genome.fa.s8955.2.7.7.80.10.50.1000.8.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

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  8  of  23  ( 2731 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)
1403318--1403398	31	2.6	31	73	13	76	24	32	30	12	1.92
1410222--1410285	25	2.6	25	97	0	119	32	23	9	34	1.87
1413430--1413464	17	2.0	18	88	5	54	34	8	8	48	1.64
1414423--1414505	28	3.0	28	98	0	157	36	8	21	33	1.84
1419276--1419338	27	2.3	27	97	0	117	28	19	23	28	1.98
1439888--1439926	13	2.9	14	84	7	53	46	7	7	38	1.61
1440210--1440253	23	2.0	22	86	4	61	56	31	0	11	1.35
1440382--1440421	21	1.9	21	85	10	55	27	17	20	35	1.95
1442758--1442810	23	2.4	22	93	6	90	35	16	18	28	1.93
1441888--1442992	549	2.0	548	93	0	1861	35	11	19	33	1.88
1458754--1458796	18	2.4	18	80	7	52	0	34	6	58	1.25
1466397--1466610	32	6.7	32	79	3	189	33	16	14	35	1.90
1466397--1466610	96	2.2	96	84	0	275	33	16	14	35	1.90
1469864--1469993	66	2.0	63	91	4	206	33	6	23	36	1.80
1470777--1470809	16	2.1	16	100	0	66	33	12	6	48	1.65
1482377--1482410	16	2.2	16	89	5	52	58	8	8	23	1.56
1484402--1484434	15	2.1	16	88	5	50	39	3	0	57	1.14
1486268--1486302	6	5.8	6	100	0	70	17	14	34	34	1.90
1490569--1490603	2	17.5	2	100	0	70	48	0	0	51	1.00
1490716--1490772	2	29.0	2	96	3	107	50	0	0	49	1.00
1492002--1492082	35	2.3	36	91	2	128	41	22	1	34	1.62
1493011--1493091	35	2.3	36	86	2	110	35	1	19	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1498046--1498080	18	2.0	18	88	5	54	31	11	25	31	1.91
1499466--1499510	6	7.5	6	84	0	63	0	28	13	57	1.36
1499449--1499510	18	3.4	18	93	0	97	0	25	11	62	1.28
1499454--1499511	12	4.8	12	82	0	62	0	25	12	62	1.30
1508143--1508181	14	2.7	15	76	8	53	35	0	28	35	1.58
1508249--1508974	124	5.9	126	89	7	1147	23	24	19	32	1.97
1508249--1508974	249	3.0	249	91	6	1189	23	24	19	32	1.97
1509232--1509330	33	3.0	33	83	1	126	38	2	4	55	1.30
1509857--1509936	21	3.8	21	91	4	117	21	23	35	20	1.96
1511714--1511802	34	2.7	31	81	6	97	59	2	0	38	1.10
1511717--1511791	31	2.4	33	77	11	84	60	1	0	38	1.06
1516234--1516263	15	2.0	15	93	0	51	13	0	30	56	1.37
1518882--1518917	2	17.5	2	88	5	54	47	5	0	47	1.25
1526809--1526871	23	2.7	23	95	0	108	36	19	19	25	1.94
1526951--1526995	16	2.8	16	100	0	90	31	20	13	35	1.91
1527169--1527213	20	2.2	20	84	8	54	53	0	0	46	1.00
1527200--1527242	22	2.0	22	81	9	52	51	0	0	48	1.00
1530439--1531071	139	4.6	139	88	0	890	22	20	23	33	1.97
1532069--1532138	21	3.3	20	86	9	86	22	25	32	18	1.97
1532131--1532220	42	2.2	42	82	6	103	21	21	31	26	1.98
1533923--1534001	15	5.3	15	69	13	56	59	0	0	40	0.97
1533923--1534004	30	2.7	31	85	5	107	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533952--1534016	30	2.2	30	85	0	85	63	0	0	36	0.95
1544991--1545019	3	9.7	3	100	0	58	31	0	34	34	1.58
1548642--1548703	21	3.0	21	80	17	67	66	1	0	32	1.02
1548730--1548758	10	2.9	10	100	0	58	41	0	37	20	1.53
1549789--1549851	18	3.4	18	68	23	58	65	4	9	20	1.41
1549779--1549854	38	2.0	38	97	0	143	61	5	7	25	1.44
1549902--1549963	29	2.1	30	82	8	74	56	3	3	37	1.32
1550363--1550725	182	2.0	179	90	2	577	42	7	2	47	1.46
1550029--1551061	518	2.0	513	93	1	1764	44	7	3	44	1.49
1551739--1551786	16	3.0	16	70	11	53	39	6	18	35	1.76
1551718--1551786	32	2.2	32	91	0	111	40	5	17	36	1.74
1551799--1551918	64	1.9	64	92	0	204	49	10	7	32	1.66
1551956--1552643	199	3.5	195	81	9	746	31	14	14	39	1.86
1553508--1553621	10	10.3	10	72	19	84	10	10	20	58	1.60
1553501--1553621	24	5.2	24	72	16	112	10	9	20	58	1.60
