genome.fa.s8480.2.7.7.80.10.50.1000.8.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: VEPZ01008480.1 Hibiscus syriacus cultivar Beakdansim tig00111311_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2515485

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  8  of  13  ( 1492 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)
1530845--1530914	14	5.3	12	77	19	52	42	5	10	41	1.62
1531127--1531362	49	4.7	49	92	3	375	43	0	11	45	1.40
1531236--1531317	14	6.4	14	68	22	56	45	0	13	41	1.43
1531152--1531414	98	2.7	97	87	5	316	44	0	10	43	1.44
1531526--1531581	11	4.7	12	81	14	71	48	0	7	44	1.30
1531597--1531671	14	5.2	13	73	16	60	38	0	5	56	1.22
1531593--1531687	21	4.4	21	82	11	113	38	0	6	54	1.26
1531592--1531678	45	1.9	45	97	0	165	39	0	5	55	1.24
1531597--1531711	59	1.9	59	84	6	153	40	0	8	51	1.33
1531592--1531702	45	2.4	45	89	7	154	39	0	8	52	1.31
1531983--1532124	12	11.6	12	70	14	94	40	0	11	46	1.46
1531992--1532126	14	10.8	13	71	18	85	41	0	11	46	1.44
1532089--1532136	24	2.0	24	88	4	71	41	0	6	52	1.27
1532103--1532144	17	2.5	17	80	0	57	40	0	2	57	1.12
1531989--1532186	86	2.3	85	80	10	208	41	1	10	46	1.48
1534728--1534752	4	6.2	4	100	0	50	52	24	0	24	1.48
1535076--1535178	29	3.6	29	89	2	136	25	30	30	14	1.95
1536129--1536389	41	6.3	41	80	5	258	32	19	14	32	1.93
1536129--1536391	125	2.1	123	87	1	364	32	19	15	32	1.93
1536367--1536416	25	2.0	25	92	0	82	38	18	14	30	1.89
1537014--1537096	43	1.9	43	87	0	121	9	6	18	66	1.41
1537034--1537096	21	2.9	22	77	13	76	7	6	20	65	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1539283--1539527	43	5.8	42	79	5	244	27	22	18	31	1.97
1539281--1539519	83	2.8	86	77	8	247	28	21	17	31	1.96
1539540--1539586	17	2.8	17	100	0	94	21	25	17	36	1.94
1541835--1541884	3	16.7	3	95	0	91	30	0	2	68	1.01
1543775--1543851	33	2.4	33	80	8	79	49	3	6	40	1.47
1550953--1550994	15	2.8	15	78	10	50	47	0	0	52	1.00
1552881--1552942	2	31.5	2	84	9	83	54	0	1	43	1.09
1556131--1556166	12	2.8	13	87	8	56	47	13	2	36	1.58
1564715--1565190	265	1.8	262	89	4	746	27	12	19	40	1.88
1565564--1565610	18	2.7	17	83	3	58	27	29	6	36	1.82
1584277--1584345	35	2.0	35	91	0	111	31	11	5	50	1.62
1584436--1584474	17	2.3	17	95	0	69	35	7	0	56	1.28
1584735--1584806	33	2.2	33	82	0	81	31	4	11	52	1.56
1584857--1584888	2	16.0	2	100	0	64	50	0	0	50	1.00
1584888--1584932	2	22.5	2	100	0	90	51	0	48	0	1.00
1586991--1587057	35	1.9	35	87	0	98	34	13	16	35	1.88
1588521--1588574	25	2.2	25	83	6	65	57	3	12	25	1.52
1590286--1590334	19	2.6	19	84	9	57	24	28	20	26	1.99
1590155--1590336	65	2.8	64	79	10	192	30	25	18	25	1.98
1590768--1590801	17	2.1	16	88	5	50	76	0	8	14	1.01
1594632--1594675	20	2.2	20	84	4	63	65	0	15	18	1.27
1600972--1601005	17	2.1	16	88	5	50	76	0	8	14	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610768--1610951	65	2.8	64	79	10	196	29	24	20	25	1.99
1610899--1610947	19	2.6	19	84	9	57	24	28	20	26	1.99
1611842--1611879	2	19.0	2	100	0	76	50	0	0	50	1.00
1614044--1614090	20	2.3	20	96	0	85	19	31	23	25	1.98
1615312--1615358	24	1.9	25	91	4	78	44	0	0	55	0.99
1616588--1616622	14	2.6	13	86	8	52	45	2	0	51	1.16
1616851--1616927	38	2.0	39	92	2	129	27	15	22	35	1.94
1617422--1617510	38	2.4	37	86	5	133	39	40	11	8	1.72
1617678--1617764	38	2.3	38	88	4	131	36	40	11	11	1.78
1617379--1618028	255	2.6	252	86	4	898	37	27	11	23	1.89
1619139--1619175	19	1.9	19	88	0	56	35	29	13	21	1.92
1620310--1620343	14	2.6	13	86	13	52	47	23	23	5	1.73
1622460--1622729	140	1.9	140	95	0	486	29	13	14	42	1.83
1622700--1622876	20	8.9	20	89	0	237	33	21	17	27	1.96
