genome.fa.s8724.2.7.7.80.10.50.1000.7.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  7  of  23  ( 2733 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)
1517256--1517302	22	2.2	21	85	11	60	23	25	25	25	2.00
1524674--1524957	41	6.9	40	73	10	218	34	20	12	32	1.89
1524670--1524957	82	3.5	81	89	3	436	34	20	12	32	1.90
1524671--1524990	82	3.9	82	85	2	394	35	20	11	33	1.89
1527051--1527166	29	4.0	29	95	0	205	25	19	12	41	1.88
1532950--1532988	21	1.9	19	85	10	51	64	0	0	35	0.94
1533866--1533941	38	2.0	38	100	0	152	26	10	21	42	1.85
1539501--1539530	15	1.9	16	93	6	53	56	13	3	26	1.52
1545675--1545743	34	2.0	34	91	0	111	40	17	1	40	1.58
1551269--1551309	12	3.5	12	84	12	50	53	0	0	46	1.00
1551269--1551316	10	4.6	10	76	19	53	54	0	0	45	0.99
1551492--1551618	47	2.7	47	86	1	157	25	21	21	32	1.98
1551749--1551828	20	4.0	20	82	6	108	43	21	11	23	1.84
1551752--1551827	40	1.9	39	91	2	125	44	19	11	23	1.84
1552410--1552456	22	2.1	22	84	0	58	42	12	10	34	1.78
1560366--1560407	12	3.8	12	84	12	54	54	0	0	45	0.99
1560365--1560411	10	4.7	10	75	19	53	57	0	0	42	0.98
1562303--1562382	10	8.4	9	80	6	61	16	28	28	26	1.97
1562418--1562447	14	2.2	14	94	5	53	16	23	30	30	1.96
1566348--1566451	46	2.3	46	91	0	163	49	19	3	27	1.66
1567785--1567908	61	2.0	61	90	3	196	27	19	4	48	1.69
1567805--1567936	62	2.1	62	80	5	142	28	21	4	45	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1568281--1568314	18	1.9	18	88	5	52	11	0	11	76	1.02
1570986--1571474	46	10.7	46	94	0	827	20	23	9	46	1.81
1573313--1573797	241	2.0	242	99	0	954	39	18	14	27	1.89
1600943--1601014	32	2.2	32	82	0	81	37	15	13	33	1.87
1616871--1616907	20	1.9	18	89	10	56	24	0	0	75	0.80
1616873--1616907	18	2.0	17	88	5	52	25	0	0	74	0.82
1617185--1617260	29	2.6	29	83	4	100	17	27	35	19	1.94
1617753--1617814	28	2.1	30	91	5	101	32	0	12	54	1.38
1618634--1618689	8	6.9	8	74	11	51	48	1	3	46	1.30
1622211--1622252	20	2.1	20	90	0	66	9	35	14	40	1.78
1624486--1624543	26	2.3	26	90	3	91	10	36	8	44	1.69
1629813--1629852	14	2.9	13	82	13	53	40	0	2	57	1.12
1630288--1630348	2	33.0	2	75	15	51	49	0	1	49	1.10
1630288--1630348	21	2.8	21	79	18	63	49	0	1	49	1.10
1630338--1630380	20	2.2	19	84	12	52	41	13	0	44	1.44
1632022--1632046	2	12.5	2	100	0	50	52	0	0	48	1.00
1632375--1632409	18	1.9	18	88	0	52	60	0	28	11	1.32
1641761--1641867	36	3.0	36	63	28	84	14	14	16	54	1.72
1657331--1657391	24	2.5	23	77	15	61	14	0	26	59	1.36
1657620--1657664	21	2.1	21	83	4	54	40	2	33	24	1.68
1657772--1657798	13	2.1	13	100	0	54	37	0	14	48	1.45
1657800--1657836	19	2.1	18	90	10	58	37	10	5	45	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1663621--1663666	18	2.6	18	85	0	65	32	4	13	50	1.61
1665204--1665259	28	2.0	28	100	0	112	32	17	25	25	1.97
1669092--1669561	180	2.6	180	90	2	712	41	13	16	27	1.87
1669302--1669348	20	2.4	19	82	10	67	53	10	17	19	1.72
1669482--1669528	20	2.4	19	82	10	67	53	10	17	19	1.72
1669491--1669533	20	2.3	19	88	11	63	51	11	16	20	1.75
1671757--1671821	21	3.1	21	93	0	103	41	10	30	16	1.83
1671855--1671920	33	2.0	33	87	0	96	30	0	46	22	1.52
1673707--1673755	19	2.6	19	93	0	80	32	2	8	57	1.40
1673868--1674638	200	3.9	200	93	4	1343	35	15	18	30	1.92
1674222--1674596	187	2.0	188	96	0	689	34	15	18	30	1.93
1676113--1676194	12	6.8	12	85	0	110	37	8	34	19	1.82
1676113--1676176	18	3.6	18	78	0	83	37	9	34	18	1.83
1676118--1676187	36	1.9	36	97	0	131	35	10	35	18	1.84
1676113--1676194	6	13.7	6	77	0	74	37	8	34	19	1.82
