genome.fa.s7805.2.7.7.80.10.50.1000.6.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: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2708727

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

This is table  6  of  11  ( 1278 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)
1492098--1492157	23	2.7	23	85	14	83	28	28	20	23	1.99
1503639--1503677	18	2.2	18	90	9	62	56	5	0	38	1.22
1504154--1504179	12	2.2	12	100	0	52	30	0	0	69	0.89
1504154--1504182	12	2.3	13	94	5	51	31	0	0	68	0.89
1504401--1504461	31	2.0	31	83	0	77	31	13	13	42	1.82
1504690--1504742	22	2.3	23	77	3	63	35	0	26	37	1.57
1505031--1505089	31	1.9	31	92	0	100	37	16	13	32	1.88
1505526--1505560	18	1.9	18	94	0	61	48	5	5	40	1.51
1507633--1507676	19	2.2	20	96	4	81	25	36	22	15	1.94
1508515--1508555	21	2.0	21	95	0	73	34	29	19	17	1.94
1510017--1510055	16	2.4	16	95	4	69	28	17	7	46	1.76
1511204--1511323	54	2.2	55	96	1	224	38	25	0	36	1.56
1523312--1523365	20	2.7	20	100	0	108	18	31	11	38	1.86
1523286--1523413	68	1.9	68	95	0	229	21	25	10	42	1.84
1523332--1523476	48	3.0	48	93	0	254	22	22	10	44	1.83
1527958--1527997	16	2.4	17	91	4	64	32	20	27	20	1.97
1529317--1529489	28	6.8	28	72	19	144	23	21	10	44	1.83
1529330--1529461	48	2.8	48	92	0	210	22	21	9	45	1.81
1529372--1529524	76	2.0	76	94	2	272	22	21	10	45	1.82
1533970--1534038	12	5.3	12	79	19	68	81	0	15	2	0.81
1533970--1534037	14	4.8	14	82	12	77	80	0	16	2	0.82
1533970--1534037	29	2.4	28	85	9	84	80	0	16	2	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533992--1534038	23	2.1	22	92	4	76	82	0	17	0	0.66
1535453--1535591	74	1.9	74	92	3	235	33	23	16	26	1.96
1535527--1536047	134	3.9	135	84	4	665	30	21	17	29	1.96
1543686--1543739	11	5.0	11	76	13	58	72	0	0	27	0.85
1543686--1543738	26	2.0	26	89	7	81	71	0	0	28	0.86
1546327--1546368	16	2.6	16	96	0	75	40	4	19	35	1.72
1546849--1546909	28	2.2	28	84	0	77	32	19	21	26	1.97
1550852--1550915	28	2.4	27	92	5	103	31	21	17	29	1.96
1556090--1556118	4	7.2	4	100	0	58	75	0	0	24	0.80
1556790--1556889	3	34.7	3	71	18	79	32	2	0	66	1.03
1556800--1556889	17	5.2	17	76	14	87	32	2	0	65	1.05
1558501--1558542	22	2.0	21	85	4	57	40	4	0	54	1.21
1559200--1559251	26	1.9	28	81	14	65	38	3	0	57	1.17
1562501--1562532	15	2.1	15	94	0	55	25	18	9	46	1.79
1564445--1564768	162	2.0	162	100	0	648	41	19	16	22	1.90
1570021--1570077	23	2.4	22	76	23	62	73	0	15	10	1.09
1570016--1570068	18	2.9	17	81	10	61	75	0	16	7	1.02
1572852--1573534	113	6.0	112	81	8	686	38	14	18	27	1.91
1573117--1573180	20	3.2	20	63	20	53	42	9	23	25	1.84
1572889--1573534	230	2.8	229	88	6	895	38	14	18	28	1.90
1573612--1573655	20	2.3	19	84	4	52	52	13	20	13	1.74
1573895--1574011	3	40.3	3	72	13	93	33	1	0	64	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573896--1574009	20	6.4	17	69	17	61	33	1	0	64	1.04
1575810--1575856	2	24.0	2	95	4	87	51	0	0	48	1.00
1575534--1575842	143	2.1	142	80	6	345	40	6	5	47	1.51
1577888--1578202	58	5.4	58	72	13	206	43	12	6	36	1.70
1579737--1579792	24	2.3	24	96	0	103	46	8	0	44	1.34
1579761--1579977	83	2.6	83	92	2	348	44	10	3	41	1.55
1579677--1579875	107	1.9	107	92	2	337	43	11	3	41	1.57
1580617--1580656	21	1.9	21	85	10	55	60	12	0	27	1.33
1580616--1580675	20	3.0	21	74	13	54	58	13	0	28	1.36
1594195--1594525	45	7.4	45	86	1	387	29	20	8	40	1.83
1596753--1596785	12	2.8	12	95	0	57	12	39	18	30	1.87
1600557--1600897	45	7.6	45	83	2	373	30	19	9	40	1.83
1601315--1601374	22	2.9	21	78	7	68	25	36	11	26	1.90
1601314--1601553	94	2.5	93	80	7	243	28	26	15	30	1.96
