genome.fa.s260.2.7.7.80.10.50.1000.9.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  9  of  26  ( 3102 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)
1748154--1748217	17	3.3	19	67	20	51	42	10	21	25	1.85
1752838--1752872	3	11.7	3	88	11	54	34	0	0	65	0.93
1752842--1752878	13	2.9	13	92	4	58	37	0	0	62	0.96
1754718--1754770	2	27.5	2	81	14	67	45	1	1	50	1.23
1761456--1761497	22	1.9	22	100	0	84	73	0	19	7	1.05
1764125--1764305	42	4.3	42	89	0	263	25	22	19	31	1.98
1764306--1764379	37	2.0	37	91	0	121	41	20	17	20	1.90
1764381--1764746	111	3.3	110	87	3	513	30	24	18	26	1.98
1764894--1764932	3	13.3	3	94	5	71	35	0	0	64	0.94
1764894--1764932	20	2.0	20	100	0	78	35	0	0	64	0.94
1764896--1764930	17	2.1	17	100	0	70	34	0	0	65	0.93
1768095--1768168	11	6.4	11	75	17	53	47	2	2	47	1.30
1768126--1768187	11	5.7	11	82	16	76	46	1	8	43	1.42
1768128--1768187	20	2.8	22	85	12	72	48	1	8	41	1.43
1768416--1768468	11	4.4	11	84	15	61	43	5	7	43	1.56
1768416--1768610	24	7.9	24	68	15	103	45	3	8	43	1.49
1768416--1768609	13	15.6	13	67	22	60	45	3	8	42	1.49
1768400--1768610	74	2.9	74	92	0	341	45	2	7	43	1.47
1768504--1768542	11	3.4	11	80	13	51	43	2	7	46	1.46
1770040--1770145	24	4.4	24	70	15	83	43	10	2	43	1.53
1770107--1770159	11	4.4	11	84	15	61	43	9	3	43	1.55
1770040--1770159	38	3.2	38	71	19	126	43	10	3	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1770349--1770389	18	2.3	18	87	8	57	48	7	0	43	1.30
1770379--1770428	26	1.9	26	91	0	82	56	4	0	40	1.18
1770630--1771059	214	2.0	214	100	0	860	31	12	20	35	1.90
1771431--1771474	17	2.6	17	88	0	70	22	20	18	38	1.93
1771901--1771957	16	3.6	16	80	0	60	43	19	19	17	1.88
1771948--1771995	19	2.5	20	96	3	89	41	16	12	29	1.85
1772725--1772881	21	7.8	20	70	9	77	38	24	17	19	1.93
1772868--1773038	20	8.5	20	81	5	202	35	25	18	20	1.95
1772868--1773038	60	2.8	60	83	0	234	35	25	18	20	1.95
1773419--1773489	33	2.2	33	92	0	115	11	22	18	47	1.80
1773566--1773671	21	5.6	20	70	16	91	45	17	24	12	1.83
1773559--1773675	41	3.1	38	79	14	136	46	16	25	11	1.81
1773618--1773698	33	2.5	33	93	0	135	46	20	22	9	1.80
1773626--1773682	14	3.7	14	72	20	51	43	21	24	10	1.83
1773694--1773821	19	7.1	19	71	19	87	10	25	18	45	1.82
1773716--1773772	14	3.7	14	75	20	60	8	24	22	43	1.81
1773699--1773821	33	3.5	33	88	10	165	10	24	18	46	1.81
1773757--1773821	21	3.1	21	82	4	96	10	26	15	47	1.78
1775514--1776165	93	7.1	93	98	1	1258	21	12	19	46	1.83
1775514--1776165	185	3.5	186	98	1	1258	21	12	19	46	1.83
1775514--1776165	278	2.4	278	98	1	1256	21	12	19	46	1.83
1776249--1776341	33	2.8	32	90	4	141	45	27	19	7	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1776213--1776341	52	2.5	52	73	14	131	44	28	17	8	1.78
1776213--1776341	19	7.3	19	75	17	125	44	28	17	8	1.78
1776337--1776508	19	9.6	19	76	14	159	11	19	23	45	1.82
1776359--1776415	14	3.7	14	77	20	60	10	21	22	45	1.82
1776342--1776434	33	2.8	33	95	0	168	10	20	21	47	1.80
1776337--1776491	33	4.4	37	83	6	132	10	20	23	46	1.81
1778422--1778457	14	2.6	14	95	0	63	33	0	22	44	1.53
1778564--1778661	19	5.4	19	84	13	143	45	17	22	14	1.84
1778564--1778680	53	2.2	53	98	1	227	44	17	23	13	1.85
1778670--1778872	19	11.7	19	73	20	194	15	21	17	45	1.85
1778670--1778844	52	3.3	52	96	0	314	15	22	16	45	1.85
1778676--1778886	33	6.2	33	75	14	214	14	21	18	45	1.84
1781356--1781402	24	2.0	24	87	8	69	38	21	14	25	1.92
1782084--1782313	20	11.5	20	85	1	237	19	18	24	36	1.94
1782300--1782378	21	3.8	21	72	0	68	25	16	21	36	1.94
