genome.fa.s8302.2.7.7.80.10.50.1000.9.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  9  of  17  ( 1926 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)
1698220--1698271	24	2.2	24	85	0	68	36	19	19	25	1.95
1699178--1699216	18	2.2	18	85	0	51	38	2	20	38	1.66
1699173--1699324	20	7.7	20	70	12	73	35	9	23	30	1.88
1699197--1699324	40	3.2	40	80	0	130	35	11	24	28	1.91
1699215--1699351	60	2.3	60	77	5	143	35	12	24	27	1.92
1699308--1699512	21	10.0	21	76	10	165	28	13	26	32	1.93
1699197--1699510	20	15.5	20	73	12	117	31	12	25	31	1.92
1699316--1699512	41	4.8	41	80	7	186	27	13	26	32	1.93
1699648--1699726	23	3.4	23	91	3	115	41	0	0	58	0.98
1699900--1700010	20	5.4	20	82	10	109	27	24	11	36	1.90
1699942--1700034	40	2.3	40	81	3	107	31	23	11	33	1.91
1699921--1700039	20	5.9	20	81	5	82	30	22	10	36	1.89
1700309--1700359	20	2.6	19	81	6	57	39	23	7	29	1.83
1699974--1700962	337	3.0	334	89	3	1492	32	16	21	29	1.95
1701125--1701200	40	1.9	40	83	0	98	30	14	19	35	1.92
1701640--1701759	64	1.9	64	96	0	222	45	11	11	30	1.76
1701777--1702303	200	2.7	197	83	4	659	31	15	13	38	1.87
1702130--1702475	177	1.9	178	86	5	495	32	12	14	39	1.84
1705216--1705299	34	2.4	35	92	2	134	20	33	26	20	1.97
1705413--1705454	21	2.0	21	95	0	75	23	21	28	26	1.99
1708585--1708666	34	2.4	35	93	2	139	20	31	28	19	1.97
1708781--1708822	21	2.0	21	95	0	75	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709105--1709174	34	2.1	33	84	5	88	32	15	28	22	1.95
1709487--1710254	200	3.8	199	85	3	999	32	15	12	39	1.85
1709487--1710254	399	1.9	398	85	3	1060	32	15	12	39	1.85
1710486--1710522	18	2.1	18	94	0	65	51	8	5	35	1.55
1713343--1714385	200	5.2	199	84	3	1234	32	17	13	36	1.89
1713337--1714385	400	2.6	400	85	3	1360	32	16	13	36	1.89
1715414--1715468	18	3.1	18	83	0	74	9	32	0	58	1.30
1715716--1715759	21	2.1	21	95	0	79	13	34	11	40	1.81
1718161--1718833	182	3.7	182	91	1	1023	28	15	14	41	1.87
1719366--1719580	104	2.1	106	92	2	373	46	5	10	37	1.61
1722231--1722386	30	5.2	29	82	6	170	51	2	7	38	1.44
1722224--1722385	59	2.7	60	80	6	186	52	2	7	37	1.43
1722374--1722422	18	2.7	18	80	3	53	42	0	14	42	1.45
1724190--1724377	88	2.1	88	99	0	367	34	21	20	23	1.96
1725301--1725387	23	3.7	23	73	14	79	17	24	26	32	1.97
1726102--1726143	22	2.0	22	90	4	68	16	23	35	23	1.95
1731309--1731360	3	17.0	3	81	18	63	67	0	0	32	0.91
1731313--1731364	22	2.4	21	87	12	79	71	0	0	28	0.87
1731698--1732605	113	8.0	113	86	5	1152	27	19	14	37	1.91
1731698--1732621	350	2.7	337	84	7	1189	27	19	15	37	1.91
1731713--1732584	462	1.9	463	91	1	1426	27	19	14	38	1.91
1733021--1733075	22	2.5	22	87	0	83	36	14	14	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1733446--1733597	54	2.8	54	92	0	259	24	24	14	36	1.93
1734647--1734719	34	2.1	34	84	2	92	27	20	12	39	1.88
1737996--1738086	42	2.2	42	96	2	166	5	19	0	74	1.01
1737988--1738089	17	6.2	16	80	13	93	4	19	0	75	0.98
1745610--1745676	3	22.0	3	85	14	93	67	0	0	32	0.91
1745614--1745676	25	2.5	25	94	5	110	68	0	0	31	0.90
1751071--1751180	33	3.3	33	94	0	184	45	33	9	11	1.72
1751482--1751534	24	2.2	24	96	0	97	32	11	32	24	1.91
1752090--1752127	20	1.9	20	100	0	76	23	28	10	36	1.88
1752951--1753067	60	2.0	60	83	10	150	35	15	15	34	1.89
1752930--1753076	60	2.5	60	77	14	144	33	15	16	34	1.90
1753297--1753321	11	2.3	11	100	0	50	44	24	0	32	1.54
1755889--1755923	13	2.7	13	91	8	54	34	0	0	65	0.93
1758691--1758718	12	2.3	12	100	0	56	35	0	0	64	0.94
1760878--1760935	24	2.4	24	82	5	64	32	1	51	13	1.51
