genome.fa.s8209.2.7.7.80.10.50.1000.6.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  6  of  30  ( 3569 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)
1423723--1423798	30	2.5	30	75	14	75	18	18	10	52	1.73
1430632--1430791	80	2.0	80	96	0	293	33	16	12	36	1.87
1433419--1433460	21	2.0	21	95	0	75	47	7	14	30	1.71
1438610--1438973	182	2.0	182	93	1	622	40	17	14	28	1.88
1444669--1444752	24	3.5	24	85	3	116	29	17	17	34	1.94
1444828--1444901	35	2.1	35	87	0	103	13	25	25	35	1.93
1445686--1445748	29	2.2	29	94	0	108	38	14	3	44	1.61
1445830--1445916	35	2.4	36	88	1	122	44	11	10	33	1.74
1446304--1446401	21	4.7	21	75	7	83	33	23	17	25	1.96
1448352--1448386	15	2.2	16	90	5	54	51	0	14	34	1.42
1455814--1455852	20	2.0	20	94	0	69	48	23	10	17	1.78
1455815--1455863	20	2.4	20	86	3	62	44	24	14	16	1.84
1457237--1457496	89	2.9	92	94	4	453	35	15	17	32	1.91
1474263--1474322	26	2.3	26	94	0	102	31	18	31	18	1.95
1476946--1476986	21	2.0	21	90	0	64	34	26	2	36	1.70
1481946--1482004	20	2.9	21	85	7	77	33	27	16	22	1.95
1485725--1485750	13	2.0	13	100	0	52	30	30	0	38	1.58
1489285--1489466	91	2.0	91	90	0	283	29	21	26	22	1.99
1501880--1501914	3	11.7	3	100	0	70	68	0	31	0	0.90
1514237--1514285	2	25.5	2	87	8	75	53	2	0	44	1.12
1514268--1514421	35	4.2	38	80	8	126	45	2	9	42	1.49
1514266--1514358	39	2.3	40	85	7	125	46	3	6	44	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514389--1514449	27	2.2	28	94	2	106	42	3	13	40	1.60
1514354--1514485	62	2.1	64	84	5	171	43	2	11	42	1.53
1514414--1514512	36	2.6	37	80	13	105	43	4	9	43	1.55
1514417--1514512	38	2.6	36	80	11	97	42	4	9	43	1.56
1517007--1517044	16	2.4	16	95	0	67	36	15	18	28	1.92
1527430--1527485	11	5.2	11	80	8	53	0	7	8	83	0.80
1528231--1528260	15	1.9	16	93	6	53	70	3	0	26	1.03
1529412--1529442	16	1.9	16	100	0	62	51	19	9	19	1.74
1529443--1529489	24	1.9	25	86	4	69	36	12	21	29	1.91
1541509--1541570	4	16.5	4	72	12	51	29	3	22	45	1.68
1541515--1541563	22	2.2	22	85	0	62	28	2	22	46	1.63
1541509--1541570	30	2.1	30	93	0	106	29	3	22	45	1.68
1542158--1542193	16	2.3	15	90	4	54	77	2	0	19	0.88
1542158--1542193	5	7.0	5	87	6	54	77	2	0	19	0.88
1543750--1544031	54	5.2	54	84	5	381	26	18	21	34	1.96
1543750--1544031	109	2.6	109	86	5	385	26	18	21	34	1.96
1544448--1544498	20	2.5	20	90	0	84	27	27	9	35	1.88
1550348--1550444	30	3.2	30	80	2	97	38	28	15	17	1.90
1557890--1557928	19	2.1	19	100	0	78	30	10	43	15	1.80
1558480--1558517	3	13.0	3	83	5	51	63	0	2	34	1.09
1559096--1559202	37	3.1	36	63	22	84	37	15	17	28	1.91
1559079--1559255	67	2.6	67	90	0	273	37	14	18	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559261--1559440	95	1.9	95	80	6	213	37	12	17	33	1.87
1560084--1560116	11	3.0	11	100	0	66	36	0	27	36	1.57
1565352--1565432	6	13.5	6	98	0	108	67	0	8	23	1.18
1572442--1572478	3	12.0	3	88	5	56	62	0	0	37	0.96
1572705--1573879	113	10.4	112	88	2	1375	29	19	14	36	1.91
1574596--1574811	115	1.9	114	91	2	353	30	20	13	35	1.92
1574699--1576010	94	14.0	94	94	1	2235	34	20	14	30	1.92
1574699--1576010	281	4.7	282	94	1	2237	34	20	14	30	1.92
1574699--1576010	375	3.5	375	95	1	2319	34	20	14	30	1.92
1577008--1577066	1	59.0	1	75	0	55	0	11	0	88	0.53
1577009--1577066	12	4.8	12	89	10	84	0	12	0	87	0.53
1577007--1577066	26	2.4	23	84	15	84	0	13	0	86	0.57
1577008--1577065	20	2.9	20	87	7	82	0	12	0	87	0.53
1577008--1577069	21	2.9	21	86	13	90	0	12	0	87	0.55
1582253--1582293	18	2.3	18	86	0	55	12	17	51	19	1.76
