genome.fa.s8425.2.7.7.80.10.50.1000.9.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1340 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)
1607547--1607600	23	2.3	23	93	0	90	33	22	7	37	1.82
1608364--1608579	54	4.0	54	80	2	236	29	17	23	29	1.97
1610408--1610504	51	1.9	50	80	4	113	21	28	27	21	1.99
1610671--1610718	20	2.4	19	83	10	60	25	25	0	50	1.50
1610743--1610787	23	2.0	22	87	12	65	33	0	2	64	1.06
1610748--1610795	18	2.8	17	87	9	71	33	0	2	64	1.05
1613122--1613199	35	2.2	35	80	15	90	29	7	8	53	1.60
1618005--1618127	31	3.9	32	78	14	132	30	18	19	31	1.96
1618002--1618131	62	2.1	61	83	12	160	30	19	19	31	1.96
1618115--1618186	30	2.4	30	92	0	117	26	19	23	30	1.98
1619533--1619659	49	2.6	49	81	5	139	25	27	22	25	2.00
1623044--1623084	20	2.0	20	85	0	55	26	29	2	41	1.69
1623103--1623170	24	3.0	23	74	19	63	33	0	1	64	1.02
1623101--1623165	8	8.0	8	72	16	53	33	0	1	64	1.03
1623124--1623165	17	2.4	19	80	15	54	33	0	2	64	1.07
1623884--1624266	193	2.0	193	94	0	667	26	18	19	36	1.94
1627699--1627760	32	1.9	32	81	12	74	56	8	0	35	1.29
1628339--1628372	15	2.3	15	90	5	52	38	0	2	58	1.13
1629120--1629158	16	2.4	16	86	4	51	35	0	2	61	1.10
1633671--1633720	21	2.4	21	80	12	66	24	0	6	70	1.10
1647900--1647930	5	6.0	5	96	3	53	0	19	58	22	1.40
1648019--1648085	19	3.3	19	69	15	53	32	22	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648027--1648181	23	6.8	23	79	12	178	38	23	19	19	1.94
1648027--1648181	42	3.4	46	83	11	187	38	23	19	19	1.94
1648043--1648184	73	2.0	69	87	5	203	38	23	18	19	1.93
1650984--1653028	292	7.0	291	92	1	3284	28	17	13	40	1.88
1650984--1653028	872	2.3	874	93	1	3451	28	17	13	40	1.88
1650984--1653028	581	3.5	581	92	1	3314	28	17	13	40	1.88
1661876--1661910	18	1.9	18	88	0	52	40	0	0	60	0.97
1662413--1662450	14	2.7	14	87	0	58	23	39	28	7	1.83
1662517--1662592	29	2.6	29	93	0	125	22	26	38	13	1.91
1663143--1663186	10	4.4	10	77	11	54	20	6	4	68	1.31
1663162--1663254	23	4.0	23	82	8	89	16	7	13	62	1.53
1663212--1663254	10	4.0	10	77	16	50	9	6	20	62	1.48
1663190--1663293	24	4.4	24	75	2	93	13	10	16	59	1.60
1663704--1663794	45	2.0	45	93	0	155	40	10	6	41	1.66
1664154--1664214	31	2.1	30	84	9	81	59	1	0	39	1.08
1664816--1664869	28	2.0	27	85	7	74	25	5	7	61	1.45
1670225--1670254	15	1.9	16	93	6	53	50	3	0	46	1.18
1672085--1672117	16	2.0	17	88	5	50	51	0	0	48	1.00
1672263--1672294	4	8.0	4	100	0	64	75	0	0	25	0.81
1672323--1672398	11	6.5	11	71	23	50	63	3	3	28	1.30
1672374--1672433	15	4.1	14	78	19	61	68	0	5	26	1.10
1673899--1673949	2	25.5	2	100	0	102	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1674026--1674050	3	8.3	3	100	0	50	32	0	0	68	0.90
1675545--1675606	23	2.6	23	89	5	97	50	20	0	29	1.49
1675545--1675611	25	2.8	24	86	9	84	49	20	1	28	1.58
1682661--1682697	18	2.1	18	100	0	74	21	13	21	43	1.87
1682800--1682845	24	1.9	24	90	0	74	10	26	13	50	1.74
1684351--1684478	39	3.4	39	86	11	205	28	17	12	41	1.86
1684361--1684467	34	3.0	35	90	6	162	31	18	11	38	1.86
1686550--1686684	72	1.9	71	82	10	168	33	14	14	37	1.88
1703253--1703357	29	3.6	29	93	0	165	22	27	34	15	1.94
1716017--1716113	33	2.8	33	77	10	97	43	0	0	56	0.99
1717820--1717919	42	2.4	41	77	3	101	21	35	19	25	1.96
1717897--1717969	21	3.5	21	85	7	94	19	31	24	24	1.98
1718491--1718597	34	3.1	34	80	0	133	52	5	3	38	1.43
1721620--1721658	21	1.9	19	85	10	51	64	5	2	28	1.28
1722760--1722814	16	3.5	15	75	18	58	61	0	0	38	0.96
1722760--1722818	31	1.9	31	86	6	84	61	0	0	38	0.96
