genome.fa.s8662.2.7.7.80.10.50.1000.7.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: VEPZ01008662.1 Hibiscus syriacus cultivar Beakdansim tig00111662_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1703488

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 848 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)
1400443--1400490	22	2.2	21	78	7	60	79	4	8	8	1.06
1400486--1400521	4	8.8	4	93	6	63	75	0	2	22	0.94
1400566--1400826	108	2.4	108	80	9	302	60	2	6	30	1.36
1400783--1400838	8	6.5	8	75	18	51	71	3	0	25	1.02
1400781--1400838	15	3.9	15	81	2	64	72	3	0	24	1.00
1400565--1400863	108	2.8	106	78	11	281	60	3	6	30	1.36
1401898--1401951	2	27.0	2	100	0	108	50	0	0	50	1.00
1402577--1402705	43	3.0	43	87	0	177	21	15	28	34	1.94
1403688--1403730	13	3.4	12	81	9	50	0	16	2	81	0.79
1403687--1403723	17	2.2	17	90	9	58	0	13	2	83	0.74
1412136--1412175	14	2.9	14	92	0	62	20	10	40	30	1.85
1412618--1412642	8	3.1	8	100	0	50	24	12	40	24	1.88
1414081--1414118	15	2.7	14	88	8	51	76	2	5	15	1.08
1414208--1414477	97	2.7	102	79	10	283	59	2	6	30	1.38
1414391--1414431	22	2.0	22	85	9	59	56	2	2	39	1.26
1415578--1415606	2	14.5	2	100	0	58	51	0	0	48	1.00
1416515--1416555	3	13.7	3	100	0	82	34	0	0	65	0.93
1423731--1423797	23	2.9	23	81	2	80	26	31	25	16	1.96
1423760--1423807	23	2.2	22	88	7	71	20	27	31	20	1.98
1425378--1425425	18	2.6	17	87	12	69	43	25	31	0	1.55
1427948--1427989	18	2.3	18	88	8	59	42	0	0	57	0.99
1429733--1429757	12	2.1	12	100	0	50	32	28	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1434814--1434863	22	2.3	22	85	0	73	24	20	24	32	1.98
1435879--1435989	54	2.1	54	88	6	163	41	14	18	26	1.88
1436356--1436451	22	4.5	21	84	6	131	36	14	14	34	1.87
1436356--1436451	42	2.3	43	90	1	149	36	14	14	34	1.87
1437139--1437220	31	2.7	32	87	9	127	24	18	19	37	1.94
1437170--1437343	76	2.3	76	90	2	262	25	18	20	34	1.96
1437277--1437380	45	2.3	45	89	0	154	30	18	17	33	1.94
1437201--1437769	121	4.6	121	85	7	687	25	20	19	34	1.96
1437398--1437511	45	2.5	45	92	2	183	24	21	20	34	1.97
1437519--1437862	45	7.5	45	91	1	499	25	22	19	31	1.98
1438086--1438133	3	16.3	3	89	4	71	35	2	0	62	1.07
1444975--1445039	24	2.7	24	90	0	94	27	12	15	44	1.82
1449861--1449909	21	2.2	21	85	7	62	36	18	12	32	1.88
1462620--1462696	33	2.4	33	78	8	79	49	15	19	15	1.80
1471145--1471201	18	3.1	18	87	5	78	40	17	15	26	1.90
1472074--1472131	21	2.9	19	80	10	62	32	27	13	25	1.94
1473039--1473124	35	2.5	35	80	0	91	31	25	13	29	1.94
1476062--1476099	19	2.0	20	89	5	60	39	2	0	57	1.12
1476062--1476105	19	2.2	20	84	8	54	36	2	4	56	1.32
1485629--1485666	18	2.1	19	85	14	53	34	5	5	55	1.45
1486556--1486649	45	2.2	42	78	10	104	57	0	7	35	1.27
1491678--1491734	28	2.1	28	86	3	80	49	12	3	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491833--1491920	30	2.9	30	84	6	106	56	4	5	32	1.43
1495550--1495582	12	2.8	12	90	0	57	57	21	0	21	1.41
1499396--1499433	20	1.9	20	100	0	76	31	15	34	18	1.92
1499396--1499447	20	2.6	20	87	6	70	32	15	30	21	1.94
1499463--1499500	19	2.1	18	90	9	60	44	18	15	21	1.86
1499467--1499523	19	2.8	20	81	7	62	38	17	17	26	1.92
1499867--1500189	55	5.9	55	89	2	454	33	18	19	28	1.96
1501265--1501310	2	23.0	2	100	0	92	50	0	0	50	1.00
1518028--1518085	23	2.5	23	97	0	107	39	10	3	46	1.55
1519879--1519996	59	2.0	60	86	1	166	25	5	22	46	1.72
1530262--1530360	49	2.1	48	92	3	164	18	24	10	47	1.79
1532749--1532793	21	2.1	21	95	0	81	17	11	8	62	1.53
1533383--1533427	22	2.0	22	100	0	90	37	4	22	35	1.74
1534509--1534574	31	2.1	33	85	5	91	48	4	0	46	1.22
