genome.fa.s8982.2.7.7.80.10.50.1000.9.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: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2253222

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

This is table  9  of  12  ( 1401 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)
1410233--1410283	22	2.2	22	80	16	59	27	0	9	62	1.26
1410397--1410432	10	3.6	10	88	0	54	63	13	11	11	1.51
1410378--1410446	24	2.9	24	82	4	77	60	14	13	11	1.58
1410417--1410468	14	3.7	14	89	0	77	57	11	11	19	1.63
1418890--1418963	38	1.9	38	81	5	87	29	20	4	45	1.69
1419154--1419314	60	2.7	60	83	5	184	40	4	20	33	1.74
1420477--1420510	16	2.0	17	88	11	52	47	2	0	50	1.16
1421871--1421920	6	8.0	6	88	2	64	44	0	56	0	0.99
1421866--1421916	16	3.3	15	78	21	52	41	0	58	0	0.98
1422789--1423184	99	4.0	99	93	0	639	35	15	23	25	1.94
1426184--1426223	21	1.9	21	94	0	71	55	0	7	37	1.29
1430634--1430672	19	2.0	19	85	5	51	53	23	12	10	1.69
1437889--1437926	6	6.3	6	93	0	67	34	2	0	63	1.09
1438238--1438269	17	1.9	16	93	6	55	40	6	3	50	1.43
1438660--1438736	31	2.5	31	91	0	127	23	10	14	51	1.72
1441954--1441998	14	3.1	14	81	15	56	40	0	2	57	1.11
1442099--1442142	23	1.9	23	90	0	70	59	0	2	38	1.10
1442098--1442182	42	2.0	43	82	11	104	57	1	1	40	1.14
1442106--1442193	23	4.1	22	74	12	69	54	3	1	40	1.24
1442284--1442335	21	2.4	22	81	12	63	51	3	1	42	1.31
1449415--1449496	22	3.7	22	71	15	62	24	36	21	17	1.94
1454389--1454462	35	2.1	35	92	0	121	33	28	27	10	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454541--1454631	24	3.8	24	83	2	103	39	19	14	26	1.90
1454541--1454615	24	3.2	23	86	5	105	37	21	14	26	1.92
1459718--1459798	42	2.0	41	83	16	105	41	2	1	54	1.21
1459793--1459847	15	3.7	15	88	7	78	30	3	3	61	1.30
1460139--1460203	16	4.1	16	75	11	62	33	1	7	56	1.37
1460147--1460213	16	4.2	16	74	12	50	34	4	5	55	1.45
1461209--1461433	109	2.1	109	88	1	326	44	11	15	29	1.81
1461420--1461877	77	6.0	76	80	7	498	36	10	17	35	1.84
1462195--1462316	37	3.2	36	68	8	100	37	22	6	33	1.80
1462168--1462373	40	5.3	40	68	6	136	39	20	5	34	1.77
1462024--1462404	77	5.0	77	84	3	437	38	18	8	34	1.81
1462830--1462871	22	2.0	22	95	4	77	66	0	14	19	1.25
1463155--1463197	2	22.0	2	95	4	79	48	0	0	51	1.00
1464595--1464639	20	2.2	20	84	8	54	37	22	17	22	1.94
1475575--1475618	13	3.5	13	76	17	56	34	31	0	34	1.58
1475573--1475631	25	2.4	25	91	0	91	35	28	1	33	1.68
1483372--1483408	20	1.9	19	89	10	58	45	10	24	18	1.81
1490564--1490611	2	24.0	2	100	0	96	50	0	50	0	1.00
1494081--1494158	37	2.1	37	100	0	156	55	5	14	25	1.60
1494792--1495392	150	4.0	151	88	0	823	25	21	16	36	1.94
1495655--1495785	33	4.0	33	91	0	217	23	22	17	35	1.95
1497117--1497178	31	2.0	31	93	0	106	33	4	12	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1497177--1497220	2	22.0	2	100	0	88	50	0	0	50	1.00
1502394--1502461	33	2.1	33	94	0	118	36	19	23	20	1.95
1505318--1505404	32	2.8	31	72	10	77	33	17	17	32	1.93
1505553--1505579	14	1.9	14	100	0	54	44	29	0	25	1.54
1505553--1505587	14	2.5	14	90	0	52	45	25	2	25	1.67
1509216--1509266	25	2.0	27	85	14	72	33	1	0	64	1.05
1520392--1520447	20	2.8	20	91	0	85	30	35	17	16	1.92
1526107--1526144	20	1.9	20	84	10	51	57	0	5	36	1.21
1526107--1526146	21	2.0	20	85	5	53	57	0	5	37	1.21
1532899--1532937	19	2.1	19	90	0	60	56	10	2	30	1.46
1539537--1539573	19	1.9	19	89	10	58	32	13	0	54	1.40
1564318--1564446	64	2.0	64	95	0	231	24	12	20	42	1.86
1565478--1565510	10	3.5	10	92	8	52	72	9	0	18	1.10
1574051--1574130	33	2.4	32	85	8	99	20	26	33	20	1.96
