genome.fa.s8653.2.7.7.80.10.50.1000.8.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: VEPZ01008653.1 Hibiscus syriacus cultivar Beakdansim tig00111644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778368

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1032 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)
1544128--1544243	52	2.3	51	92	1	187	44	18	20	16	1.86
1544250--1544328	19	4.5	19	77	22	100	13	22	17	45	1.84
1544433--1544469	14	2.6	14	91	0	65	45	21	0	32	1.52
1546377--1546492	19	6.6	19	75	19	108	45	22	19	12	1.83
1546414--1546470	14	3.7	14	77	20	60	45	22	21	10	1.82
1546395--1546487	33	2.8	33	95	0	168	47	21	20	10	1.80
1546488--1546616	19	7.3	19	75	17	125	8	17	28	45	1.77
1546488--1546579	33	2.8	33	93	3	150	7	18	28	45	1.76
1546660--1547125	90	5.1	93	95	3	858	45	19	12	22	1.83
1546660--1547125	183	2.6	183	97	2	877	45	19	12	22	1.83
1548809--1548922	33	3.5	33	92	2	194	43	21	24	9	1.82
1548816--1548927	19	6.8	18	70	25	79	41	23	25	9	1.84
1548939--1548992	14	3.5	14	73	22	54	7	25	24	42	1.80
1548923--1549039	33	3.4	33	86	4	144	9	23	20	47	1.79
1548950--1549051	19	5.6	19	70	15	90	10	24	18	46	1.81
1548980--1549050	21	3.6	21	66	24	55	9	25	16	47	1.77
1549131--1549201	33	2.2	33	89	0	106	47	16	23	11	1.79
1549383--1549437	22	2.5	22	81	0	74	20	16	40	23	1.91
1549560--1549641	40	2.1	40	81	6	96	23	15	23	37	1.93
1549583--1549775	20	9.6	20	83	3	219	19	20	25	35	1.96
1549762--1549844	21	4.0	21	73	6	78	25	16	24	33	1.96
1549742--1549840	42	2.4	43	77	11	100	21	18	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559247--1559371	60	2.1	60	88	5	182	25	20	20	33	1.97
1560053--1560104	16	3.2	17	72	22	58	42	0	19	38	1.51
1561618--1561729	35	3.2	34	84	5	143	41	23	0	33	1.60
1563352--1563460	35	3.1	34	84	2	128	32	1	23	42	1.65
1563633--1563886	126	2.0	126	100	0	508	34	17	11	37	1.85
1564424--1564665	30	8.0	30	75	14	194	53	1	4	40	1.33
1564439--1564493	27	2.0	27	89	0	83	54	0	3	41	1.18
1564520--1564664	31	4.8	29	77	11	123	53	0	4	40	1.27
1564419--1564671	61	4.1	61	76	15	197	54	1	5	39	1.32
1565354--1565409	21	2.8	19	76	12	58	64	8	0	26	1.23
1569438--1569477	18	2.2	19	86	4	55	52	2	17	27	1.57
1571164--1571201	19	2.0	19	100	0	76	26	10	31	31	1.90
1577109--1577134	3	8.7	3	100	0	52	30	0	0	69	0.89
1577898--1577956	22	2.6	22	82	15	68	27	1	1	69	1.07
1577925--1577989	17	3.8	17	71	15	53	24	3	1	70	1.10
1581651--1581733	43	1.9	43	87	4	123	19	12	25	43	1.85
1583124--1583157	12	2.8	12	86	0	50	17	47	5	29	1.71
1584202--1584227	2	13.0	2	100	0	52	50	0	0	50	1.00
1584686--1584749	32	2.0	32	90	0	101	32	21	4	40	1.74
1589291--1589337	18	2.7	18	93	3	78	27	31	8	31	1.87
1592811--1592867	19	3.0	19	86	0	78	38	1	5	54	1.33
1593451--1593504	26	2.1	26	82	0	63	37	16	12	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594161--1594272	35	3.2	35	89	0	170	41	22	0	34	1.60
1595326--1595438	35	3.2	34	88	5	163	34	0	22	42	1.60
1596182--1596233	21	2.5	21	81	3	61	38	19	25	17	1.93
1596222--1596376	20	7.7	20	82	6	152	32	23	18	25	1.97
1596242--1596376	61	2.2	61	83	0	180	33	23	17	25	1.96
1596849--1596906	20	2.9	20	89	0	80	17	15	22	44	1.86
1597043--1597097	25	2.2	24	78	15	58	20	9	18	52	1.71
1598226--1598270	18	2.5	18	88	0	72	26	44	15	13	1.83
1598785--1598881	14	6.4	14	76	17	95	12	16	21	49	1.78
1598794--1598897	32	3.2	32	97	1	190	13	18	21	47	1.82
1598881--1598937	20	2.9	19	80	14	71	17	24	19	38	1.93
1600807--1600842	14	2.6	14	90	0	54	30	0	22	47	1.52
1600979--1601046	19	3.8	19	85	14	101	47	17	22	13	1.82
