genome.fa.s8243.2.7.7.80.10.50.1000.9.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   

This is table  9  of  49  ( 5786 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)
1423858--1423930	33	2.2	34	85	7	96	13	20	26	39	1.90
1423903--1423967	20	3.2	20	84	0	76	15	15	24	44	1.85
1423933--1423972	20	2.0	20	90	0	62	12	12	17	57	1.65
1425830--1426046	20	11.5	20	81	13	210	42	22	17	17	1.89
1425853--1425933	33	2.4	33	83	2	90	48	22	17	12	1.80
1426093--1426176	20	4.2	20	95	0	141	20	20	21	38	1.94
1426728--1426769	21	2.2	19	87	12	59	21	35	19	23	1.96
1426723--1426844	42	2.9	43	74	11	110	22	35	18	23	1.96
1428095--1428130	14	2.6	14	90	0	54	30	0	22	47	1.52
1428279--1428367	20	4.4	20	87	2	126	16	22	25	34	1.95
1430800--1430853	24	2.2	24	90	0	81	40	20	16	22	1.91
1430816--1430867	24	2.2	24	82	0	59	36	21	19	23	1.95
1431695--1431741	20	2.3	20	92	0	76	21	19	27	31	1.97
1431728--1431841	20	5.7	20	84	2	156	19	21	21	37	1.94
1431715--1431841	40	3.2	38	81	9	146	19	20	22	37	1.95
1431728--1431855	41	3.1	41	84	1	168	21	20	21	35	1.96
1431748--1431882	61	2.2	61	84	5	166	24	20	22	32	1.98
1432484--1432520	14	2.6	15	83	8	51	62	0	0	37	0.96
1432622--1432662	11	3.7	11	86	0	55	39	0	0	60	0.96
1434432--1434526	31	3.1	31	80	3	111	34	21	17	26	1.95
1435180--1435328	64	2.3	65	85	6	196	28	17	20	33	1.95
1438611--1438705	31	3.1	31	80	3	111	34	21	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446351--1446501	67	2.3	66	82	3	180	41	12	13	32	1.83
1446495--1446578	27	3.0	27	81	10	89	44	13	14	28	1.82
1450608--1450695	32	2.8	31	81	6	108	38	9	21	30	1.85
1450990--1451112	31	4.0	31	77	6	133	27	18	18	34	1.95
1451924--1451986	22	2.9	22	85	0	81	20	12	17	49	1.79
1451923--1451989	12	5.9	12	71	13	52	20	13	17	47	1.81
1452640--1453083	222	2.0	222	98	0	861	23	18	18	38	1.93
1454287--1454324	16	2.3	17	86	4	51	63	10	5	21	1.46
1455320--1455388	28	2.4	27	79	9	75	63	5	15	14	1.48
1456824--1456864	3	13.3	3	85	14	57	65	0	0	34	0.93
1456828--1456876	10	4.9	10	90	7	73	65	0	2	32	1.04
1460846--1460903	21	2.8	21	89	5	82	31	1	22	44	1.63
1460867--1460961	21	4.5	21	80	5	93	27	0	29	43	1.55
1460888--1460945	28	2.1	28	80	6	64	25	0	31	43	1.55
1461240--1461272	17	1.9	17	93	0	57	27	18	21	33	1.96
1461258--1461345	11	7.6	11	77	7	59	27	25	22	25	2.00
1461279--1461322	12	3.8	12	88	11	65	34	27	18	20	1.96
1461258--1461345	35	2.5	34	77	12	88	27	25	22	25	2.00
1461889--1461919	14	2.2	14	94	0	53	64	0	0	35	0.94
1463890--1464051	63	2.5	64	86	4	204	34	20	18	25	1.96
1464589--1464638	16	3.1	16	88	5	66	32	0	0	68	0.90
1464599--1464646	17	2.9	17	90	3	71	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465428--1465484	25	2.3	25	100	0	114	36	17	17	28	1.93
1465948--1466016	35	1.9	36	88	2	104	28	5	2	62	1.33
1466107--1466139	14	2.4	14	90	10	50	42	3	0	54	1.15
1466848--1466894	14	3.5	14	77	19	55	27	2	0	70	0.99
1471474--1471505	2	16.0	2	100	0	64	50	0	0	50	1.00
1471798--1471857	18	3.2	19	77	15	63	81	0	15	3	0.81
1471802--1471877	15	4.9	15	83	3	89	80	0	17	2	0.83
1474024--1474243	114	1.9	114	96	0	404	32	15	21	30	1.94
1476307--1476472	54	3.1	54	95	0	287	36	14	24	24	1.93
1476839--1476937	22	4.5	22	87	3	146	35	11	11	42	1.76
1477327--1478342	113	9.0	111	93	1	1419	36	16	19	27	1.93
1478594--1478650	3	21.0	3	77	16	54	33	0	0	66	0.92
1478595--1478648	19	2.9	19	88	2	83	33	0	0	66	0.92
1478689--1478736	25	1.9	25	83	8	62	33	41	14	10	1.80
1479954--1480022	35	1.9	36	88	2	104	28	5	2	62	1.33
