genome.fa.s9617.2.7.7.80.10.50.1000.8.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  8  of  16  ( 1887 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)
1459495--1459587	3	31.0	3	78	0	87	35	6	34	23	1.81
1459483--1459583	12	8.4	12	85	0	94	35	7	34	21	1.83
1459480--1459583	18	5.8	18	80	0	100	36	7	34	21	1.82
1461051--1461536	183	2.7	182	94	1	846	34	14	16	34	1.90
1464006--1464070	25	2.6	25	80	0	85	35	9	13	41	1.77
1464405--1464480	23	3.5	22	78	15	68	39	5	19	35	1.75
1464417--1464480	23	2.8	23	87	0	92	37	4	20	37	1.74
1464417--1464489	23	3.2	23	82	7	85	35	4	20	39	1.72
1464913--1464949	18	2.1	18	89	0	56	32	5	10	51	1.60
1465220--1465285	34	1.9	34	96	0	123	48	18	16	16	1.82
1465644--1465692	22	2.2	22	77	0	53	40	10	10	38	1.73
1465710--1465782	23	3.2	23	88	0	101	34	4	21	39	1.73
1465928--1465994	30	2.2	29	82	10	73	52	4	0	43	1.21
1470844--1470920	28	2.8	28	95	0	145	33	12	6	46	1.68
1482738--1482930	87	2.2	86	87	2	271	35	17	11	36	1.85
1485987--1486036	18	2.8	18	93	0	91	28	34	22	16	1.95
1486576--1486672	19	4.8	19	76	18	90	23	29	17	28	1.97
1486576--1486672	18	4.9	18	74	19	86	23	29	17	28	1.97
1492246--1492314	23	3.0	23	91	0	102	27	24	26	21	1.99
1492330--1492543	103	2.1	99	93	3	356	36	23	14	25	1.92
1492533--1492599	33	2.0	33	100	0	134	22	35	23	17	1.95
1496669--1496707	13	3.0	13	92	0	69	33	23	20	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1498306--1498353	25	2.0	25	87	4	71	20	4	10	64	1.41
1498592--1498639	3	15.7	3	95	4	87	66	0	0	33	0.92
1499451--1500249	399	2.0	399	99	0	1562	32	16	18	32	1.93
1504353--1504400	20	2.4	20	82	0	60	37	22	12	27	1.90
1504418--1504465	20	2.4	20	86	6	71	29	27	10	33	1.90
1504890--1504925	18	2.0	18	88	0	54	55	22	2	19	1.56
1505244--1505392	64	2.3	64	94	2	255	52	16	2	28	1.55
1506736--1506806	21	3.4	21	76	7	72	21	22	33	22	1.97
1506736--1506856	42	2.9	41	85	2	143	25	19	30	23	1.98
1506751--1506854	21	4.9	21	76	8	95	26	18	30	24	1.98
1507229--1507278	21	2.4	21	79	0	55	32	34	14	20	1.92
1508954--1509019	19	3.4	20	81	6	82	50	19	16	13	1.78
1508954--1508998	20	2.3	20	92	3	74	53	20	15	11	1.72
1509390--1509463	22	3.4	22	90	0	103	18	16	41	22	1.89
1509632--1509681	20	2.5	20	86	0	73	26	18	22	34	1.96
1513521--1513555	2	17.5	2	100	0	70	51	0	48	0	1.00
1516453--1516525	2	36.5	2	100	0	146	49	0	0	50	1.00
1521703--1521731	14	2.1	14	100	0	58	55	20	17	6	1.65
1521684--1521730	24	2.0	24	86	0	67	55	17	14	12	1.70
1523854--1523906	21	2.5	21	81	0	61	26	18	24	30	1.98
1524759--1524804	20	2.3	20	100	0	92	15	17	36	30	1.91
1525153--1525212	31	2.0	30	83	9	77	36	3	23	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1525435--1525495	23	2.7	23	78	0	77	19	24	26	29	1.99
1532072--1532131	31	2.0	30	83	9	77	36	3	23	36	1.71
1532354--1532414	23	2.7	23	81	0	77	21	26	24	27	1.99
1534055--1534115	23	2.7	23	84	0	77	27	26	24	21	1.99
1547183--1547211	15	1.9	15	100	0	58	51	27	0	20	1.47
1549488--1549525	7	5.7	7	81	12	53	73	0	0	26	0.83
1549489--1549525	19	1.9	19	94	0	65	72	0	0	27	0.84
1549615--1549722	24	4.3	25	69	18	64	75	2	5	16	1.12
1549645--1549731	16	5.4	16	75	13	54	78	2	5	13	1.03
1549959--1550013	24	2.3	23	78	9	58	69	0	3	27	1.05
1549969--1550033	25	2.6	25	81	11	71	73	0	6	20	1.03
1550054--1550153	13	8.4	12	70	20	68	71	2	2	25	1.08
1550022--1550132	46	2.3	47	80	13	120	67	1	2	27	1.14
1550103--1550156	17	3.1	17	74	12	56	74	1	3	20	1.07
1566698--1566738	8	5.2	8	82	5	57	34	0	29	36	1.58
