genome.fa.s8243.2.7.7.80.10.50.1000.10.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   40   41   42   43   44   45   46   47   48   
          49   

This is table  10  of  49  ( 5786 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)
1582704--1582804	10	10.1	10	71	11	55	81	2	6	8	0.97
1582733--1582809	6	13.7	6	73	17	51	81	2	3	11	0.92
1582733--1582874	16	8.6	16	69	21	64	76	2	3	18	1.04
1582706--1582809	30	3.6	28	79	14	104	81	2	5	9	0.95
1582735--1582854	32	3.7	30	75	14	89	78	2	4	15	1.01
1584104--1584358	37	6.8	37	83	7	275	44	7	4	43	1.52
1584071--1584344	75	3.7	72	80	11	252	45	7	3	43	1.49
1584240--1584264	11	2.3	11	100	0	50	44	8	8	40	1.63
1584363--1584452	39	2.4	37	83	12	103	43	6	5	44	1.53
1584437--1584483	2	24.0	2	82	4	60	57	0	0	42	0.98
1584267--1584466	95	2.1	98	82	11	243	45	6	5	43	1.50
1584445--1584487	8	5.4	8	97	0	77	60	0	0	39	0.97
1585082--1585888	84	9.7	85	73	9	435	25	19	24	30	1.98
1585089--1585888	249	3.2	249	87	1	1100	26	19	24	30	1.98
1592388--1592431	17	2.5	17	88	3	61	72	0	4	22	1.02
1592466--1592843	39	9.7	38	73	16	206	44	6	3	44	1.49
1592467--1592843	37	9.7	37	74	18	270	45	6	3	44	1.49
1592607--1592640	10	3.3	10	92	8	59	38	8	8	44	1.67
1592607--1592641	11	3.3	11	96	4	63	40	8	8	42	1.66
1592584--1592678	48	2.0	48	85	10	131	44	7	5	43	1.54
1592621--1592840	73	3.0	73	84	11	290	44	6	4	44	1.49
1601125--1601163	17	2.3	17	86	8	53	66	2	0	30	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610334--1610556	64	3.5	64	82	1	232	31	21	19	26	1.98
1610866--1610900	12	2.9	12	100	0	70	34	0	25	40	1.56
1610916--1610989	29	2.6	29	97	2	141	43	16	21	18	1.88
1615056--1615093	20	1.9	20	88	0	58	10	31	34	23	1.89
1615120--1615161	21	2.0	21	85	0	57	16	26	28	28	1.97
1620729--1620773	23	2.0	23	86	0	63	26	26	26	20	1.99
1621418--1621455	20	1.9	20	88	0	58	10	31	34	23	1.89
1621482--1621523	21	2.0	21	85	0	57	16	26	28	28	1.97
1625713--1625853	64	2.2	64	86	5	187	32	19	19	28	1.96
1626226--1626260	12	2.9	12	100	0	70	34	0	25	40	1.56
1626276--1626347	29	2.5	29	95	2	128	44	16	19	19	1.87
1626434--1626466	15	2.2	15	94	0	57	15	21	33	30	1.94
1634218--1634277	26	2.3	26	82	2	68	28	5	16	50	1.66
1634436--1634463	3	9.3	3	100	0	56	32	0	0	67	0.91
1643443--1643498	22	2.5	22	100	0	112	26	32	28	12	1.93
1645683--1645778	32	3.0	32	87	3	149	22	29	30	17	1.97
1647415--1647452	19	2.0	20	85	10	53	57	10	13	18	1.63
1649831--1649922	32	2.9	31	76	12	82	25	23	29	21	1.99
1651808--1651841	17	2.0	17	88	0	50	23	8	20	47	1.78
1651831--1651891	27	2.3	27	88	0	95	24	3	18	54	1.58
1655526--1655560	3	11.7	3	93	0	61	31	2	0	65	1.07
1657063--1657352	135	2.1	134	80	12	310	44	7	7	40	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1658881--1658960	3	26.3	3	76	2	70	57	5	0	37	1.21
1659196--1659443	45	5.5	45	95	0	433	33	18	22	24	1.97
1659287--1659701	166	2.5	162	88	3	598	34	20	21	23	1.97
1659452--1659608	45	3.5	45	86	1	208	34	21	20	24	1.97
1659332--1659564	121	1.9	120	93	0	403	35	20	21	23	1.96
1659118--1659608	256	1.9	254	92	1	822	35	19	21	23	1.96
1659543--1659683	74	1.9	73	82	4	176	34	21	19	24	1.97
1660779--1660976	54	3.7	54	86	1	272	25	22	14	38	1.91
1660766--1660982	108	2.0	109	88	2	321	26	22	13	37	1.91
1661957--1662086	36	3.5	35	74	16	109	33	19	13	33	1.90
1669201--1669286	43	2.0	44	88	2	129	33	19	12	33	1.90
1673834--1673913	3	26.3	3	74	2	70	56	2	1	40	1.21
1676613--1676715	36	2.7	39	80	14	124	44	4	0	50	1.23
1689689--1689839	76	2.0	75	97	1	284	25	27	19	27	1.99
1691095--1691202	54	2.0	54	100	0	216	24	14	29	31	1.95