1677408--1678350	183	5.2	183	96	0	1744	35	14	16	33	1.90
1681094--1681143	23	2.2	23	92	0	82	34	6	22	38	1.78
1681506--1681578	23	3.2	23	88	0	101	36	5	19	38	1.75
1682959--1683034	35	2.2	35	83	4	91	42	19	1	36	1.60
1683031--1683105	35	2.1	35	90	0	114	34	0	21	44	1.53
1685879--1685903	13	1.9	13	100	0	50	68	0	0	32	0.90
1691925--1692143	87	2.5	88	83	1	280	28	14	10	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692667--1692745	39	2.0	39	97	0	149	24	24	25	26	2.00
1695596--1695633	20	1.9	20	94	0	67	47	13	13	26	1.79
1697296--1697343	20	2.5	20	86	3	62	56	4	8	31	1.48
1698715--1698763	20	2.5	20	79	0	62	36	14	20	28	1.92
1698791--1698828	20	1.9	20	84	10	51	28	21	18	31	1.97
1701986--1702039	21	2.8	19	81	13	65	29	7	11	51	1.64
1702259--1702378	22	5.3	22	67	9	89	30	28	15	25	1.96
1702797--1702866	33	2.1	33	83	0	86	34	15	28	21	1.94
1706684--1706737	21	2.6	21	100	0	108	37	24	14	24	1.93
1707410--1707462	18	2.9	18	88	0	79	16	24	33	24	1.96
1713584--1713632	19	2.6	19	100	0	98	30	14	22	32	1.93
1714134--1714187	24	2.3	24	90	3	83	31	5	29	33	1.80
1714290--1714324	18	1.9	18	88	0	52	20	22	34	22	1.97
1716975--1717034	21	2.6	24	76	10	72	26	16	18	38	1.92
1722538--1722580	20	2.2	20	83	8	52	23	23	23	30	1.99
1723613--1723643	15	2.1	15	93	0	53	67	3	22	6	1.28
1727563--1727605	20	2.2	20	83	8	52	23	23	23	30	1.99
1729720--1729772	21	2.2	25	71	28	69	39	0	45	15	1.46
1729728--1729772	21	2.1	21	100	0	90	40	0	42	17	1.50
1734118--1734273	78	2.0	78	94	0	276	29	25	15	30	1.96
1735447--1735473	12	2.2	12	100	0	54	22	37	22	18	1.95
1737277--1737315	18	2.2	18	90	0	60	43	35	7	12	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738754--1738786	12	2.8	12	95	0	57	51	9	9	30	1.64
1739803--1739864	31	2.0	31	100	0	124	9	6	25	58	1.54
1741703--1742024	159	2.0	159	98	0	619	29	16	20	33	1.94
1743846--1743894	2	25.0	2	95	4	91	51	0	0	48	1.00
1743908--1743972	18	3.4	19	73	18	64	49	0	4	46	1.22
1743937--1744127	33	5.8	32	75	15	160	45	3	5	46	1.43
1743975--1744126	65	2.3	66	79	15	156	44	3	5	46	1.44
1744114--1744190	19	3.6	21	75	18	61	32	0	2	64	1.07
1744158--1744227	14	5.5	13	77	16	67	18	2	0	78	0.87
1744169--1744227	5	11.8	5	83	7	75	16	3	0	79	0.86
1744158--1744227	19	3.5	20	81	11	74	18	2	0	78	0.87
1744169--1744227	14	3.9	15	82	8	75	16	3	0	79	0.86
1744135--1744227	45	2.1	45	82	8	109	22	2	1	74	0.99
1744160--1744228	10	6.8	10	78	8	59	17	2	0	79	0.85
1745476--1745558	37	2.2	36	87	8	114	10	9	3	75	1.15
1745558--1745605	3	16.7	3	91	4	73	27	0	0	72	0.84
1745519--1745608	6	14.5	6	80	15	58	17	3	1	77	0.96
1745708--1745737	6	4.8	6	95	4	51	33	0	0	66	0.92
1749242--1749726	64	7.6	64	89	1	735	35	21	13	30	1.92
1749239--1749726	191	2.6	191	90	2	759	34	20	13	30	1.92
1749242--1749726	255	1.9	253	90	1	783	35	21	13	30	1.92
1749729--1750031	123	2.5	121	89	2	448	36	25	14	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750140--1750359	82	2.6	85	82	4	268	36	20	18	23	1.95
1750993--1751105	36	2.9	40	73	17	130	49	4	5	40	1.45
1751029--1751173	36	4.2	36	76	11	126	46	4	4	44	1.46
1750993--1751172	69	2.5	73	82	10	194	46	4	5	43	1.45
1751070--1751161	38	2.7	34	83	16	111	43	4	3	48	1.38
1751070--1751235	69	2.4	69	81	12	182	43	3	4	48	1.39
1751219--1751274	11	5.3	10	78	14	51	33	1	3	60	1.24
1751219--1751273	21	2.6	21	81	16	60	34	1	3	60	1.25
1751237--1751285	3	17.3	3	78	19	52	30	0	2	67	1.02
1751264--1751306	5	8.6	5	87	10	61	20	2	0	76	0.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23