1601087--1601140	20	2.7	20	91	0	90	14	16	20	48	1.81
1602191--1602244	24	2.2	24	90	0	81	22	16	20	40	1.91
1602419--1602455	12	3.1	12	100	0	74	72	0	27	0	0.84
1604747--1604877	19	7.7	19	66	23	94	42	19	22	14	1.88
1604747--1604873	33	3.8	33	88	4	202	42	19	22	14	1.88
1604748--1604880	66	2.0	66	97	0	248	41	19	22	16	1.90
1604873--1604947	19	4.2	19	75	16	70	14	21	21	42	1.88
1604904--1604948	19	2.4	19	96	0	81	13	20	20	46	1.83
1605059--1605095	14	2.6	14	91	0	65	45	24	0	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606452--1606657	42	4.9	41	70	9	146	22	17	36	22	1.95
1606452--1606518	21	3.2	21	68	4	55	19	20	35	23	1.95
1606490--1606653	84	2.0	84	98	0	319	21	17	38	22	1.93
1606874--1607058	91	2.0	90	89	6	282	48	18	11	21	1.80
1608745--1608852	20	5.8	19	73	14	91	43	19	23	13	1.87
1608770--1608835	33	2.0	34	93	3	116	37	22	25	13	1.91
1608745--1608857	19	6.1	19	73	13	92	42	19	23	14	1.88
1608857--1608893	19	1.9	19	88	0	56	8	16	21	54	1.68
1609452--1609504	20	2.7	20	93	0	88	26	20	28	24	1.99
1609513--1609566	20	2.7	20	97	0	99	25	18	24	31	1.97
1609453--1609569	61	1.9	61	85	0	162	23	17	24	33	1.97
1609448--1609587	61	2.3	61	80	6	160	23	18	24	33	1.97
1609637--1609677	21	2.0	21	85	0	55	34	31	17	17	1.93
1611970--1612018	21	2.3	21	83	16	57	34	28	12	24	1.91
1612540--1612603	21	3.1	21	77	6	69	26	25	10	37	1.89
1613610--1613673	6	11.0	6	83	6	78	15	67	0	17	1.24
1614086--1614132	22	2.1	23	88	4	69	42	0	44	12	1.42
1615195--1615262	36	2.1	33	84	15	88	29	35	0	35	1.58
1617367--1617432	10	6.6	10	94	0	105	51	3	0	45	1.16
1617367--1617432	4	16.5	4	93	0	105	51	3	0	45	1.16
1617367--1617432	6	11.0	6	91	0	105	51	3	0	45	1.16
1620045--1620084	20	2.0	21	90	5	64	42	12	20	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1623154--1623265	49	2.3	50	76	9	122	55	3	2	38	1.31
1623377--1623421	22	2.0	22	100	0	90	40	8	13	37	1.76
1626531--1626572	21	2.0	21	95	0	75	16	14	21	47	1.82
1635107--1635171	23	2.9	22	80	17	64	52	0	1	46	1.10
1637504--1637544	21	1.9	22	85	5	57	53	2	26	17	1.56
1642679--1642771	36	2.5	36	78	11	91	50	3	2	44	1.30
1642713--1642771	18	3.3	18	79	11	68	45	5	1	47	1.34
1642687--1642822	13	10.5	13	65	17	50	45	4	3	46	1.40
1642807--1642901	9	11.0	9	69	17	58	46	0	5	48	1.24
1642807--1642902	15	6.3	15	67	21	56	46	0	5	47	1.24
1642687--1642902	17	13.4	17	66	24	62	46	2	4	46	1.38
1642687--1642902	2	111.5	2	65	20	59	46	2	4	46	1.38
1643373--1643580	65	3.2	64	84	5	256	28	22	19	29	1.98
1649334--1649431	44	2.3	43	89	5	144	26	24	22	26	2.00
1649359--1649432	23	3.3	23	70	14	73	25	25	22	25	2.00
1656187--1656345	29	5.5	29	89	3	223	36	5	13	44	1.68
1656187--1656345	58	2.8	58	92	2	250	36	5	13	44	1.68
1656185--1656365	29	6.3	28	84	6	193	35	5	14	44	1.68
1657288--1657578	116	2.5	116	92	2	467	19	15	33	31	1.93
1659410--1659617	65	3.2	65	82	6	208	28	20	19	31	1.97
1660599--1660634	13	2.7	13	91	4	54	50	8	2	38	1.47
1660551--1660689	55	2.5	53	81	6	145	42	7	6	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660714--1660791	21	3.7	20	81	8	84	41	3	6	48	1.47
1660694--1660796	22	4.8	22	73	13	88	38	2	8	49	1.49
1660779--1660836	16	3.7	16	75	11	57	37	5	5	51	1.46
1660806--1660843	16	2.5	15	87	8	51	44	7	2	44	1.47
1660929--1660981	27	2.0	27	85	14	74	43	3	1	50	1.30
1660951--1660987	15	2.4	15	90	4	56	43	5	0	51	1.24
1661713--1661863	6	24.8	6	67	10	74	46	41	5	7	1.54
1661696--1661746	18	2.8	18	82	8	59	43	41	3	11	1.60
1661767--1661861	31	3.1	29	76	16	95	49	40	5	5	1.48
1662104--1662482	119	3.2	119	91	1	625	20	10	19	49	1.77

Tables:   1   2   3   4   5   6   7   8   9