genome.fa.s7825.2.7.7.80.10.50.1000.9.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: VEPZ01007825.1 Hibiscus syriacus cultivar Beakdansim tig00110163_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2082551

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  9  of  11  ( 1245 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)
1536024--1536098	35	2.1	35	90	0	114	34	0	21	44	1.53
1545716--1545753	19	2.0	19	90	10	60	55	7	0	36	1.29
1546049--1546119	35	2.0	35	100	0	142	36	5	8	49	1.57
1547493--1547530	18	2.2	17	90	4	58	18	36	26	18	1.94
1547596--1547657	10	5.9	11	69	17	51	56	1	1	40	1.19
1547764--1547859	7	13.7	7	70	8	63	41	29	3	26	1.71
1547797--1547856	28	2.1	28	84	0	75	46	26	1	25	1.62
1548539--1548575	7	5.3	7	96	0	65	45	37	0	16	1.47
1548536--1548584	21	2.3	20	73	10	53	51	28	0	20	1.48
1548625--1548718	11	8.5	11	81	9	95	29	17	24	28	1.97
1548626--1548718	22	4.2	21	82	8	105	30	17	24	27	1.97
1548626--1548718	33	2.8	33	83	6	125	30	17	24	27	1.97
1554352--1554403	27	2.0	26	84	3	68	23	5	1	69	1.20
1570303--1570355	17	3.2	17	68	10	56	32	3	5	58	1.39
1570307--1570369	32	2.0	32	90	0	99	33	6	7	52	1.56
1578567--1578613	2	23.5	2	95	0	85	51	0	2	46	1.13
1581746--1581795	13	3.8	13	80	17	50	56	6	0	38	1.24
1592231--1592269	5	7.2	6	83	16	50	33	51	15	0	1.44
1593394--1593433	21	2.0	20	95	5	71	45	17	17	20	1.86
1593391--1593458	21	3.3	20	83	8	66	42	17	19	20	1.89
1593808--1593896	20	4.4	20	84	6	108	21	19	16	42	1.89
1593808--1593896	41	2.2	40	84	6	108	21	19	16	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593828--1593941	20	5.7	20	78	12	74	19	17	21	42	1.90
1593933--1593980	21	2.4	21	89	6	73	37	16	22	22	1.94
1596099--1596147	21	2.3	22	85	3	64	30	0	18	51	1.47
1596117--1596171	25	2.2	26	86	3	76	30	0	16	52	1.44
1596147--1596236	40	2.2	40	81	13	96	43	1	7	47	1.39
1596649--1596700	15	3.1	15	73	23	50	40	0	11	48	1.40
1596976--1597033	25	2.3	26	76	8	66	43	12	10	34	1.76
1599752--1600226	26	19.2	26	75	13	324	43	2	9	44	1.49
1599694--1600210	124	4.2	124	94	1	889	43	2	9	44	1.48
1599752--1600226	14	35.1	14	69	18	149	43	2	9	44	1.49
1602586--1602616	15	2.1	14	94	5	53	54	6	0	38	1.26
1602591--1602637	16	3.0	16	84	9	53	59	10	0	29	1.31
1602678--1602759	34	2.5	34	83	13	93	48	13	0	37	1.42
1602799--1602932	44	3.1	44	79	15	138	49	11	0	38	1.40
1602929--1602974	22	2.0	24	91	8	78	39	8	2	50	1.46
1603114--1603166	21	2.5	21	96	0	97	1	35	0	62	1.06
1603137--1603168	17	1.9	16	93	6	55	0	37	0	62	0.95
1603171--1603216	23	2.0	23	100	0	92	8	39	4	47	1.54
1603333--1603388	27	2.1	27	100	0	112	25	21	25	28	1.99
1603461--1603569	29	3.8	29	90	2	166	22	30	31	16	1.96
1603623--1603657	13	2.8	13	95	4	63	14	37	17	31	1.89
1622432--1622478	22	2.1	23	92	4	78	23	34	8	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1623305--1623348	22	2.0	22	81	0	52	40	18	20	20	1.91
1623406--1623458	21	2.5	21	87	0	88	28	30	20	20	1.98
1625756--1625785	3	9.7	3	92	7	51	66	0	0	33	0.92
1627799--1627983	31	6.0	31	97	1	336	38	22	19	19	1.93
1628636--1628680	21	2.1	21	83	0	54	13	24	31	31	1.93
1629400--1629485	23	3.7	23	77	0	100	18	25	23	32	1.97
1629958--1630006	23	2.2	22	92	3	80	75	0	2	22	0.90
1630634--1630696	19	3.2	19	75	4	54	55	12	0	31	1.37
1630599--1630801	64	3.0	65	76	19	182	59	10	1	28	1.41
1635645--1635693	15	3.3	15	91	0	80	6	22	24	46	1.74
1637354--1637394	21	1.9	22	90	5	66	75	0	4	19	0.98
1637985--1638184	65	2.9	68	79	16	223	58	11	1	28	1.42
1638028--1638177	76	2.0	76	89	5	232	60	10	2	27	1.41
1639007--1639090	24	3.5	24	85	1	116	29	26	25	19	1.98
