genome.fa.s9592.2.7.7.80.10.50.1000.8.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  8  of  39  ( 4673 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)
1530881--1530922	20	2.1	20	86	0	57	35	19	9	35	1.84
1532100--1532159	30	1.9	32	83	6	79	46	0	15	38	1.45
1532777--1532815	19	2.0	21	90	10	64	43	0	20	35	1.52
1536090--1536161	31	2.3	31	90	0	108	26	11	8	54	1.64
1537491--1537527	18	2.1	18	90	10	58	67	0	0	32	0.91
1539352--1539430	3	26.7	3	80	16	94	64	0	1	34	1.02
1539339--1539421	27	3.2	25	83	11	105	59	0	1	39	1.05
1539353--1539429	24	3.0	26	87	10	115	63	0	1	35	1.03
1539350--1539431	27	3.2	25	83	14	112	64	0	1	34	1.01
1539351--1539430	14	5.6	14	81	8	90	65	0	1	33	1.01
1539571--1539940	73	5.1	73	92	1	582	37	12	18	31	1.88
1539983--1540470	164	3.0	164	93	0	805	38	12	12	36	1.81
1540988--1541041	22	2.5	22	93	0	90	37	12	14	35	1.85
1545682--1545751	7	9.6	7	74	20	63	1	18	0	80	0.80
1545676--1545741	30	2.2	30	89	5	98	1	18	0	80	0.79
1545684--1545747	8	8.4	8	79	10	62	1	17	0	81	0.77
1548761--1548805	20	2.2	20	84	0	54	62	4	11	22	1.46
1550869--1550973	56	1.9	55	98	2	201	18	20	25	36	1.95
1551253--1551300	20	2.4	20	89	10	80	60	4	4	31	1.35
1551253--1551300	19	2.4	20	93	6	80	60	4	4	31	1.35
1551963--1551998	18	2.0	18	89	10	56	66	0	0	33	0.92
1556044--1556210	90	1.8	90	88	3	255	16	8	20	54	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558523--1558569	18	2.6	19	83	10	62	63	0	8	27	1.23
1558726--1558855	66	2.0	63	94	5	226	33	22	14	29	1.94
1561341--1561383	22	2.0	22	86	8	63	39	0	4	55	1.20
1561390--1561468	39	2.0	41	80	9	92	44	0	3	51	1.19
1562508--1562557	24	2.0	25	96	3	93	12	28	12	48	1.76
1568656--1568703	20	2.5	20	82	3	62	60	8	16	14	1.57
1573248--1573311	34	1.9	34	84	9	87	57	6	15	20	1.59
1574545--1574608	24	2.7	23	78	4	74	9	18	37	34	1.83
1574838--1575422	140	4.3	139	83	5	697	28	21	16	33	1.95
1574876--1575422	273	2.0	275	87	2	785	28	21	17	33	1.95
1579455--1579483	14	2.0	15	93	6	51	0	17	0	82	0.66
1580003--1580383	186	2.0	189	97	1	723	23	18	14	43	1.87
1588759--1588883	61	2.0	61	100	0	250	22	25	14	37	1.92
1598104--1598167	23	2.8	23	82	0	83	39	26	18	15	1.91
1599360--1599482	59	2.0	63	90	7	200	39	22	4	33	1.73
1608026--1608107	30	2.7	30	73	17	80	52	7	3	36	1.47
1608499--1608541	3	15.3	3	86	13	65	34	0	0	65	0.93
1609112--1609157	19	2.5	19	86	10	60	10	2	2	84	0.79
1611107--1611748	199	3.2	199	92	1	1036	31	15	15	37	1.88
1613192--1613247	24	2.3	24	81	6	69	50	14	5	30	1.65
1616120--1616158	20	2.0	20	89	0	60	35	15	10	38	1.81
1621040--1621088	24	2.0	24	88	4	71	42	6	0	51	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1623123--1623579	162	2.7	161	86	6	547	28	15	12	43	1.83
1626108--1626177	3	22.3	3	77	13	54	34	0	0	65	0.93
1626108--1626176	15	4.6	16	79	15	76	34	0	0	65	0.93
1626107--1626168	11	5.7	11	75	21	60	37	0	0	62	0.95
1627101--1627144	10	4.7	9	78	10	52	18	0	2	79	0.83
1627100--1627144	19	2.4	19	85	7	56	17	0	2	80	0.82
1627094--1627144	20	2.6	19	78	9	57	19	0	1	78	0.85
1627940--1627994	22	2.5	21	82	11	65	25	1	25	47	1.62
1629492--1629534	2	21.5	2	100	0	86	51	0	0	48	1.00
1630822--1631149	37	8.8	37	79	11	291	44	4	3	47	1.40
1631826--1632621	84	9.5	84	84	2	976	24	18	23	33	1.97
1631829--1632621	251	3.2	251	88	2	1094	24	18	23	33	1.97
1634740--1634828	42	2.2	40	80	11	101	34	23	16	24	1.95
1634861--1635156	41	7.2	41	80	4	310	27	17	20	35	1.94
1634887--1635155	125	2.2	123	82	5	310	26	17	19	36	1.94
