genome.fa.s7867.2.7.7.80.10.50.1000.9.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: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3477501

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2128 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)
1612196--1612508	143	2.2	139	78	12	324	44	6	8	40	1.59
1612609--1612667	15	4.0	15	80	8	68	66	0	5	28	1.13
1614028--1614089	13	4.6	13	77	18	56	53	0	0	46	1.00
1614052--1614102	19	2.7	19	93	3	86	58	1	0	39	1.09
1614223--1614377	77	2.0	78	89	3	240	34	19	20	26	1.96
1614339--1614450	53	2.1	53	90	6	183	37	17	22	22	1.94
1614262--1614516	126	2.0	127	87	9	376	34	19	20	24	1.96
1614392--1615571	74	15.9	76	92	5	1948	35	21	21	21	1.96
1614392--1615571	298	4.0	299	92	5	1985	35	21	21	21	1.96
1615576--1615891	163	1.9	164	90	3	505	36	12	14	35	1.85
1616566--1616683	54	2.3	51	86	5	157	24	21	15	38	1.92
1616939--1617057	54	2.3	52	86	4	159	24	21	15	39	1.91
1619279--1619560	93	3.0	93	91	0	449	35	21	13	29	1.92
1622143--1622204	31	2.0	31	96	3	117	35	16	29	19	1.93
1626695--1626727	16	2.0	17	88	5	50	51	0	0	48	1.00
1627106--1627165	15	4.1	14	78	19	61	68	0	5	26	1.10
1628056--1628107	13	4.2	13	76	14	56	0	13	7	78	0.94
1628047--1628097	24	2.2	24	89	3	77	0	13	5	80	0.89
1628557--1628619	3	20.0	3	80	9	72	58	0	0	41	0.98
1628546--1628618	13	5.6	13	85	11	105	56	0	0	43	0.99
1628546--1628619	16	4.4	16	78	11	76	56	0	0	43	0.99
1631117--1631933	407	2.0	410	98	1	1597	31	21	13	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632774--1632813	20	1.9	20	85	10	53	47	10	7	35	1.65
1638271--1638297	7	3.9	7	100	0	54	74	0	25	0	0.83
1640018--1640070	22	2.4	22	93	0	97	41	15	5	37	1.70
1645896--1645946	3	16.7	3	95	4	93	33	0	0	66	0.92
1647399--1647440	16	2.5	17	78	17	52	30	0	2	66	1.04
1647400--1647433	17	2.0	17	88	11	52	26	0	2	70	1.01
1647415--1647468	24	2.4	24	79	14	62	33	0	3	62	1.12
1647434--1647500	24	2.8	25	73	8	68	40	0	2	56	1.14
1650645--1650685	15	2.9	14	80	20	57	21	12	7	58	1.58
1653190--1653248	7	8.6	7	80	9	50	81	3	15	0	0.82
1653189--1653247	22	2.6	22	78	5	64	81	3	15	0	0.82
1653174--1653245	29	2.4	30	88	6	110	77	2	19	0	0.88
1653174--1653245	15	4.7	15	80	13	85	77	2	19	0	0.88
1653197--1653254	7	8.6	7	81	11	68	79	1	18	0	0.82
1658716--1659003	76	3.8	76	98	0	549	23	19	21	34	1.96
1659128--1659461	76	4.4	76	94	0	587	24	20	20	34	1.96
1658591--1659415	412	2.0	412	95	0	1474	28	16	18	36	1.93
1659591--1659658	3	22.3	3	79	8	75	39	1	0	58	1.07
1659625--1659669	22	2.0	22	82	0	54	44	2	2	51	1.26
1671152--1671298	73	2.0	73	98	0	285	28	18	22	30	1.97
1676018--1676074	21	2.7	21	83	0	69	14	17	40	28	1.88
1676174--1676225	21	2.5	21	93	0	86	26	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1676174--1676233	21	2.9	21	89	0	75	28	28	20	23	1.99
1676855--1676884	16	1.9	15	93	6	51	30	3	6	60	1.39
1677766--1677831	26	2.5	25	81	13	71	71	3	9	16	1.25
1677965--1677990	4	6.5	4	100	0	52	76	0	0	23	0.78
1678122--1678159	9	4.2	9	90	10	60	86	0	0	13	0.56
1678122--1678159	17	2.2	18	95	4	69	86	0	0	13	0.56
1680222--1680259	17	2.2	17	90	0	58	76	13	7	2	1.11
1686904--1686973	34	2.1	32	86	5	95	22	30	15	31	1.95
1687256--1687297	21	2.0	21	95	0	75	26	28	21	23	1.99
1687410--1687466	15	3.5	15	72	25	53	19	22	36	21	1.95
1687410--1687493	34	2.4	34	94	2	141	17	26	34	21	1.96
1690765--1690806	21	2.0	21	95	0	75	26	28	21	23	1.99
1690919--1691003	34	2.5	34	90	1	134	18	25	34	21	1.96
1691172--1691219	25	1.9	25	91	0	78	54	0	6	39	1.26
1693728--1693785	2	29.0	2	89	0	89	48	3	1	46	1.29