1639202--1639245	23	1.9	23	85	0	61	27	25	29	18	1.98
1644238--1644282	22	2.0	23	87	12	67	24	28	6	40	1.80
1644433--1644500	29	2.3	29	89	0	100	25	5	32	36	1.80
1644558--1644628	28	2.5	28	95	2	124	8	0	25	66	1.20
1645184--1645226	21	2.0	21	95	0	77	27	25	23	23	2.00
1645239--1645325	21	4.2	21	78	14	99	21	20	26	31	1.98
1645443--1645479	6	6.5	6	96	3	60	29	54	16	0	1.43
1645961--1645991	5	6.4	5	96	3	55	0	41	22	35	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645992--1646065	6	12.5	6	98	1	141	0	16	51	32	1.45
1646234--1646537	41	7.4	40	82	12	284	23	22	21	32	1.98
1646255--1646578	62	5.2	61	81	10	290	23	21	22	31	1.98
1646256--1646564	145	2.1	145	86	5	430	23	22	22	32	1.98
1646210--1646537	104	3.2	103	86	7	461	23	22	21	32	1.98
1646256--1646578	21	15.6	21	75	17	266	23	21	22	31	1.98
1646236--1646578	83	4.1	82	80	10	344	23	21	22	32	1.98
1651941--1652958	507	2.0	507	99	0	2018	26	18	19	36	1.94
1659320--1659344	2	12.5	2	100	0	50	52	0	0	48	1.00
1660253--1660289	16	2.2	18	90	9	60	67	0	0	32	0.91
1660583--1660649	3	23.0	3	79	11	77	40	0	0	59	0.97
1661932--1661971	16	2.4	17	83	8	55	25	2	0	72	0.97
1661932--1661974	12	3.3	13	90	6	61	25	2	0	72	0.97
1661932--1661974	14	3.1	14	86	10	61	25	2	0	72	0.97
1661975--1662009	16	2.2	16	90	10	54	60	0	0	40	0.97
1662159--1662208	20	2.5	19	84	9	64	32	0	2	66	1.03
1662788--1662845	28	2.2	26	81	6	62	32	3	1	62	1.22
1672092--1672168	22	3.5	22	96	0	145	33	11	14	40	1.82
1672845--1673178	76	4.4	76	97	0	614	22	20	22	35	1.96
1673338--1673401	3	22.0	3	75	12	62	40	1	0	57	1.08
1673338--1673401	20	3.3	20	85	12	89	40	1	0	57	1.08
1674643--1674682	16	2.4	17	83	8	55	25	2	0	72	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1674643--1674685	12	3.3	13	90	6	61	25	2	0	72	0.97
1674643--1674685	14	3.1	14	86	10	61	25	2	0	72	0.97
1674868--1674916	20	2.5	19	83	9	62	30	0	2	67	1.02
1674972--1675026	27	2.0	27	82	6	67	47	1	1	49	1.23
1676698--1676738	19	2.2	19	86	0	55	17	19	12	51	1.76
1680047--1680109	2	31.5	2	100	0	126	49	0	0	50	1.00
1682791--1682836	20	2.3	20	92	0	74	28	10	21	39	1.87
1685391--1685563	90	1.9	89	94	1	301	38	11	6	43	1.68
1686836--1686909	19	3.8	19	75	7	58	40	17	6	35	1.76
1686979--1687023	20	2.2	20	84	7	56	44	8	2	44	1.47
1687888--1687912	2	12.5	2	100	0	50	52	0	0	48	1.00
1692791--1692858	3	22.7	3	100	0	136	66	0	0	33	0.92
1701811--1701842	2	16.5	2	93	6	57	50	0	0	50	1.00
1701814--1701839	13	2.0	13	100	0	52	46	0	0	53	1.00
1701812--1701841	15	2.0	15	100	0	60	46	0	0	53	1.00
1705732--1705836	47	2.2	47	83	6	133	26	14	14	44	1.83
1705882--1705926	21	2.1	21	88	8	65	55	0	6	37	1.26
1732661--1732732	36	2.0	36	100	0	144	44	2	19	33	1.65
1736539--1736595	28	2.0	28	93	0	96	24	21	36	17	1.94
1736614--1736722	29	3.8	29	93	2	175	15	31	31	22	1.95
1736798--1736853	27	2.1	27	100	0	112	28	25	21	25	1.99
1736999--1737044	23	2.0	23	100	0	92	47	4	39	8	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1736999--1737059	23	2.6	23	86	5	59	50	6	36	6	1.54
1737239--1737330	46	2.0	48	87	8	136	41	0	11	46	1.41
1737371--1737447	34	2.3	33	81	14	88	40	0	12	46	1.42
1739783--1739850	28	2.4	28	85	9	102	55	10	0	33	1.34
1739820--1739868	21	2.3	21	85	3	71	53	16	0	30	1.43
1739971--1740003	15	2.3	15	89	5	50	3	24	0	72	0.98
1740480--1740541	29	2.1	29	96	0	115	17	33	32	16	1.92
1746541--1746577	16	2.2	17	90	4	58	59	27	2	10	1.44
1747070--1747103	14	2.4	14	85	0	50	29	5	0	64	1.17
1747400--1747473	21	3.5	21	72	17	64	27	0	22	50	1.50

Tables:   1   2   3   4   5   6   7   8   9   10   11