1566809--1567549	128	5.9	128	92	3	1203	22	24	20	32	1.98
1567948--1568047	33	3.0	34	79	2	121	38	2	5	55	1.33
1568567--1568660	21	4.5	21	90	5	120	20	25	35	19	1.96
1568664--1568711	21	2.3	21	85	0	60	22	12	39	25	1.89
1570139--1570226	30	2.8	30	76	10	79	61	4	0	34	1.16
1570345--1570417	15	4.8	16	70	11	55	58	1	0	39	1.06
1570342--1570419	32	2.4	32	77	14	88	60	1	0	38	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571672--1571716	17	2.6	17	75	0	54	42	0	0	57	0.98
1571831--1571871	21	1.9	22	90	5	66	43	9	2	43	1.50
1574639--1574725	22	4.0	21	71	12	61	51	1	2	44	1.21
1574718--1574770	22	2.4	22	87	9	72	47	0	0	52	1.00
1574719--1574791	23	3.2	22	81	9	76	46	0	1	52	1.09
1574956--1575020	22	2.8	23	81	9	71	44	3	0	52	1.16
1576268--1576295	5	5.6	5	100	0	56	17	0	64	17	1.30
1581533--1581585	23	2.3	23	83	6	63	35	11	11	41	1.77
1588005--1588194	94	2.0	95	98	1	373	41	11	19	27	1.86
1597544--1597595	18	2.9	18	88	8	79	46	0	1	51	1.12
1601028--1601076	3	17.0	3	76	16	50	69	0	4	26	1.06
1602273--1602329	6	9.3	6	83	12	55	75	0	1	22	0.90
1602275--1602324	3	16.7	3	76	15	50	74	0	2	24	0.93
1602280--1602328	7	7.3	7	84	15	52	73	0	2	24	0.94
1602315--1602363	25	2.0	25	88	8	73	71	4	6	18	1.23
1602273--1602362	12	7.4	11	74	20	65	74	2	3	20	1.07
1602428--1602483	28	2.0	29	85	3	78	41	5	5	48	1.49
1602521--1602586	28	2.2	28	84	10	78	45	7	1	45	1.41
1602518--1602649	64	2.1	62	83	8	167	46	5	1	46	1.34
1602372--1602603	103	2.3	99	77	11	247	45	4	3	46	1.39
1602497--1602689	63	2.9	67	81	12	218	46	6	3	44	1.44
1602623--1602735	39	2.9	38	82	10	124	45	6	3	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602719--1602755	2	19.0	2	94	5	67	51	0	0	48	1.00
1603082--1604069	84	12.0	83	83	3	1088	25	20	24	29	1.99
1606071--1606264	97	2.0	97	100	0	388	24	18	27	28	1.98
1610655--1610738	12	6.9	11	73	24	55	75	2	3	19	1.07
1610735--1610831	36	2.6	37	78	4	106	46	6	3	44	1.44
1610805--1610860	29	1.9	29	88	0	85	42	7	5	44	1.54
1610880--1611066	63	2.8	67	79	13	194	45	5	3	45	1.43
1611000--1611111	39	2.9	38	81	6	127	44	5	4	45	1.46
1611097--1611139	2	22.0	2	85	4	61	46	4	0	48	1.22
1611204--1611259	25	2.2	25	93	0	94	41	1	41	16	1.58
1615447--1615533	45	1.9	45	97	0	165	36	6	8	48	1.60
1615569--1615685	63	1.9	60	89	5	180	42	13	7	35	1.73
1619028--1619078	23	2.2	23	85	0	66	50	9	23	15	1.73
1623409--1623702	147	2.0	147	97	0	516	31	22	6	39	1.79
1624591--1624625	17	2.1	17	94	0	61	34	34	17	14	1.90
1641762--1641880	41	2.9	42	96	2	222	43	21	5	29	1.75
1643153--1643179	14	1.9	14	100	0	54	29	7	0	62	1.22
1653022--1653085	33	1.9	33	96	0	119	48	10	18	21	1.79
1653016--1653608	36	17.4	36	70	17	266	41	10	20	27	1.85
1653059--1653536	101	4.7	101	75	10	458	41	9	20	28	1.84
1652911--1653400	65	7.3	65	72	17	297	41	10	19	28	1.85
1652957--1653321	135	2.7	134	88	2	525	41	9	19	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1653148--1653658	166	3.0	169	80	5	568	40	10	19	29	1.84
1653449--1653608	73	2.2	71	83	4	194	40	11	20	27	1.86
1657930--1658254	162	2.0	163	99	0	643	25	20	16	36	1.94
1658377--1658425	26	2.0	24	84	8	62	73	0	8	18	1.07
1660862--1660899	18	2.1	18	90	0	58	44	5	5	44	1.49
1664437--1664480	21	2.1	21	91	0	70	29	0	15	54	1.42
1664477--1664537	5	12.6	5	79	19	67	36	0	4	59	1.19
1664457--1664558	38	2.7	38	98	0	195	32	0	9	57	1.31
1664457--1664570	38	3.1	34	91	6	129	33	0	9	57	1.32
1664534--1664642	45	2.3	49	78	10	120	42	0	10	46	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16