genome.fa.s8953.2.7.7.80.10.50.1000.10.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: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2822058

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

This is table  10  of  15  ( 1787 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)
1516779--1516810	2	16.0	2	100	0	64	50	0	0	50	1.00
1517132--1517386	65	3.9	65	86	3	325	28	14	22	34	1.94
1517132--1517386	130	2.0	130	86	3	361	28	14	22	34	1.94
1520894--1520996	42	2.5	42	90	0	170	33	10	24	31	1.89
1520922--1520993	20	3.5	20	70	20	67	33	9	25	31	1.88
1520900--1520974	22	3.5	22	69	20	68	33	10	22	33	1.89
1521856--1521905	21	2.4	21	82	0	64	20	16	28	36	1.93
1521888--1521955	21	3.1	21	73	22	68	25	20	25	29	1.99
1525852--1525934	24	3.4	23	72	16	60	42	0	7	50	1.30
1528152--1528201	2	25.5	2	79	4	57	42	2	2	54	1.23
1531217--1531254	6	6.3	6	100	0	76	18	0	47	34	1.49
1536658--1536717	15	4.0	15	87	8	86	51	1	0	46	1.10
1536658--1536717	30	2.0	30	93	0	102	51	1	0	46	1.10
1536635--1536772	33	4.3	32	75	16	119	44	0	6	48	1.34
1536740--1536787	22	2.4	18	73	23	51	33	0	14	52	1.42
1536796--1537331	32	16.7	32	75	16	314	33	0	12	53	1.39
1536829--1536871	22	2.0	22	100	0	86	34	0	13	51	1.42
1536860--1536913	14	3.6	14	72	18	54	35	0	5	59	1.21
1536716--1537469	166	4.7	165	80	12	897	33	0	13	53	1.40
1536851--1537469	198	3.2	198	94	2	1065	33	0	12	53	1.39
1536995--1537037	22	2.0	22	95	0	77	37	0	11	51	1.39
1537070--1537129	18	3.6	18	71	17	65	31	0	11	56	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537049--1537299	80	3.0	83	87	9	357	33	0	12	53	1.39
1537193--1537235	22	2.0	22	100	0	86	34	0	13	51	1.42
1537238--1537349	18	6.4	18	66	22	60	35	0	9	54	1.34
1537337--1537454	26	4.5	25	69	21	89	29	0	16	53	1.44
1537278--1537475	80	2.5	80	94	0	351	33	0	13	53	1.40
1537342--1537491	40	3.8	40	73	14	157	31	0	14	54	1.41
1537484--1537542	31	1.9	31	89	0	91	44	10	5	40	1.60
1540818--1541293	252	1.9	252	93	0	826	25	15	23	36	1.93
1550192--1550249	22	2.7	22	81	2	64	44	8	0	46	1.34
1550955--1550993	15	2.4	16	79	12	53	33	0	0	66	0.92
1560334--1560765	213	2.0	213	98	0	839	37	28	7	26	1.83
1563710--1564243	252	2.2	246	84	10	697	28	11	18	41	1.86
1564617--1564663	18	2.7	18	86	3	69	27	29	8	34	1.87
1572119--1572277	77	2.1	77	97	2	302	60	15	11	12	1.59
1575851--1575929	38	2.1	38	85	0	104	43	6	8	41	1.61
1581857--1581891	3	11.7	3	88	11	54	68	0	31	0	0.90
1581855--1581888	11	3.2	11	83	8	52	70	0	29	0	0.87
1581857--1581893	14	2.7	14	91	4	58	70	0	29	0	0.88
1585451--1585508	26	2.2	26	81	6	73	77	0	6	15	0.97
1585471--1585536	10	6.6	10	71	13	55	78	0	4	16	0.90
1585461--1585520	6	9.5	6	76	8	57	78	0	8	13	0.96
1585458--1585516	26	2.3	27	80	14	70	77	0	10	11	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585514--1585543	4	7.2	4	92	7	51	73	0	3	23	0.98
1585628--1585663	12	2.8	13	83	8	56	83	11	0	5	0.80
1586383--1586482	37	2.7	37	87	0	137	31	14	13	42	1.83
1587218--1587851	106	6.0	106	88	3	861	22	17	24	35	1.95
1588669--1588723	22	2.5	22	100	0	110	23	12	27	36	1.91
1589327--1589399	7	10.6	7	77	11	62	0	9	6	83	0.81
1589327--1589393	8	8.5	8	77	11	59	0	10	5	83	0.80
1589330--1589392	16	3.9	16	80	12	67	0	11	6	82	0.83
1589334--1589411	35	2.2	38	75	20	73	0	12	7	79	0.93
1589326--1589400	26	2.7	26	82	13	80	0	10	8	81	0.88
1589365--1589407	22	2.0	23	86	9	63	0	13	9	76	1.01
1591155--1591199	22	2.0	22	82	4	54	13	35	15	35	1.87
1593885--1593913	2	14.5	2	100	0	58	51	0	0	48	1.00
1594730--1594834	37	2.8	37	86	0	147	30	15	14	40	1.87
