genome.fa.s761.2.7.7.80.10.50.1000.6.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

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  6  of  23  ( 2686 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)
1444112--1444449	89	3.8	89	89	1	489	29	25	23	21	1.99
1451322--1451352	16	1.9	16	93	0	53	41	25	12	19	1.87
1459935--1459987	23	2.2	24	90	3	81	9	16	13	60	1.58
1464402--1464444	22	2.0	22	95	0	77	39	6	11	41	1.68
1464652--1464806	40	3.9	40	78	6	163	23	16	27	32	1.96
1465619--1465698	30	2.8	29	74	23	80	61	0	2	36	1.10
1465774--1465808	17	2.1	17	88	0	52	22	17	0	60	1.37
1466046--1466092	23	2.2	21	82	17	53	29	19	12	38	1.89
1476319--1476409	31	2.9	31	90	0	128	31	10	25	31	1.90
1476935--1476982	20	2.4	20	89	0	78	33	22	12	31	1.91
1479525--1479611	40	2.2	40	87	2	122	24	19	26	29	1.98
1487008--1487064	25	2.2	27	78	6	64	64	3	7	24	1.34
1488290--1488875	137	4.3	137	79	4	567	44	13	13	29	1.81
1488300--1488875	275	2.1	274	80	2	620	44	13	13	28	1.81
1489186--1489214	14	2.1	14	93	6	51	75	6	3	13	1.13
1495011--1495436	111	3.8	112	88	5	619	30	11	12	44	1.79
1495011--1495453	112	3.9	113	87	5	637	31	11	12	44	1.78
1495585--1495793	73	2.9	72	85	6	273	33	13	11	40	1.81
1496006--1496057	23	2.3	23	79	0	68	36	15	9	38	1.80
1496166--1496215	23	2.2	23	88	0	73	32	18	10	40	1.83
1495862--1496350	158	3.1	158	89	0	753	32	13	12	41	1.81
1501516--1501748	128	1.8	128	93	0	403	43	13	5	37	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504190--1504219	15	2.0	15	93	0	51	50	16	6	26	1.70
1504797--1504838	20	2.1	20	86	8	59	47	4	21	26	1.70
1506431--1506456	12	2.2	12	100	0	52	42	0	7	50	1.31
1508591--1508667	21	3.6	21	73	16	68	50	2	0	46	1.15
1508633--1508833	2	107.0	2	72	19	112	49	3	0	45	1.27
1508633--1508833	33	6.3	33	70	19	142	49	3	0	45	1.27
1508636--1508833	29	6.4	32	65	21	52	50	4	1	44	1.27
1515722--1515804	23	3.7	22	68	16	62	32	12	13	42	1.81
1515795--1515849	22	2.5	22	77	14	60	12	10	20	56	1.66
1516064--1516140	24	3.2	24	78	5	77	44	12	20	22	1.86
1516074--1516151	12	6.6	12	79	2	77	44	14	19	21	1.85
1516074--1516148	35	2.1	36	95	2	134	45	14	18	21	1.85
1520679--1520979	36	8.2	38	83	10	331	46	3	4	44	1.42
1520679--1520979	71	4.1	72	86	7	394	46	3	4	44	1.42
1520945--1521025	29	2.8	30	83	7	87	39	2	6	51	1.40
1521010--1521047	20	1.9	19	89	5	58	31	5	7	55	1.51
1521970--1522007	14	2.8	13	88	7	58	13	0	5	81	0.85
1521969--1522019	8	6.1	8	81	4	57	15	1	3	78	0.99
1526239--1526274	17	2.1	17	94	0	63	19	41	25	13	1.88
1533441--1533495	24	2.3	23	81	6	56	23	47	20	9	1.78
1533480--1533517	17	2.2	17	90	0	58	21	44	21	13	1.85
1536123--1536243	41	2.9	41	83	10	147	32	28	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536443--1536749	37	8.6	34	71	15	178	25	19	14	41	1.89
1536468--1536757	73	4.1	72	74	11	283	26	18	14	41	1.88
1536788--1537468	84	8.2	84	77	4	493	32	23	19	24	1.98
1538052--1538311	39	7.1	38	76	13	237	45	4	6	43	1.49
1538053--1538305	70	3.5	77	76	13	259	45	4	6	43	1.50
1538172--1538239	30	2.2	31	87	7	95	47	2	5	44	1.42
1538097--1538311	106	2.0	104	86	8	303	44	4	7	43	1.51
1538352--1538381	2	15.0	2	100	0	60	50	0	0	50	1.00
1539299--1539348	8	5.9	8	81	6	55	14	2	4	80	0.95
1539300--1539338	13	2.9	13	88	7	60	12	0	5	82	0.83
1540763--1540832	20	3.5	20	84	1	79	35	5	18	40	1.75
1540865--1540912	20	2.4	20	96	0	87	25	22	29	22	1.99
1541240--1541309	33	2.1	33	89	0	104	32	14	30	22	1.94
1544206--1544256	20	2.5	20	90	0	84	52	19	3	23	1.62
1544288--1544352	20	3.3	20	82	2	78	35	9	21	33	1.85