1480116--1480148	14	2.4	14	90	10	50	42	3	0	54	1.15
1480894--1480954	23	2.7	23	86	0	95	18	26	27	27	1.98
1484658--1484752	30	3.1	29	85	7	111	36	41	3	18	1.67
1487448--1487488	23	1.9	22	85	14	59	68	0	0	31	0.90
1495208--1495311	30	3.5	30	64	2	75	30	15	11	42	1.82
1495215--1495327	59	1.9	59	94	3	201	30	15	10	44	1.80
1497649--1497687	19	2.0	21	90	10	64	25	10	5	58	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502635--1502672	19	2.0	20	84	5	51	34	0	5	60	1.19
1506306--1506412	24	4.5	24	74	0	97	47	16	14	21	1.82
1506306--1506414	48	2.3	48	77	0	119	47	16	14	21	1.82
1510623--1510719	31	3.1	31	88	2	131	30	24	17	26	1.97
1515294--1515432	32	4.4	32	83	9	171	35	22	15	26	1.94
1515287--1515416	63	2.1	63	94	0	224	34	20	16	28	1.94
1516475--1516511	19	1.9	19	94	0	65	27	35	16	21	1.94
1519256--1519336	30	2.7	31	84	7	114	38	32	9	19	1.85
1521534--1521590	22	2.8	20	71	21	55	75	3	3	17	1.09
1521806--1521887	10	8.2	10	71	15	55	74	1	4	19	1.07
1521794--1521973	82	2.2	83	78	10	190	70	1	5	23	1.16
1521847--1521975	29	4.4	28	72	21	102	70	0	3	24	1.09
1521855--1521971	43	2.8	43	69	20	106	68	0	4	26	1.14
1522554--1522650	37	2.6	37	80	6	115	32	11	13	42	1.80
1522678--1522794	29	3.9	31	72	18	97	42	11	5	41	1.62
1522766--1522861	36	2.6	36	82	11	115	42	9	3	44	1.52
1525484--1525617	66	2.0	65	92	1	223	40	19	7	32	1.79
1527582--1527653	31	2.4	30	81	9	83	43	6	8	41	1.62
1527699--1527736	20	1.9	20	94	0	67	44	10	23	21	1.83
1527700--1527742	20	2.3	19	84	8	52	48	9	20	20	1.77
1533477--1533507	14	2.3	14	94	5	55	45	3	6	45	1.45
1536888--1536934	2	25.0	2	83	12	64	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536888--1536930	13	3.4	13	96	3	79	55	0	0	44	0.99
1536887--1536934	11	4.5	11	82	15	64	56	0	0	43	0.99
1546291--1546430	5	29.4	5	84	15	199	39	0	0	60	0.97
1546294--1546427	18	7.2	18	82	17	175	39	0	0	60	0.97
1546290--1546430	56	2.6	56	92	7	229	39	0	0	60	0.96
1546749--1546777	13	2.1	14	93	6	51	68	0	0	31	0.89
1546804--1546832	14	2.1	14	93	6	51	68	0	13	17	1.20
1547811--1547851	22	1.9	22	85	14	59	4	29	31	34	1.79
1548046--1548123	23	3.7	21	76	20	65	67	1	0	30	0.98
1548060--1548122	26	2.5	26	84	10	85	66	1	0	31	1.01
1548050--1548116	33	2.0	33	85	5	91	68	0	0	31	0.90
1548051--1548114	26	2.4	26	79	10	76	68	0	0	31	0.90
1548189--1548262	2	38.0	2	85	10	91	50	1	0	48	1.09
1548171--1548264	27	3.7	25	82	10	102	46	3	0	50	1.17
1548189--1548271	29	2.9	30	87	7	111	50	1	0	48	1.08
1554159--1554238	23	3.4	23	71	10	81	20	23	25	31	1.98
1554875--1554902	14	2.0	14	100	0	56	21	21	21	35	1.96
1556548--1556586	18	2.2	18	100	0	78	25	30	23	20	1.98
1557186--1557411	103	2.2	103	95	3	418	26	13	24	35	1.93
1557419--1557505	23	3.8	23	87	0	120	19	25	25	29	1.98
1558771--1558810	20	2.0	21	85	5	55	27	30	27	15	1.96
1559642--1559691	24	2.0	25	88	7	75	40	4	22	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562614--1562686	36	2.0	37	91	2	121	16	30	31	21	1.95
1563686--1563760	23	3.2	23	71	17	82	20	26	22	30	1.98
1574223--1574354	68	1.9	69	92	1	221	21	12	15	49	1.79
1576636--1577068	152	2.8	155	78	8	423	42	8	15	33	1.77
1577167--1577244	30	2.6	30	87	2	102	53	7	8	29	1.60
1577194--1577248	16	3.6	16	69	18	53	52	9	7	30	1.60
1579075--1579110	16	2.2	17	95	5	65	22	8	5	63	1.43
1579456--1579513	27	2.1	27	83	0	80	34	36	10	18	1.85
1579461--1579512	27	1.9	27	92	0	86	36	32	9	21	1.86
1582663--1582687	4	6.2	4	100	0	50	76	0	0	24	0.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49