1553534--1553619	34	2.5	34	98	0	163	6	11	23	58	1.57
1553538--1553599	14	4.0	14	72	22	52	6	9	24	59	1.52
1558666--1558695	2	15.0	2	100	0	60	50	0	0	50	1.00
1559434--1559482	3	16.0	3	95	4	89	67	0	0	32	0.91
1569734--1569759	11	2.4	11	100	0	52	38	19	7	34	1.80
1571980--1572044	33	2.0	33	93	0	112	20	15	35	29	1.93
1578250--1578283	15	2.3	15	89	0	50	32	26	23	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578363--1578557	84	2.3	84	80	3	230	35	17	21	25	1.95
1578311--1578557	42	5.8	42	70	7	151	35	17	21	25	1.95
1581478--1581613	68	2.0	67	88	1	200	34	15	17	32	1.91
1586060--1586093	14	2.4	14	85	0	50	32	2	29	35	1.73
1586432--1586489	18	3.2	18	82	4	71	46	36	10	6	1.65
1587572--1587660	32	2.7	32	77	16	101	16	10	8	64	1.49
1587621--1587694	28	2.6	28	86	4	94	17	6	6	68	1.34
1589324--1589348	2	12.5	2	100	0	50	48	0	0	52	1.00
1590606--1590677	6	12.0	6	100	0	144	16	16	50	16	1.79
1591200--1591273	26	3.2	21	68	27	53	41	4	1	52	1.28
1598361--1598522	81	2.0	80	93	1	279	24	24	38	12	1.91
1598434--1598630	100	2.0	100	94	0	349	23	22	39	14	1.91
1599146--1599185	21	1.9	21	89	0	62	25	0	17	57	1.40
1603402--1603450	22	2.2	22	96	0	89	38	14	2	44	1.56
1603394--1603519	30	4.4	30	75	21	112	45	11	1	41	1.51
1603400--1603480	22	3.3	22	73	23	81	41	13	1	43	1.52
1603699--1603738	21	1.9	21	100	0	80	57	15	0	27	1.38
1603766--1603820	18	3.4	18	65	31	52	52	9	0	38	1.33
1603840--1603911	38	2.0	37	86	13	105	48	9	0	41	1.36
1603936--1604000	28	2.3	29	82	10	82	46	15	1	36	1.55
1604082--1604119	9	4.2	9	83	10	51	65	2	0	31	1.06
1604397--1604480	29	2.9	28	87	7	123	16	29	28	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604500--1604621	60	2.0	60	95	0	217	23	40	20	14	1.90
1604608--1604667	29	2.1	29	96	0	111	16	40	26	16	1.90
1609080--1609167	33	2.6	34	85	3	115	64	13	1	20	1.34
1611429--1611476	16	2.8	18	78	12	57	62	2	0	35	1.07
1611691--1611795	51	2.1	51	85	0	138	22	30	27	19	1.98
1615718--1615757	8	5.1	8	81	6	55	35	0	27	37	1.57
1615717--1615757	15	2.7	15	80	3	55	34	0	26	39	1.57
1615832--1616183	123	2.8	126	85	9	460	22	25	20	32	1.98
1616560--1616634	33	2.2	34	85	2	98	37	2	2	57	1.27
1617191--1617284	21	4.5	21	89	7	129	21	26	34	18	1.96
1617288--1617335	21	2.3	21	85	0	60	22	12	39	25	1.89
1617882--1617912	15	2.0	16	93	6	55	51	6	0	41	1.27
1619043--1619121	33	2.4	34	83	8	101	60	1	0	37	1.05
1622019--1622072	21	2.6	21	80	14	58	66	3	7	22	1.33
1622027--1622060	17	2.1	16	89	10	52	70	2	2	23	1.15
1622860--1622922	21	3.2	18	82	13	63	38	0	1	60	1.07
1622860--1622918	23	2.7	20	84	12	64	38	0	1	59	1.08
1625336--1625390	23	2.5	21	82	5	65	29	18	1	50	1.57
1625837--1625913	20	3.7	20	76	17	68	24	25	19	29	1.98
1645278--1645363	3	27.0	3	72	23	61	39	1	1	58	1.13
1645284--1645365	12	6.9	12	77	12	89	40	1	1	57	1.14
1645309--1645365	23	2.5	23	100	0	114	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651712--1651736	6	4.2	6	100	0	50	0	16	48	36	1.46
1652012--1652053	22	1.9	22	90	0	66	30	7	21	40	1.80
1652675--1652708	11	2.9	11	91	8	50	85	0	11	2	0.71
1657995--1658073	29	2.7	29	98	0	149	31	24	8	35	1.86
1658420--1658456	19	2.0	18	89	5	56	35	0	5	59	1.20
1665518--1665554	2	18.5	2	100	0	74	51	0	0	48	1.00
1672377--1672422	15	3.2	14	85	11	58	13	0	6	80	0.89
1672375--1672417	23	1.9	22	85	4	59	11	0	9	79	0.95
1674700--1674748	23	2.1	23	88	7	73	28	2	10	59	1.41
1677118--1677153	2	18.0	2	100	0	72	50	0	0	50	1.00

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