1602894--1602922	2	14.5	2	100	0	58	48	0	0	51	1.00
1603822--1603944	44	2.7	45	83	8	160	21	19	15	43	1.88
1605114--1605157	7	6.7	7	78	21	51	38	0	0	61	0.96
1605107--1605157	3	16.0	3	77	18	50	37	0	1	60	1.08
1605112--1605155	10	4.8	10	76	21	51	38	0	0	61	0.96
1605112--1605157	13	3.5	13	88	11	76	39	0	0	60	0.97
1605107--1605157	16	3.4	16	76	20	56	37	0	1	60	1.08
1614297--1614341	23	2.0	23	86	0	63	17	28	24	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1616270--1616380	43	2.6	43	91	0	186	33	18	22	25	1.97
1616718--1616757	22	2.0	20	85	14	55	30	10	30	30	1.90
1627059--1627102	22	2.2	19	84	15	54	31	11	29	27	1.91
1629041--1629087	3	15.0	3	79	16	51	38	0	2	59	1.09
1629046--1629085	10	3.8	10	87	12	62	40	0	0	60	0.97
1629056--1629084	14	2.0	15	93	6	51	41	0	0	58	0.98
1629041--1629087	12	3.6	14	75	21	57	38	0	2	59	1.09
1630323--1630373	25	2.0	25	84	0	66	39	0	5	54	1.24
1631570--1631606	18	1.9	19	89	10	58	43	5	0	51	1.24
1637919--1637966	20	2.4	20	82	0	60	39	14	12	33	1.84
1639567--1639604	20	1.9	20	88	0	58	50	18	13	18	1.78
1644317--1644354	10	3.9	10	86	3	51	7	21	7	63	1.47
1644355--1644409	20	2.7	20	80	8	56	21	3	3	70	1.18
1647345--1647411	3	22.3	3	93	0	53	68	11	0	19	1.20
1647573--1647638	14	4.8	14	73	14	57	48	1	1	48	1.20
1649674--1649730	21	2.8	20	86	2	78	33	14	21	31	1.92
1649678--1649730	20	2.6	21	84	3	72	32	15	18	33	1.92
1658748--1658784	12	3.1	13	85	14	53	70	0	0	29	0.88
1658757--1658800	17	2.7	16	80	13	54	72	2	0	25	0.96
1660091--1660507	121	3.5	120	86	1	573	28	21	17	31	1.96
1666268--1666374	55	1.9	55	96	3	198	10	23	24	42	1.85
1672726--1672771	22	2.1	22	84	8	58	69	2	0	28	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673861--1673967	37	2.9	37	97	0	205	28	15	17	38	1.91
1675667--1675719	23	2.3	24	78	12	67	41	0	0	58	0.98
1677736--1677882	76	1.9	76	83	5	190	38	14	6	40	1.73
1678189--1678223	13	2.7	13	83	16	54	11	40	8	40	1.72
1680035--1680082	24	2.0	24	96	4	89	27	25	20	27	1.99
1682617--1682679	29	2.2	29	85	5	92	26	42	12	17	1.85
1687116--1687184	34	2.0	35	97	2	131	36	26	17	20	1.94
1688117--1688169	19	2.7	20	94	5	99	9	0	52	37	1.34
1689005--1689043	20	2.1	18	85	9	51	51	7	2	38	1.44
1690288--1690321	17	2.0	17	100	0	68	23	0	52	23	1.47
1695240--1695317	2	40.5	2	87	7	117	48	1	1	48	1.17
1695239--1695362	8	15.9	8	73	13	64	52	0	2	44	1.19
1703509--1703862	176	2.0	178	98	1	694	30	17	25	25	1.97
1705614--1705654	8	5.9	7	91	8	50	87	0	4	7	0.65
1705581--1705654	36	1.9	39	86	10	109	81	0	10	8	0.89
1705582--1705654	10	7.6	10	70	14	55	80	0	10	8	0.89
1706545--1706860	55	5.9	55	86	5	398	27	15	28	28	1.96
1706544--1706859	108	2.9	108	85	5	410	28	15	28	28	1.96
1706822--1706978	55	2.9	56	83	9	191	29	19	26	23	1.98
1707231--1707325	2	49.5	2	91	8	162	50	0	0	49	1.00
1707342--1707374	15	2.1	16	88	5	50	60	0	3	36	1.12
1711412--1711452	18	2.3	18	91	0	64	41	24	12	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712225--1712272	22	2.1	23	92	3	80	29	22	27	20	1.99
1713216--1713249	2	17.0	2	100	0	68	50	0	0	50	1.00
1713232--1713582	37	9.6	37	83	9	420	45	2	8	43	1.48
1713232--1713582	73	4.8	75	83	8	399	45	2	8	43	1.48
1713588--1713650	26	2.3	27	79	15	67	15	4	7	71	1.27
1714249--1714275	2	13.5	2	100	0	54	51	0	0	48	1.00
1717692--1717844	18	8.5	18	69	22	90	63	1	7	27	1.31
1717807--1717849	21	2.0	21	86	0	59	69	4	4	20	1.25
1717690--1717844	3	51.7	3	70	14	79	63	1	7	27	1.30
1720145--1720549	110	3.7	110	93	1	686	25	18	22	33	1.97

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