1622927--1622992	20	3.3	20	82	0	78	15	18	24	42	1.88
1623096--1623219	27	4.8	26	66	16	78	50	17	1	29	1.56
1623112--1623148	14	2.6	14	95	0	65	48	18	0	32	1.49
1623066--1623211	77	1.9	77	98	0	283	52	16	2	28	1.58
1623067--1623192	36	3.4	36	70	14	119	52	15	3	28	1.58
1624616--1624719	21	5.0	21	71	3	75	25	17	35	22	1.95
1624604--1624694	42	2.2	42	84	4	112	21	16	38	23	1.93
1624631--1624712	42	2.0	42	85	0	110	23	15	39	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624621--1624719	42	2.4	42	78	0	108	24	18	34	23	1.96
1625208--1625250	20	2.2	20	95	0	77	51	23	11	13	1.74
1625208--1625332	19	6.7	19	74	13	91	45	23	16	15	1.84
1625399--1625447	20	2.5	20	82	0	53	20	22	22	34	1.97
1627338--1627378	20	2.0	20	95	0	73	58	19	12	9	1.61
1627414--1627466	20	2.7	19	74	5	52	49	24	15	11	1.77
1627360--1627462	53	1.9	54	84	2	136	45	23	14	16	1.84
1627843--1627900	22	2.7	21	79	10	64	25	13	41	18	1.88
1627850--1627900	22	2.3	22	89	0	75	23	15	41	19	1.90
1628161--1628206	19	2.4	19	85	3	56	21	17	30	30	1.96
1628172--1628208	19	1.9	19	94	0	65	21	16	29	32	1.95
1633640--1633664	3	8.3	3	100	0	50	0	32	0	68	0.90
1637118--1637172	20	2.8	20	88	0	83	41	3	25	29	1.72
1637913--1637942	14	2.1	14	93	6	51	3	90	0	6	0.56
1639240--1639265	9	2.9	9	100	0	52	23	0	42	34	1.54
1643102--1643149	20	2.4	20	96	0	87	33	31	18	16	1.94
1643162--1643375	20	10.5	20	71	15	93	36	23	19	21	1.95
1643225--1643455	20	11.4	20	77	7	162	38	24	18	18	1.93
1643225--1643455	40	5.7	40	79	8	200	38	24	18	18	1.93
1643225--1643455	121	1.9	120	84	5	304	38	24	18	18	1.93
1644020--1644095	20	3.8	20	82	5	91	52	15	18	13	1.74
1644124--1644230	19	6.1	19	69	22	90	11	24	20	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644146--1644201	14	3.6	14	74	21	58	8	25	23	42	1.82
1644129--1644222	33	2.8	33	95	1	161	10	23	22	43	1.84
1646221--1646287	21	3.2	21	66	6	55	23	35	20	19	1.95
1646169--1646287	42	2.8	42	80	7	116	22	34	18	24	1.96
1647803--1647875	19	4.1	19	76	16	75	46	24	15	13	1.82
1647871--1648008	19	7.7	19	70	16	116	14	23	18	43	1.87
1647875--1648017	72	2.1	66	88	7	205	13	24	18	43	1.86
1647875--1648017	33	4.2	33	84	10	196	13	24	18	43	1.86
1647908--1648048	72	1.9	73	86	1	203	17	21	19	41	1.90
1650565--1650610	24	1.9	24	95	0	83	32	23	21	21	1.98
1651473--1651601	20	6.4	20	89	3	172	22	19	19	38	1.93
1651452--1651584	40	3.3	40	85	7	128	24	19	20	35	1.96
1651605--1651771	21	8.4	20	78	11	139	14	18	25	41	1.89
1651573--1651711	55	2.5	55	96	1	253	13	17	22	46	1.84
1651701--1651793	42	2.3	42	83	7	111	18	20	27	33	1.96
1651780--1651832	20	2.7	20	91	5	81	13	18	24	43	1.86
1651800--1651898	42	2.4	43	76	8	98	20	20	22	37	1.95
1656054--1656159	50	2.1	51	85	1	142	47	6	16	29	1.72
1657188--1657296	55	2.0	54	98	1	209	47	7	15	29	1.72
1662307--1662357	25	2.0	25	96	0	93	19	35	17	27	1.94
1662774--1662817	21	2.1	21	91	0	70	29	0	15	54	1.42
1662794--1662856	28	2.2	30	94	5	112	30	0	12	57	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1663353--1663397	24	1.9	24	81	4	56	42	0	8	48	1.34
1666701--1666733	13	2.4	14	90	5	50	42	0	18	39	1.50
1666556--1666876	49	6.6	48	88	5	416	41	0	11	46	1.46
1667087--1667178	19	5.2	19	68	24	65	34	0	10	54	1.36
1667084--1667186	35	3.0	34	87	5	147	34	0	11	53	1.37
1667119--1667202	11	7.2	11	69	12	51	35	0	11	52	1.38
1667155--1667479	26	12.6	25	76	12	189	45	2	7	44	1.44
1667084--1667451	70	5.3	71	72	18	226	42	1	8	46	1.44
1667185--1667453	66	4.1	66	85	7	309	46	2	7	44	1.44
1667163--1667466	14	24.3	12	74	17	214	45	2	7	45	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13