1539490--1539560	36	2.0	35	91	2	115	30	8	23	36	1.85
1540049--1540101	22	2.3	21	84	12	61	41	0	5	52	1.25
1541192--1541310	35	3.3	35	78	11	107	45	6	10	37	1.64
1541243--1541382	39	3.7	38	74	16	128	47	7	7	37	1.60
1541216--1541345	37	3.6	36	78	13	101	45	5	8	40	1.57
1541213--1541367	74	2.1	72	77	15	156	44	7	9	38	1.65
1541449--1541498	5	10.0	5	85	10	59	18	0	2	80	0.82
1541458--1541515	23	2.5	24	83	5	66	17	3	1	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541449--1541515	29	2.3	29	80	7	75	19	2	1	76	1.00
1544033--1544063	12	2.6	12	94	0	53	25	3	0	70	1.02
1554984--1555251	76	3.5	75	77	10	233	44	4	8	42	1.56
1554983--1555221	37	6.2	38	73	16	179	45	4	8	42	1.53
1554984--1555254	39	7.1	37	75	12	210	44	4	8	42	1.56
1555229--1555274	17	2.8	17	71	15	51	43	2	4	50	1.34
1555319--1555369	15	3.3	15	83	2	66	13	7	0	78	0.96
1555319--1555369	5	10.0	5	93	2	57	13	7	0	78	0.96
1556712--1556754	14	3.1	13	83	12	50	23	4	0	72	1.04
1561939--1562035	3	33.7	3	81	8	105	65	2	3	28	1.18
1561966--1562034	23	2.9	23	77	14	52	68	0	2	28	1.04
1562392--1562541	40	3.5	40	71	18	147	21	22	10	46	1.82
1562427--1562567	40	3.0	50	67	20	149	25	19	12	42	1.86
1562392--1562567	91	1.9	91	100	0	352	23	21	11	44	1.84
1562483--1563248	113	6.8	113	87	6	940	29	19	13	37	1.90
1562280--1562874	221	2.8	206	88	8	793	28	19	13	39	1.89
1562483--1563248	338	2.3	334	86	4	1019	29	19	13	37	1.90
1562483--1563248	221	3.4	222	83	8	923	29	19	13	37	1.90
1564004--1564433	82	5.2	82	94	1	707	38	22	12	26	1.90
1565198--1565245	19	2.7	18	87	9	64	56	8	6	29	1.53
1565575--1565650	1	76.0	1	73	0	62	0	13	0	86	0.56
1565575--1565655	7	11.0	7	87	12	110	0	14	0	85	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565576--1565655	38	2.0	40	95	4	146	0	15	0	85	0.61
1573623--1573780	79	2.0	79	98	1	309	17	25	13	43	1.86
1573844--1573960	58	2.0	59	98	1	227	22	21	13	42	1.87
1576007--1576069	22	2.9	21	78	7	63	60	1	1	36	1.16
1576666--1576706	15	2.9	15	82	10	52	63	0	0	36	0.95
1578114--1578198	3	28.3	3	95	0	152	67	0	1	31	0.99
1587986--1588075	37	2.4	38	90	5	139	25	21	2	51	1.59
1592256--1592314	25	2.3	25	75	13	59	42	0	5	52	1.23
1592466--1592503	14	2.7	14	95	0	67	21	13	15	50	1.78
1592524--1592563	2	20.5	2	94	5	73	50	0	0	50	1.00
1593018--1593084	19	3.4	19	93	4	107	20	37	29	11	1.89
1593018--1593098	39	2.0	40	83	6	103	19	38	25	16	1.92
1594374--1594421	19	2.5	20	82	3	62	52	6	12	29	1.63
1595863--1595921	20	3.0	20	87	0	91	20	33	30	15	1.93
1596928--1597007	23	3.8	21	85	6	101	16	25	36	22	1.94
1597347--1597397	24	2.3	22	86	10	68	19	45	0	35	1.51
1599738--1599778	20	2.0	20	90	0	64	14	26	39	19	1.90
1601801--1601898	29	3.4	29	70	5	90	32	24	3	39	1.71
1601794--1601956	58	2.8	60	80	10	176	33	21	4	39	1.75
1601806--1601956	60	2.6	58	82	8	164	33	21	4	39	1.74
1603515--1603556	20	2.1	20	100	0	84	28	19	26	26	1.98
1611055--1611079	10	2.5	10	100	0	50	32	16	8	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1626659--1626692	16	2.1	16	94	0	59	32	26	8	32	1.87
1631036--1631121	30	2.8	30	80	13	95	43	11	6	38	1.68
1631036--1631121	31	2.8	30	84	6	111	43	11	6	38	1.68
1631098--1631224	62	2.0	62	93	0	218	43	14	11	31	1.80
1637530--1637579	25	2.0	26	88	4	75	34	2	34	30	1.69
1640783--1640834	2	26.0	2	100	0	104	50	0	0	50	1.00
1644729--1644772	20	2.2	20	87	0	61	29	15	20	34	1.94
1662923--1662960	16	2.4	16	86	4	51	36	21	5	36	1.76
1663066--1663100	2	17.5	2	100	0	70	51	0	0	48	1.00
1663100--1663128	2	14.5	2	100	0	58	51	0	48	0	1.00

Tables:   1   2   3   4   5   6   7   8