1547291--1547355	28	2.3	28	97	0	121	33	16	18	30	1.94
1549845--1549882	16	2.4	16	90	0	58	28	18	18	34	1.95
1549861--1549906	20	2.3	20	92	0	74	26	8	23	41	1.83
1549874--1549907	4	8.5	4	93	0	59	26	2	23	47	1.66
1549854--1549904	16	3.2	16	91	0	75	25	11	23	39	1.89
1550388--1550464	39	2.0	40	89	5	122	35	23	18	23	1.96
1550451--1550534	39	2.2	39	91	0	132	33	21	28	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553623--1553691	32	2.1	33	91	2	113	31	13	23	31	1.92
1554726--1554788	27	2.4	27	81	2	65	53	3	25	17	1.58
1554755--1554794	15	2.8	14	88	3	53	65	0	25	10	1.24
1560569--1560705	4	34.0	4	77	1	130	25	9	23	41	1.84
1560569--1560708	8	17.9	8	88	4	178	25	10	22	41	1.85
1560931--1561047	32	3.7	31	88	3	153	23	28	24	23	2.00
1560924--1561047	63	2.0	64	86	1	178	22	29	24	24	1.99
1562346--1562387	21	2.0	21	95	0	75	26	28	21	23	1.99
1562500--1562541	20	2.1	20	100	0	84	14	28	38	19	1.90
1562506--1562549	20	2.3	19	84	7	54	20	31	25	22	1.98
1563992--1564038	20	2.4	19	82	10	51	31	12	4	51	1.59
1565217--1565258	21	2.0	21	90	9	68	28	28	19	23	1.98
1567314--1567346	15	2.2	15	100	0	66	36	0	0	63	0.95
1567330--1567371	21	2.0	21	85	4	57	45	2	0	52	1.13
1568410--1568564	49	3.2	48	72	18	147	41	3	3	50	1.39
1569752--1569813	17	3.4	18	80	12	65	37	1	1	59	1.17
1569789--1569841	27	2.0	27	85	14	74	35	0	5	58	1.22
1569762--1569856	34	2.9	33	72	14	90	40	0	3	56	1.15
1572756--1572880	31	4.0	31	87	2	171	20	18	20	40	1.92
1573363--1573405	21	2.0	21	82	8	52	32	4	13	48	1.63
1576002--1576051	23	2.2	23	92	0	82	36	4	12	48	1.59
1576002--1576057	23	2.5	23	85	2	78	39	3	10	46	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588962--1589072	45	2.5	45	93	0	195	41	8	20	29	1.81
1589521--1589562	20	2.0	21	90	9	68	28	28	23	19	1.98
1599506--1599631	47	2.8	45	85	5	164	29	23	7	39	1.83
1599736--1599857	40	3.0	40	98	0	235	32	26	17	23	1.96
1602708--1602748	21	2.0	21	85	0	55	17	24	0	58	1.38
1607858--1607882	3	8.3	3	100	0	50	68	0	32	0	0.90
1611090--1611154	21	3.1	21	86	8	96	29	27	18	24	1.98
1613184--1613397	113	1.9	112	80	5	252	40	16	9	33	1.81
1613405--1613459	17	3.2	17	81	0	65	25	3	23	47	1.68
1621900--1621942	20	2.1	21	87	8	63	13	16	0	69	1.19
1625234--1625283	24	2.1	24	85	7	66	22	2	16	60	1.46
1626311--1626408	31	3.2	31	83	0	124	31	5	23	39	1.76
1627047--1627159	51	2.2	51	92	3	183	24	23	30	21	1.98
1627904--1627954	25	2.0	25	85	7	68	50	3	1	43	1.31
1637027--1637070	19	2.4	18	85	11	54	2	18	0	79	0.83
1637746--1637800	19	2.8	20	86	8	76	45	10	9	34	1.71
1639182--1639223	15	2.7	15	79	13	50	45	0	2	52	1.13
1641092--1641139	15	3.2	15	72	0	51	29	31	8	31	1.87
1652708--1652796	26	3.6	26	72	16	80	16	20	0	62	1.32
1652733--1652786	21	2.6	21	75	13	58	20	16	0	62	1.32
1653067--1653123	23	2.5	23	94	0	96	33	22	12	31	1.91
1654413--1654462	23	2.0	26	85	11	70	52	0	2	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654663--1654717	2	29.0	2	78	10	62	45	0	0	54	0.99
1656091--1656117	3	9.0	3	100	0	54	33	0	0	66	0.92
1656119--1656167	3	16.0	3	87	4	71	61	0	0	38	0.96
1656397--1656865	113	4.2	113	84	4	542	30	18	13	36	1.90
1656779--1656963	98	1.9	98	87	0	271	32	17	15	33	1.92
1656596--1657187	324	1.8	322	87	1	871	31	18	12	36	1.89
1656714--1657273	224	2.6	215	86	3	759	30	18	13	37	1.89
1656877--1657238	113	3.2	113	86	3	550	30	18	11	38	1.86
1657960--1658782	94	8.8	93	96	0	1477	34	21	15	28	1.93
1657960--1658782	280	2.9	280	96	1	1506	34	21	15	28	1.93

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