1761742--1761844	32	3.0	35	82	13	110	17	4	19	58	1.56
1761756--1761844	32	2.8	32	87	0	124	17	5	17	58	1.58
1761901--1761952	26	2.0	26	84	3	68	21	1	19	57	1.50
1762827--1763370	83	6.6	82	82	3	563	29	16	17	35	1.92
1762830--1763370	249	2.2	248	83	3	658	29	16	17	35	1.92
1763500--1763556	24	2.4	24	85	5	80	40	24	1	33	1.66
1773711--1773749	18	2.2	18	85	0	51	30	28	30	10	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1775122--1775169	20	2.5	20	79	3	53	29	16	20	33	1.95
1779457--1779495	18	2.1	19	90	4	62	35	2	0	61	1.10
1779629--1779659	15	2.1	15	100	0	62	19	0	0	80	0.71
1779632--1779664	14	2.3	15	89	5	50	21	3	0	75	0.93
1785221--1785253	17	1.9	17	93	0	57	45	15	18	21	1.85
1791388--1791441	25	2.2	25	80	9	67	50	0	1	48	1.11
1791571--1791612	20	2.3	18	88	12	59	28	23	7	40	1.81
1796559--1796595	19	1.9	19	94	0	65	32	29	16	21	1.95
1796863--1796914	17	2.6	22	69	30	62	32	36	5	25	1.80
1796877--1796909	17	1.9	17	100	0	66	39	30	6	24	1.79
1797805--1797841	14	2.5	15	86	8	58	54	21	18	5	1.64
1799865--1799894	12	2.5	12	100	0	60	50	26	6	16	1.70
1800065--1800125	31	2.0	31	96	0	113	32	18	16	32	1.93
1800095--1800192	20	4.9	20	89	0	142	30	18	20	30	1.96
1800231--1800326	40	2.4	40	87	3	140	12	16	25	45	1.82
1800231--1800318	20	4.4	20	85	5	124	12	15	23	47	1.80
1800380--1800558	71	2.6	69	82	12	201	51	16	2	29	1.56
1801851--1801971	42	2.9	42	79	7	138	23	18	35	22	1.95
1801851--1801963	21	5.4	21	72	4	84	23	18	36	22	1.95
1802449--1802492	20	2.2	20	95	0	79	50	22	13	13	1.77
1802479--1802547	20	3.5	20	87	0	102	34	24	21	18	1.96
1802591--1802628	20	1.9	20	88	0	58	15	21	15	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1802662--1802730	20	3.5	20	86	7	95	17	18	26	37	1.93
1803010--1803055	21	2.2	21	84	0	56	32	32	17	17	1.93
1804642--1804708	20	3.4	20	77	2	73	50	22	13	13	1.76
1805102--1805155	22	2.5	22	87	0	81	18	18	42	20	1.89
1805543--1805596	28	1.9	28	81	7	65	42	11	18	27	1.84
1805841--1805869	15	1.9	15	100	0	58	20	0	17	62	1.33
1808183--1808234	20	2.7	20	87	3	70	19	26	28	25	1.98
1808228--1808285	17	3.4	17	92	0	98	17	41	24	17	1.90
1815464--1815534	19	3.7	19	88	1	97	19	26	28	25	1.99
1815483--1815527	9	4.7	10	81	8	58	20	26	31	22	1.98
1815548--1815597	17	2.9	17	84	0	73	18	40	24	18	1.91
1815528--1815584	29	2.0	29	89	0	87	17	36	24	21	1.94
1815536--1815566	12	2.6	12	100	0	62	19	35	25	19	1.95
1815587--1815623	7	5.4	7	93	6	67	16	29	27	27	1.97
1815587--1815623	13	2.7	14	91	8	67	16	29	27	27	1.97
1827550--1827664	20	5.7	20	82	6	115	31	26	18	24	1.97
1827852--1827895	22	2.0	22	95	0	79	20	45	15	18	1.85
1828140--1828177	20	1.9	20	88	0	58	13	15	21	50	1.78
1828314--1828368	25	2.2	24	78	15	58	20	9	18	52	1.71
1829497--1829541	18	2.5	18	88	0	72	26	44	15	13	1.83
1830023--1830089	20	3.4	20	81	2	73	38	23	22	14	1.92
1830078--1830135	14	3.9	14	79	16	71	48	24	17	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1830062--1830152	32	2.8	33	94	3	166	47	21	18	12	1.81
1830169--1830226	14	3.9	14	79	16	71	8	17	25	48	1.75
1830164--1830242	32	2.4	33	95	2	142	10	18	24	46	1.80
1830164--1830242	14	4.8	17	71	22	62	10	18	24	46	1.80
1830227--1830282	20	2.8	19	84	7	67	16	23	23	37	1.93
1832150--1832185	14	2.6	14	90	0	54	30	0	22	47	1.52
1832331--1832384	14	3.5	14	77	22	63	11	20	20	48	1.80
1832313--1832383	33	2.2	33	84	0	88	19	19	21	39	1.93
1832326--1832404	33	2.4	34	89	2	115	12	22	21	43	1.86
1832369--1832426	20	2.9	20	97	0	107	15	22	24	37	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17