1638881--1639420	43	12.7	43	84	1	698	28	20	18	32	1.97
1638881--1639420	85	6.4	84	85	3	656	28	20	18	32	1.97
1642069--1642099	4	7.8	4	100	0	62	77	0	0	22	0.77
1642699--1642733	16	2.1	16	94	5	61	82	0	11	5	0.82
1643628--1643655	6	4.7	6	100	0	56	71	0	0	28	0.86
1645062--1645364	36	8.0	37	80	13	289	43	6	3	46	1.45
1645062--1645379	113	2.8	109	82	10	336	44	6	3	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645062--1645379	75	4.2	75	80	9	326	44	6	3	46	1.45
1646270--1646310	19	2.2	19	86	8	57	39	0	4	56	1.21
1647849--1647903	2	27.5	2	100	0	110	49	0	0	50	1.00
1652128--1652170	20	2.2	20	87	4	61	41	9	16	32	1.80
1652126--1652165	20	2.0	20	95	0	71	37	7	20	35	1.81
1652181--1652261	23	3.6	22	78	8	92	24	24	25	24	2.00
1660085--1660125	21	2.0	21	90	0	64	31	17	21	29	1.96
1660359--1660414	18	2.9	19	81	5	60	46	8	12	32	1.73
1662432--1662499	34	2.0	33	82	2	82	26	25	16	32	1.96
1663163--1663836	139	4.8	139	84	3	698	26	16	26	30	1.97
1673800--1673835	17	2.1	17	100	0	72	50	5	25	19	1.69
1674769--1674902	60	2.2	60	80	5	155	44	4	19	31	1.70
1674799--1674904	29	3.6	29	75	15	92	45	3	16	33	1.66
1676360--1676495	5	26.0	5	82	14	168	41	0	2	55	1.17
1676541--1676584	16	2.6	17	85	7	54	40	6	2	50	1.42
1683755--1683843	39	2.3	39	96	0	160	28	21	29	21	1.98
1683834--1683886	18	2.9	18	94	0	88	18	35	20	24	1.95
1686583--1686673	4	22.8	4	86	0	119	17	0	57	25	1.40
1686671--1686743	8	9.6	8	82	11	82	12	0	38	49	1.41
1686676--1686743	12	5.7	12	89	0	91	11	0	38	50	1.39
1686676--1686743	20	3.4	20	93	0	118	11	0	38	50	1.39
1686671--1686738	28	2.4	28	100	0	136	11	0	38	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693368--1693405	18	2.2	17	86	13	60	55	0	44	0	0.99
1693371--1693404	6	5.8	6	96	3	61	52	0	47	0	1.00
1694687--1694748	32	1.9	32	93	0	106	46	6	3	43	1.45
1696154--1696249	21	5.2	21	64	31	76	43	20	5	30	1.74
1696106--1696250	35	4.1	35	94	2	238	44	20	4	31	1.72
1696121--1696285	70	2.3	70	86	8	228	43	18	6	31	1.76
1700732--1700850	34	3.4	34	85	13	152	43	18	5	32	1.72
1700949--1701028	41	2.1	37	86	9	106	25	16	23	35	1.95
1701897--1701940	21	2.1	21	83	4	54	34	2	2	61	1.21
1702018--1702065	20	2.4	20	85	0	69	50	0	2	47	1.12
1708280--1708317	17	2.2	18	86	13	53	68	10	2	18	1.30
1708291--1708333	22	2.0	22	81	9	52	76	4	0	18	0.95
1709086--1709149	23	2.8	23	73	0	74	31	23	25	20	1.98
1715920--1715980	23	2.7	23	78	0	68	34	21	24	19	1.96
1721575--1721676	42	2.5	41	80	3	123	32	20	23	23	1.98
1721328--1722071	256	2.9	257	89	1	1125	35	16	14	33	1.89
1723936--1723996	30	2.0	30	96	0	113	19	14	27	37	1.91
1724029--1724087	7	8.6	7	75	16	52	1	20	0	77	0.85
1724029--1724078	20	2.6	18	82	17	64	2	20	0	78	0.86
1724029--1724087	27	2.1	28	87	9	86	1	20	0	77	0.85
1724390--1724802	205	2.0	208	94	1	724	35	13	14	37	1.85
1728816--1728908	32	2.9	32	82	4	100	34	21	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729200--1729244	23	1.9	24	86	13	67	40	22	0	37	1.54
1738698--1738977	140	2.0	140	99	0	551	28	17	22	31	1.97
1739020--1739174	78	2.0	77	98	1	301	32	21	16	29	1.95
1746082--1746120	21	1.9	20	84	5	51	69	17	0	12	1.19
1748770--1748794	12	2.1	12	100	0	50	24	16	16	44	1.86
1770042--1770078	18	2.0	19	89	5	58	2	5	37	54	1.38
1770287--1770405	59	2.0	59	83	0	148	31	15	25	27	1.96
1770763--1771007	103	2.4	103	91	1	402	38	11	13	35	1.81
1770963--1771935	36	25.9	37	70	10	553	38	11	16	33	1.85
1770962--1771927	75	12.9	74	81	6	919	38	11	16	33	1.85

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39