1695726--1695755	3	10.0	3	100	0	60	33	0	0	66	0.92
1697275--1697362	29	3.0	29	84	0	122	15	34	32	17	1.91
1697370--1697422	22	2.4	22	96	0	97	5	52	18	22	1.66
1697442--1697548	22	4.7	24	87	5	66	19	23	15	41	1.90
1697455--1697548	22	4.2	22	90	2	143	20	23	15	40	1.91
1699449--1699486	18	2.1	18	90	0	58	2	26	28	42	1.69
1701076--1701119	23	1.9	23	95	0	79	25	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1704839--1704911	20	3.5	21	70	9	60	31	15	5	47	1.67
1704942--1704981	21	1.9	21	85	10	55	35	10	2	52	1.48
1707308--1707343	18	1.9	19	94	5	65	33	0	2	63	1.08
1707351--1707384	17	2.0	17	100	0	68	17	0	41	41	1.50
1707559--1707608	15	3.3	15	69	20	50	38	0	12	50	1.40
1707522--1707626	30	3.4	30	88	2	147	40	0	11	48	1.39
1707681--1707714	15	2.2	16	94	5	61	38	0	5	55	1.24
1709510--1709551	17	2.5	17	88	0	66	54	2	0	42	1.13
1709453--1709582	60	2.2	59	90	5	199	47	6	3	42	1.46
1709679--1709958	14	21.3	14	70	21	160	43	8	2	45	1.47
1709666--1709980	26	12.7	26	77	12	263	44	7	2	45	1.46
1709766--1709810	23	2.1	21	88	12	65	37	4	2	55	1.32
1709699--1710000	100	3.1	96	82	10	300	45	8	1	43	1.46
1709792--1710057	124	2.2	123	86	6	369	46	9	1	41	1.46
1709947--1710028	27	3.1	27	91	5	123	53	13	0	32	1.40
1709968--1710052	8	9.3	9	72	23	63	51	12	0	35	1.40
1709983--1710051	35	2.0	35	91	0	111	53	13	0	33	1.39
1710259--1710570	49	6.3	49	95	0	534	46	12	0	41	1.44
1710486--1710566	18	4.8	18	67	14	55	44	9	0	45	1.37
1711483--1711544	17	3.4	17	73	16	61	48	11	0	40	1.39
1711617--1711643	14	1.9	14	100	0	54	74	14	3	7	1.18
1711614--1711646	17	1.9	17	88	11	50	72	15	3	9	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712030--1712092	28	2.2	30	94	5	112	57	12	0	30	1.36
1712034--1712099	28	2.4	28	87	10	107	56	12	0	31	1.36
1712069--1712117	21	2.3	21	85	3	71	53	16	0	30	1.43
1712554--1712662	29	3.8	29	86	4	114	14	31	30	23	1.95
1712540--1712676	58	2.4	58	81	4	152	13	30	33	22	1.92
1712573--1712676	29	3.6	29	86	2	138	13	30	33	22	1.92
1713411--1713477	34	1.9	34	82	14	84	46	19	13	20	1.83
1719042--1719071	15	2.0	15	93	0	51	56	0	0	43	0.99
1719831--1719863	12	2.8	12	100	0	66	45	36	9	9	1.68
1723367--1723423	29	2.0	29	82	6	71	50	5	7	36	1.52
1723862--1723893	16	2.1	15	94	5	55	65	0	15	18	1.27
1731148--1731190	21	2.0	21	90	0	68	34	9	27	27	1.88
1732212--1732267	24	2.4	24	81	3	69	37	19	17	25	1.94
1732260--1732310	23	2.2	24	85	3	68	25	21	31	21	1.98
1736918--1736983	23	2.9	23	93	0	114	34	21	21	22	1.96
1736890--1736983	23	4.1	23	83	0	98	32	23	20	23	1.97
1743320--1743367	24	1.9	26	87	8	73	52	2	2	43	1.24
1743386--1743553	37	4.8	37	79	12	178	43	4	2	48	1.39
1743399--1743533	36	4.0	31	77	17	101	43	3	3	48	1.38
1743399--1743527	66	1.9	68	90	6	210	42	3	3	49	1.39
1743612--1743667	29	1.9	29	81	0	67	51	10	1	35	1.47
1744318--1745019	84	8.4	84	81	4	805	25	19	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744297--1744949	165	3.9	168	87	3	840	24	19	25	30	1.98
1744297--1744949	334	2.0	333	84	4	870	24	19	25	30	1.98
1745058--1745511	84	5.5	83	80	5	490	25	20	24	30	1.98
1745025--1745346	165	2.0	165	92	0	545	25	20	24	30	1.98
1744630--1745410	389	2.0	391	90	1	1226	25	19	24	30	1.98
1745025--1745512	165	3.0	163	83	4	473	25	20	24	30	1.99
1745058--1745511	249	1.8	249	88	0	701	25	20	24	30	1.98
1750755--1750792	8	4.8	8	81	12	51	73	0	0	26	0.83
1752146--1752195	22	2.3	22	85	0	64	76	2	2	20	0.99
1752200--1752466	35	7.9	34	71	17	137	44	5	1	47	1.38

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18