1783284--1783367	22	4.0	20	69	21	55	47	2	0	50	1.14
1783282--1783394	24	5.2	22	70	19	69	47	1	0	50	1.11
1783433--1783473	18	2.2	20	91	8	68	43	7	0	48	1.30
1784193--1784223	14	2.2	14	94	0	53	32	12	6	48	1.67
1788201--1788348	5	30.4	5	94	5	268	39	0	0	60	0.97
1788677--1788748	2	39.5	2	68	18	50	50	0	0	50	1.00
1788666--1788739	38	1.9	38	94	0	130	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1788656--1788735	32	2.4	35	80	16	89	48	0	1	50	1.08
1790226--1790429	2	99.5	2	70	14	87	50	2	8	38	1.46
1790291--1790370	37	2.2	37	82	8	92	52	3	10	33	1.53
1791125--1791266	39	3.6	39	87	1	160	35	17	0	46	1.54
1795390--1795452	9	6.7	9	75	10	54	19	0	3	77	0.90
1795391--1795452	28	2.2	28	82	0	70	19	0	3	77	0.90
1795737--1795891	42	3.7	42	81	0	168	27	16	23	32	1.96
1795950--1796372	202	2.1	201	90	0	666	28	18	18	33	1.95
1796065--1796221	79	2.0	79	83	5	201	28	17	17	36	1.93
1797882--1798135	54	4.7	54	76	9	205	42	18	9	30	1.81
1797916--1798113	108	1.8	108	86	4	292	43	16	8	31	1.77
1800804--1801076	55	4.9	55	86	3	370	28	17	17	36	1.93
1800804--1801057	111	2.3	111	89	0	384	27	18	17	36	1.94
1807566--1807767	55	3.7	55	91	1	309	29	15	18	36	1.91
1808653--1808751	4	23.8	4	73	17	60	2	23	4	70	1.14
1808646--1808697	24	2.2	24	82	6	61	3	15	3	76	1.07
1810130--1810180	21	2.4	22	80	3	59	56	9	17	15	1.65
1810557--1810616	29	2.0	30	90	3	95	61	8	11	18	1.54
1814033--1814080	8	5.8	8	76	9	51	33	2	0	64	1.05
1815277--1815388	46	2.4	46	77	2	109	49	13	5	32	1.64
1816395--1816420	13	2.0	13	100	0	52	46	7	7	38	1.61
1819908--1820309	200	2.0	200	100	0	804	40	14	18	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824793--1824864	23	3.3	21	83	11	92	18	34	23	23	1.96
1828698--1828993	32	9.3	32	80	5	312	53	16	2	28	1.54
1828696--1828993	64	4.7	64	83	2	366	53	16	2	28	1.54
1828699--1828993	96	3.1	94	84	2	374	53	16	2	28	1.54
1829137--1829174	3	13.0	3	94	5	69	31	0	0	68	0.90
1830395--1830437	16	2.7	16	78	10	52	20	4	0	74	1.00
1830609--1830637	12	2.3	13	94	5	51	31	0	0	68	0.89
1830761--1830798	16	2.3	17	81	4	51	26	5	7	60	1.46
1831667--1831715	20	2.5	20	96	0	89	36	10	16	36	1.82
1832685--1832716	13	2.5	13	89	0	55	68	6	0	25	1.12
1837866--1837919	26	2.1	26	89	0	81	27	29	16	25	1.97
1841446--1841537	39	2.4	39	83	3	105	26	7	29	36	1.84
1842351--1842425	29	2.7	29	93	4	127	24	17	12	46	1.81
1844960--1845136	90	2.0	89	93	1	300	38	11	6	44	1.66
1845098--1845167	22	3.3	20	71	26	63	48	2	4	44	1.37
1848211--1848255	5	9.4	5	85	9	67	77	0	0	22	0.76
1848162--1848247	18	4.8	18	73	17	72	74	3	1	20	1.03
1848194--1848255	23	2.7	23	85	2	81	77	1	1	19	0.94
1848180--1848247	18	3.7	18	78	7	75	76	1	1	20	0.94
1848289--1848875	134	4.2	138	84	7	719	47	12	15	24	1.81
1848857--1848918	28	2.2	28	91	0	97	51	1	14	32	1.52
1849481--1849550	35	2.0	35	97	0	131	50	15	8	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850199--1850775	66	8.7	66	85	5	738	38	11	20	28	1.88
1850199--1850780	131	4.4	132	89	1	785	39	11	20	28	1.88
1850199--1850775	197	2.9	195	86	5	768	38	11	20	28	1.88
1850746--1850797	22	2.4	22	93	0	86	36	5	26	30	1.80
1852329--1852504	4	44.0	4	87	0	235	45	47	6	0	1.29
1852332--1852604	8	34.4	8	92	1	253	37	47	13	0	1.48
1852454--1852608	4	38.8	4	89	2	231	29	48	21	1	1.58
1855243--1855305	31	2.1	29	85	5	81	55	9	15	19	1.67
1857227--1857262	16	2.2	17	90	5	56	77	0	2	19	0.88
1857227--1857284	17	3.5	16	76	15	55	77	3	1	17	0.99

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