1692956--1692985	2	15.0	2	100	0	60	50	0	0	50	1.00
1695129--1695345	112	1.9	114	89	3	341	24	13	37	24	1.91
1695162--1695345	57	3.3	57	93	3	309	23	14	38	23	1.91
1695297--1695495	33	6.4	33	73	14	165	25	13	35	26	1.93
1695385--1695495	32	3.4	32	83	1	141	24	13	36	26	1.92
1695297--1695882	111	5.1	120	79	8	397	24	12	36	26	1.91
1695449--1695963	55	9.3	57	86	5	642	24	12	36	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695661--1695773	33	3.7	33	71	21	120	25	13	34	26	1.93
1695694--1695740	24	2.0	24	86	0	67	25	10	36	27	1.89
1695449--1695963	277	1.9	280	93	5	902	24	12	36	26	1.91
1695321--1695963	223	2.9	225	84	7	774	24	12	35	26	1.92
1696061--1696120	22	2.6	23	87	7	86	26	15	36	21	1.93
1705783--1705839	23	2.4	24	91	5	89	49	5	10	35	1.60
1708739--1708780	21	2.0	21	95	0	75	23	21	28	26	1.99
1708809--1708848	20	1.9	21	85	10	55	37	37	10	15	1.80
1717331--1717382	26	2.0	26	84	0	68	44	11	42	1	1.51
1717545--1717598	14	3.8	14	85	2	72	62	0	5	31	1.18
1722831--1722871	3	13.3	3	94	5	73	31	0	0	68	0.90
1730204--1730243	19	2.1	19	85	0	53	55	15	15	15	1.71
1733370--1733408	18	2.2	18	95	0	69	23	20	30	25	1.98
1734655--1734697	21	2.0	21	95	0	77	37	16	23	23	1.94
1735077--1735137	25	2.5	24	82	10	70	40	1	0	57	1.08
1735333--1735370	15	2.6	15	83	4	51	34	2	0	63	1.09
1738304--1738338	16	2.1	17	94	5	63	22	0	20	57	1.41
1749813--1749846	17	2.0	17	100	0	68	47	5	5	41	1.52
1750417--1750643	38	6.1	38	71	17	120	42	4	9	44	1.56
1750458--1750643	38	5.0	38	76	10	170	43	3	9	44	1.54
1750472--1750666	36	5.3	36	74	12	128	46	2	6	44	1.43
1750616--1750678	27	2.4	25	76	12	63	49	0	6	44	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750689--1750795	34	3.2	33	83	10	128	46	6	3	42	1.47
1750788--1750860	32	2.3	33	80	4	87	47	1	9	41	1.44
1750853--1750884	9	3.8	9	88	12	50	43	0	0	56	0.99
1750853--1750906	18	3.0	18	78	13	58	40	0	0	59	0.98
1752063--1752093	12	2.6	12	100	0	62	35	0	12	51	1.40
1752128--1752171	15	3.0	14	78	21	54	20	9	0	70	1.14
1752298--1752339	19	2.3	18	88	8	59	26	4	4	64	1.33
1757546--1758259	83	8.7	82	79	5	671	30	24	19	25	1.98
1757546--1758259	244	2.9	244	90	3	1103	30	24	19	25	1.98
1758942--1759177	36	6.6	37	71	22	152	44	3	8	44	1.50
1758971--1759245	32	8.1	34	71	19	120	44	4	6	45	1.48
1759110--1759239	61	2.1	63	81	11	153	43	5	5	46	1.49
1759076--1759243	33	5.1	32	77	17	125	44	4	4	46	1.45
1759170--1759315	67	2.1	69	81	9	167	45	4	7	42	1.51
1760500--1760585	34	2.5	33	75	18	79	23	5	2	68	1.23
1760704--1760745	21	2.0	21	85	4	57	19	11	4	64	1.44
1767838--1767891	24	2.2	24	86	0	72	22	18	16	42	1.89
1770421--1770540	33	3.6	33	95	0	213	46	18	23	11	1.81
1770423--1770545	19	7.3	18	65	25	81	46	18	24	10	1.81
1770570--1770624	19	2.9	19	100	0	110	14	20	16	49	1.80
1772622--1772743	19	6.6	19	78	11	128	48	21	18	12	1.80
1772598--1772707	39	2.8	40	83	5	127	50	20	18	10	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1772749--1772857	19	5.9	19	81	11	138	7	16	24	51	1.70
1772955--1773366	91	4.6	92	88	8	591	46	19	12	21	1.82
1775041--1775183	19	7.9	20	70	23	95	46	20	20	11	1.83
1775039--1775183	33	4.1	37	73	18	112	46	20	21	11	1.82
1775047--1775183	52	2.6	52	86	3	177	45	21	21	11	1.83
1775179--1775286	20	5.5	19	85	3	108	11	17	21	50	1.77
1775190--1775286	20	4.8	20	83	8	117	11	18	19	50	1.77
1775810--1775901	20	4.6	20	82	5	96	21	21	19	36	1.95
1775810--1775901	41	2.3	40	92	1	148	21	21	19	36	1.95
1775825--1775922	41	2.4	41	85	0	124	26	20	19	33	1.96

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   40   41   42   43   44   45   46   47   48   
          49