1574068--1574135	33	2.1	33	88	0	100	22	25	33	19	1.97
1577426--1577533	55	2.0	55	98	0	207	32	8	12	46	1.72
1577909--1577957	23	2.1	23	100	0	98	24	12	34	28	1.91
1580604--1580677	22	3.3	22	94	3	121	45	5	9	39	1.59
1581800--1581824	12	2.1	12	100	0	50	48	8	28	16	1.74
1581982--1582055	20	3.7	20	98	0	139	10	29	35	24	1.89
1581982--1582055	10	7.4	10	81	17	91	10	29	35	24	1.89
1589564--1589608	2	24.0	2	82	13	51	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589566--1589617	25	2.0	26	88	3	79	44	0	0	55	0.99
1610935--1611280	183	1.9	183	94	0	611	28	20	20	29	1.98
1612422--1612584	36	4.5	36	77	3	166	23	18	14	43	1.86
1612509--1612620	36	3.1	36	68	14	104	28	16	14	41	1.87
1612523--1612636	36	3.2	35	68	15	88	28	16	13	41	1.86
1612471--1612646	72	2.4	72	90	1	264	26	18	13	41	1.87
1613556--1613622	23	2.9	23	88	0	98	26	25	25	22	2.00
1613638--1613855	103	2.1	103	93	0	373	37	22	12	26	1.91
1619277--1619343	23	2.9	23	84	0	89	26	25	23	23	2.00
1619359--1619576	103	2.1	103	93	1	375	37	22	13	27	1.91
1621480--1621505	2	13.0	2	100	0	52	50	0	0	50	1.00
1622673--1622716	22	1.9	22	86	9	61	34	4	4	56	1.40
1628039--1628209	91	1.9	92	90	3	274	25	14	12	47	1.78
1630148--1630178	2	15.0	2	93	6	53	48	3	0	48	1.17
1631680--1631880	75	2.6	77	84	3	264	20	23	32	23	1.98
1634474--1634513	21	1.9	21	89	0	62	10	25	40	25	1.86
1640324--1640525	75	2.6	75	85	3	251	21	23	32	22	1.98
1641725--1641882	85	1.9	84	82	7	203	30	16	20	32	1.95
1641854--1641918	13	5.0	13	86	3	87	35	16	21	26	1.95
1643933--1644003	24	3.0	25	83	8	94	19	25	23	30	1.98
1645269--1645303	12	3.0	12	87	4	54	11	14	8	65	1.46
1645998--1646041	21	2.0	22	86	4	63	22	22	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1646067--1646116	25	2.0	25	88	0	73	24	18	28	30	1.97
1666218--1666271	21	2.6	21	88	5	74	64	5	9	20	1.42
1666277--1666324	20	2.3	20	71	3	51	66	4	6	22	1.32
1669458--1669530	30	2.4	30	95	0	128	30	24	20	24	1.99
1671355--1671572	103	2.1	103	95	0	391	26	13	23	36	1.92
1675756--1675823	31	2.2	30	87	10	93	45	0	2	51	1.16
1675756--1675823	30	2.2	30	87	10	93	45	0	2	51	1.16
1675864--1675941	39	2.0	39	89	0	120	29	11	12	46	1.77
1680127--1680177	3	17.3	3	76	11	52	29	3	0	66	1.09
1680127--1680180	12	4.6	12	79	6	58	27	5	0	66	1.13
1680245--1680276	2	16.0	2	100	0	64	50	0	0	50	1.00
1681120--1681158	20	2.0	19	90	5	60	35	0	10	53	1.35
1681769--1681824	30	2.0	27	86	10	76	35	17	12	33	1.88
1682034--1682090	17	3.0	20	77	15	66	43	0	3	52	1.18
1682463--1682523	24	2.5	24	91	2	95	32	4	0	62	1.17
1682568--1682617	24	2.0	26	88	7	77	34	6	0	60	1.21
1682615--1682647	15	2.3	15	89	5	50	42	3	0	54	1.15
1683122--1683175	6	9.0	6	100	0	108	0	66	0	33	0.92
1690342--1690402	32	1.9	32	93	0	104	21	9	9	59	1.58
1692766--1692793	5	5.6	5	100	0	56	82	0	0	17	0.68
1696694--1696726	16	2.1	16	94	0	57	39	0	9	51	1.34
1697757--1697831	33	2.2	33	90	2	114	49	2	24	24	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1703349--1703455	30	3.6	30	86	3	128	41	10	13	35	1.78
1703402--1703450	14	3.4	14	72	5	53	42	12	12	32	1.79
1704825--1704994	84	2.0	84	86	0	232	40	10	19	29	1.85
1706132--1706200	34	2.0	34	100	0	138	37	15	23	23	1.93
1711286--1711311	2	13.0	2	100	0	52	50	0	0	50	1.00
1713569--1713699	3	43.0	3	84	4	156	60	1	0	37	1.12
1715684--1715747	24	2.6	23	80	11	74	46	0	0	53	1.00
1715741--1715774	2	17.5	2	93	6	61	50	0	0	50	1.00
1716649--1716686	20	2.0	20	89	5	60	60	0	5	34	1.19
1716795--1716853	20	2.9	20	71	14	57	64	0	3	32	1.10

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