1725833--1725861	13	2.3	13	94	5	51	13	58	17	10	1.62
1725908--1725968	24	2.5	26	77	17	69	55	0	0	44	0.99
1725926--1725965	19	2.1	19	85	0	53	55	0	0	45	0.99
1725966--1726031	12	5.6	12	78	10	73	28	46	12	12	1.77
1727865--1727889	2	12.5	2	100	0	50	52	0	0	48	1.00
1728337--1728383	14	3.3	14	77	14	51	36	2	4	57	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728470--1728514	23	2.1	22	84	12	58	46	0	0	53	1.00
1728643--1728703	26	2.3	25	79	20	70	45	1	6	45	1.39
1728672--1728728	23	2.4	25	82	5	64	43	0	5	50	1.24
1729162--1729300	44	3.2	44	90	4	205	33	16	17	33	1.92
1735621--1735693	20	3.5	20	74	17	69	30	19	13	36	1.90
1737599--1737633	16	2.2	16	89	0	52	17	0	25	57	1.40
1737592--1737643	25	2.1	25	85	7	70	19	0	26	53	1.45
1739307--1739347	20	2.0	21	85	4	57	43	7	7	41	1.60
1741422--1741455	2	17.0	2	100	0	68	50	0	0	50	1.00
1741573--1741665	43	2.2	42	78	14	102	53	2	2	41	1.25
1742162--1742222	24	2.5	24	100	0	122	50	0	0	49	1.00
1745161--1745276	56	2.1	56	88	4	173	41	13	18	26	1.88
1746629--1746670	15	2.9	15	96	3	77	33	7	21	38	1.81
1746682--1746720	14	2.8	14	92	0	60	35	17	12	33	1.88
1746966--1747028	23	2.7	23	85	5	72	47	0	1	50	1.10
1746988--1747028	12	3.4	12	81	18	50	46	0	0	53	1.00
1747004--1747056	20	2.7	20	75	16	56	49	1	0	49	1.12
1747012--1747123	28	3.9	29	75	16	101	52	0	0	46	1.06
1747288--1747403	42	2.8	42	96	1	207	46	19	17	16	1.84
1747712--1747827	42	2.8	42	95	0	214	16	18	19	44	1.86
1748016--1748087	12	6.2	12	70	15	53	51	0	0	48	1.00
1748009--1748079	24	3.0	23	78	15	65	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748036--1748087	24	2.2	24	89	0	77	51	0	0	48	1.00
1748106--1748152	24	2.0	23	83	4	58	40	0	2	57	1.11
1748042--1748145	54	1.9	53	83	12	133	49	0	0	49	1.14
1748025--1748197	29	5.9	29	70	20	112	46	1	1	51	1.16
1748363--1748432	20	3.5	20	94	0	122	35	12	10	41	1.77
1748363--1748441	40	2.0	40	87	0	113	35	13	8	41	1.76
1748425--1748496	15	4.9	15	91	1	119	36	20	6	36	1.80
1748415--1748496	30	2.8	30	92	1	130	35	18	7	39	1.78
1753541--1753873	44	7.6	42	87	5	237	34	21	23	20	1.96
1753577--1753881	44	7.0	44	90	1	452	34	21	24	19	1.96
1756707--1756738	13	2.5	13	100	0	64	18	21	43	15	1.87
1758711--1758973	87	3.0	87	93	0	427	33	22	24	19	1.97
1758716--1758973	131	2.0	132	92	0	428	33	22	24	19	1.97
1758716--1758973	44	5.9	44	94	0	428	33	22	24	19	1.97
1763738--1764046	44	7.1	43	92	1	483	31	22	25	20	1.98
1763743--1764046	87	3.5	87	92	1	502	31	22	25	20	1.98
1768075--1768134	30	2.0	30	90	6	95	35	6	15	43	1.72
1768214--1768353	21	6.8	21	72	11	69	26	31	17	24	1.97
1768299--1768353	20	2.7	21	94	2	94	20	34	18	27	1.95
1768718--1768787	34	2.1	32	86	5	95	31	15	30	22	1.95
1769648--1769695	19	2.5	20	82	3	62	52	6	12	29	1.63
1770842--1770881	21	1.9	21	94	0	71	32	10	7	50	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1770983--1771051	30	2.2	30	85	15	95	34	5	17	42	1.73
1770992--1771051	30	2.0	30	93	6	104	33	6	16	43	1.74
1771131--1771184	21	2.6	21	87	0	72	22	29	18	29	1.97
1771251--1771325	20	3.7	20	92	1	123	20	33	18	28	1.96
1771690--1771759	34	2.1	32	86	5	95	31	15	27	25	1.96
1772507--1772801	87	3.4	87	88	3	416	33	22	24	20	1.97
1772538--1772801	44	6.1	43	89	3	386	32	22	24	20	1.97
1777627--1777872	44	5.6	43	89	1	357	32	20	24	21	1.98
1777591--1777879	87	3.3	85	82	6	339	33	20	23	22	1.97
1777629--1777885	131	2.0	132	89	0	399	33	21	24	21	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12