1584176--1584524	43	8.1	43	92	1	531	30	23	27	18	1.98
1587279--1587339	13	4.3	13	69	18	50	19	21	40	18	1.91
1591062--1591168	50	2.1	50	100	0	214	13	7	15	63	1.50
1591533--1591606	29	2.5	29	93	2	121	13	22	25	37	1.91
1591677--1591710	17	1.9	17	88	5	50	47	2	2	47	1.32
1591681--1591767	46	1.9	44	81	9	104	41	4	5	48	1.48
1591885--1591922	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593386--1593425	21	1.9	22	85	10	57	30	12	20	37	1.89
1593386--1593440	20	2.7	21	77	5	60	27	10	18	43	1.83
1593428--1593466	20	2.0	19	85	5	51	25	10	17	46	1.80
1593440--1593502	20	3.2	20	79	4	65	30	17	17	34	1.93
1593519--1593557	20	2.0	20	89	0	60	28	23	25	23	1.99
1594316--1594357	18	2.3	19	84	8	52	59	0	33	7	1.25
1601710--1601771	32	1.9	32	93	0	106	46	3	14	35	1.61
1607582--1607643	31	2.0	31	84	6	81	45	9	9	35	1.70
1608019--1608051	5	6.6	5	96	0	57	45	39	0	15	1.46
1624434--1624507	16	3.8	19	71	23	57	52	5	0	41	1.24
1624474--1624533	2	30.0	2	82	12	61	51	5	0	43	1.23
1624442--1624529	38	2.3	38	86	5	117	51	5	0	43	1.25
1637213--1637259	19	2.5	19	100	0	94	8	14	31	44	1.76
1638215--1638254	2	21.0	2	90	10	66	50	0	0	50	1.00
1642138--1642182	21	2.1	21	95	0	81	31	26	24	17	1.97
1642202--1642256	20	2.8	20	100	0	110	30	25	16	27	1.96
1642202--1642296	20	4.7	20	82	3	75	38	24	14	22	1.91
1647065--1647153	35	2.5	36	87	3	135	32	21	22	23	1.98
1647250--1647280	6	5.0	6	96	4	53	32	19	16	32	1.94
1650582--1650624	18	2.4	18	92	0	68	20	6	0	72	1.08
1650675--1650722	19	2.6	19	83	9	64	20	6	0	72	1.05
1656077--1656170	5	18.2	5	73	14	75	21	6	2	70	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659050--1659092	18	2.4	18	92	7	70	20	4	0	74	1.00
1659165--1659219	15	3.9	14	80	15	60	30	1	0	67	1.01
1660969--1661007	4	9.8	4	91	0	60	71	0	2	25	0.98
1662554--1662709	82	1.9	82	89	1	242	32	19	14	32	1.93
1662373--1662709	41	8.3	39	71	10	203	31	18	16	33	1.93
1666820--1666924	43	2.5	43	90	1	167	27	24	17	30	1.97
1666820--1666942	43	2.9	43	85	1	158	25	24	18	31	1.98
1669932--1670184	54	4.7	53	85	6	323	30	17	20	30	1.96
1669953--1670181	108	2.1	107	90	0	359	30	17	20	31	1.96
1676083--1676367	54	5.3	54	88	0	363	29	19	20	30	1.97
1688511--1688573	32	2.0	32	100	0	126	39	22	19	19	1.92
1691918--1691957	21	1.9	21	100	0	80	20	40	32	7	1.80
1691916--1691963	21	2.3	21	85	0	78	20	43	29	6	1.76
1703705--1703840	62	2.2	62	100	0	272	31	17	15	35	1.91
1703849--1703898	18	2.6	19	84	6	66	26	26	20	28	1.99
1703848--1703925	24	3.7	23	79	20	75	29	25	20	24	1.99
1704878--1704913	18	2.0	18	94	0	63	30	30	22	16	1.96
1705862--1705933	35	2.1	35	97	0	135	23	15	22	38	1.92
1710531--1710578	23	2.2	22	78	10	53	35	29	16	18	1.93
1710603--1710672	21	3.3	21	87	0	104	37	21	14	27	1.92
1710603--1710690	42	2.1	42	89	4	133	36	23	15	23	1.94
1710603--1710680	21	3.7	21	84	1	102	37	23	15	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1710603--1710690	21	4.2	21	83	2	97	36	23	15	23	1.94
1714579--1714941	41	8.8	41	80	6	392	28	20	18	32	1.96
1714560--1714941	83	4.6	83	87	2	502	29	21	17	31	1.96
1719629--1719687	21	2.8	21	81	0	64	18	6	18	55	1.64
1719840--1720064	43	5.3	42	83	4	263	28	23	20	27	1.99
1719840--1720064	85	2.6	86	82	4	267	28	23	20	27	1.99
1730111--1730156	23	2.0	23	95	0	83	36	26	19	17	1.94
1730146--1730213	23	3.0	23	78	4	68	33	29	20	16	1.94
1730203--1730310	21	5.0	22	77	6	87	36	23	13	26	1.92
1730238--1730310	21	3.5	21	82	0	101	38	21	15	24	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30