1597296--1597360	18	3.4	18	76	12	76	46	16	6	30	1.72
1597284--1597360	39	2.0	39	100	0	154	46	18	6	28	1.73
1610962--1611001	21	2.0	21	90	5	64	27	27	10	35	1.89
1611471--1611515	16	2.9	16	86	3	56	66	0	24	8	1.20
1619578--1619933	91	4.1	88	92	7	579	36	14	9	39	1.79
1623668--1623733	28	2.3	29	79	7	73	56	0	1	42	1.08
1625376--1625417	17	2.4	18	88	4	59	52	0	0	47	1.00
1625387--1625437	17	3.0	17	82	5	50	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625619--1625650	2	16.0	2	100	0	64	50	0	0	50	1.00
1625991--1626155	64	2.7	60	88	5	233	29	32	12	26	1.93
1632357--1632410	27	2.0	27	85	7	74	25	33	14	25	1.95
1638975--1639016	21	2.0	21	90	0	66	47	9	23	19	1.78
1639982--1640021	20	2.0	20	85	0	53	35	27	20	17	1.95
1641861--1641974	35	3.2	36	77	6	133	28	16	17	37	1.92
1641885--1641977	36	2.6	36	79	5	116	30	19	13	36	1.91
1641872--1642000	35	3.7	35	75	13	113	30	16	15	37	1.90
1643493--1643530	13	2.9	13	88	7	51	52	0	0	47	1.00
1646638--1646706	21	3.3	21	95	0	120	30	21	8	39	1.84
1647182--1647297	36	3.2	36	80	9	146	25	18	20	36	1.95
1647195--1647323	35	3.6	36	73	13	104	27	17	18	35	1.94
1647183--1647323	72	2.0	72	84	2	185	26	17	19	36	1.94
1648232--1648286	18	3.1	17	84	7	56	27	21	25	25	2.00
1648252--1648451	65	3.1	63	79	13	167	27	19	23	30	1.98
1648923--1648967	2	22.5	2	100	0	90	51	0	0	48	1.00
1653084--1653446	180	2.0	182	98	1	712	39	19	10	31	1.85
1656069--1656117	19	2.7	17	84	9	53	26	20	28	24	1.99
1658854--1658920	31	2.2	31	100	0	134	31	17	23	26	1.97
1661017--1661077	29	2.0	32	81	9	74	29	18	13	39	1.88
1666604--1666888	143	2.0	143	94	0	498	25	14	17	42	1.88
1666832--1666946	53	2.2	53	88	1	167	30	15	15	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672520--1672574	19	2.9	19	88	0	74	25	36	18	20	1.94
1674386--1674424	15	2.6	15	100	0	78	41	12	28	17	1.87
1680347--1680385	19	2.1	19	95	0	69	20	38	15	25	1.92
1680333--1680495	65	2.5	65	85	3	222	30	26	15	26	1.96
1687279--1687675	54	7.4	54	83	2	474	32	21	19	26	1.97
1690300--1690332	16	2.1	16	94	0	57	57	21	0	21	1.41
1690464--1690602	31	4.5	31	72	16	92	36	9	22	31	1.86
1690513--1690575	28	2.3	28	94	2	110	34	7	22	34	1.83
1690526--1690650	62	2.1	59	82	8	146	38	11	20	29	1.88
1691409--1691452	24	1.9	22	90	9	70	45	6	13	34	1.70
1693940--1693996	29	2.0	29	82	6	71	42	8	1	47	1.45
1694137--1694254	63	1.9	62	79	11	134	47	16	5	31	1.68
1694694--1694776	42	2.0	42	97	0	157	27	4	10	56	1.54
1695552--1695601	18	3.0	17	86	11	68	22	2	10	66	1.32
1701281--1701317	19	1.9	19	88	0	56	18	27	18	35	1.95
1711223--1711454	54	4.3	54	85	4	308	25	17	21	34	1.95
1720693--1720740	24	2.0	24	84	4	62	37	14	10	37	1.81
1726839--1726958	54	2.2	54	93	0	204	29	28	19	23	1.98
1732260--1732289	15	2.0	15	100	0	60	60	0	20	20	1.37
1732263--1732297	15	2.3	15	90	0	52	65	0	17	17	1.27
1732390--1732415	9	2.9	9	100	0	52	80	0	19	0	0.71
1732411--1732496	24	3.7	21	69	26	57	76	1	2	19	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1732376--1732492	22	5.1	23	69	15	66	75	0	5	17	1.06
1732423--1732508	32	2.7	33	79	13	92	74	1	2	22	1.00
1732378--1732586	44	4.6	46	71	17	116	69	1	4	24	1.14
1732580--1732640	23	2.8	21	74	16	54	67	4	6	21	1.33
1732954--1733022	34	2.0	34	88	0	102	33	15	10	40	1.81
1733618--1733876	98	2.6	98	82	5	286	19	20	25	34	1.96
1733618--1734010	105	3.8	102	78	7	316	21	20	24	33	1.97
1734582--1734774	67	2.8	67	81	6	235	37	12	20	29	1.89
1734729--1734843	33	3.5	33	85	5	144	32	10	20	37	1.86
1734885--1735359	36	13.9	36	71	17	245	38	11	19	30	1.88

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