96	0	234	37	16	21	24	1.94
1687488--1687584	31	3.1	30	66	18	81	37	14	22	25	1.92
1688549--1688627	41	1.9	41	94	0	140	45	3	13	36	1.62
1689838--1689883	15	3.0	15	81	6	56	28	2	8	60	1.38
1693248--1693274	13	2.1	13	100	0	54	22	7	7	62	1.46
1697470--1697519	23	2.2	22	82	13	57	46	0	4	50	1.20
1701516--1701597	2	41.0	2	86	13	116	50	0	3	46	1.19
1701516--1701603	12	7.3	12	97	2	128	50	0	4	45	1.22
1701540--1701616	24	3.2	24	89	7	86	50	0	9	40	1.34
1702089--1702279	32	6.0	32	76	10	169	32	15	19	31	1.94
1702206--1702284	31	2.5	31	79	4	88	29	16	21	32	1.95
1703014--1703060	21	2.2	22	88	3	69	23	21	29	25	1.99
1706245--1706431	32	6.0	32	79	8	188	32	16	19	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706245--1706431	62	3.0	63	74	9	177	32	16	19	31	1.94
1706360--1706431	31	2.4	30	85	2	90	31	18	22	27	1.97
1708844--1708885	2	21.0	2	80	9	50	50	4	0	45	1.23
1709107--1709152	22	2.1	22	91	0	74	39	26	13	21	1.90
1712162--1712273	58	1.9	58	81	7	136	33	19	6	41	1.77
1713546--1713610	24	2.8	23	76	19	80	52	1	3	43	1.26
1719965--1719999	18	1.9	18	88	0	52	28	17	0	54	1.43
1721100--1721177	8	10.4	8	73	21	71	20	24	39	15	1.91
1721120--1721200	31	2.6	31	92	0	126	16	20	45	17	1.85
1721112--1721204	18	5.3	18	77	16	88	16	20	46	17	1.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12