genome.fa.s7926.2.7.7.80.10.50.1000.7.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  7  of  42  ( 5024 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)
1464963--1465001	6	6.3	6	91	5	60	15	12	17	53	1.72
1464963--1465001	19	2.1	18	90	4	60	15	12	17	53	1.72
1466596--1466630	15	2.3	15	90	0	52	22	51	17	8	1.72
1470784--1470875	42	2.2	42	94	0	157	26	21	20	31	1.98
1470915--1470939	13	1.9	13	100	0	50	32	24	20	24	1.98
1470935--1471051	22	5.5	21	68	16	80	25	19	23	31	1.98
1470927--1471178	42	6.1	42	73	11	243	27	19	23	30	1.98
1470927--1471032	20	5.1	20	67	24	76	24	21	24	29	1.99
1470781--1471103	177	1.8	177	91	0	529	30	19	21	29	1.98
1471543--1471773	53	4.4	53	89	0	336	29	21	26	22	1.99
1477220--1477249	14	2.1	14	100	0	60	20	6	6	66	1.38
1479766--1479818	2	27.0	2	96	3	99	49	0	0	50	1.00
1480896--1480953	30	2.0	30	86	10	84	27	1	0	70	0.97
1480895--1480975	33	2.5	32	77	18	87	23	4	0	71	1.05
1481180--1481261	21	3.9	19	78	13	65	17	4	3	74	1.14
1481205--1481260	27	2.1	27	86	6	78	17	5	1	75	1.09
1481205--1481255	11	4.6	11	78	9	50	17	5	1	74	1.11
1482613--1482650	19	2.0	19	90	10	60	42	0	0	57	0.98
1489818--1489939	60	2.0	60	82	6	149	43	9	4	41	1.59
1491242--1491289	20	2.4	20	96	0	87	45	18	16	18	1.85
1491283--1491341	20	2.9	21	85	5	77	28	15	18	37	1.91
1491286--1491348	20	3.2	20	81	0	72	25	15	19	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492437--1492481	23	2.0	23	86	0	63	24	24	26	24	2.00
1492457--1492763	149	2.1	149	94	1	544	34	21	17	27	1.95
1493656--1493690	18	1.9	18	88	11	54	22	17	5	54	1.64
1494177--1494337	64	2.5	63	85	8	200	26	21	18	33	1.96
1497463--1497507	23	2.0	23	90	0	72	24	26	26	22	2.00
1497475--1497787	149	2.1	147	92	3	522	34	21	17	26	1.96
1498683--1498717	18	1.9	18	88	11	54	22	17	5	54	1.64
1499207--1499367	64	2.5	63	83	8	182	26	21	18	33	1.96
1501092--1501214	42	2.9	42	85	2	176	26	35	13	25	1.92
1501327--1501483	21	7.5	21	79	4	120	21	15	31	31	1.94
1501327--1501483	42	3.8	41	75	6	145	21	15	31	31	1.94
1501327--1501483	63	2.5	63	77	4	165	21	15	31	31	1.94
1501784--1501916	21	6.3	21	80	5	135	21	36	15	25	1.93
1504098--1504144	20	2.3	20	88	3	67	23	10	19	46	1.80
1504107--1504146	20	2.0	20	95	0	71	22	10	22	45	1.82
1504511--1504554	12	3.7	12	81	0	52	18	4	25	52	1.64
1505436--1505606	20	8.6	20	68	10	71	36	12	22	28	1.91
1505435--1505583	60	2.5	60	79	4	158	36	13	22	28	1.92
1505495--1505603	40	2.7	40	81	5	123	34	11	23	30	1.90
1505572--1505625	22	2.6	20	79	5	63	31	9	25	33	1.88
1507438--1507478	2	21.0	2	92	5	66	51	2	0	46	1.14
1507646--1507700	29	2.0	29	86	13	80	54	0	12	32	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507708--1507747	20	2.0	21	85	5	55	40	2	20	37	1.66
1509670--1509696	2	13.5	2	100	0	54	48	0	0	51	1.00
1517373--1517417	21	2.1	21	87	4	63	51	6	4	37	1.49
1517778--1517804	14	1.9	14	100	0	54	14	14	22	48	1.81
1519001--1519036	7	5.1	7	100	0	72	41	27	13	16	1.87
1521780--1521829	2	25.5	2	95	4	93	48	0	0	52	1.00
1521988--1522117	41	3.1	43	76	7	117	26	20	5	47	1.71
1524627--1524663	18	1.9	19	89	10	58	43	5	0	51	1.24
1525356--1525423	21	3.2	21	66	15	59	57	17	2	22	1.53
1525369--1525457	32	2.6	33	81	12	92	55	15	3	25	1.56
1525326--1525433	42	2.6	42	90	0	171	53	17	5	23	1.64
1525983--1526074	34	2.7	35	85	8	120	42	10	17	29	1.83
1526011--1526083	34	2.1	34	82	5	85	47	10	15	26	1.77
1530156--1530274	38	3.1	37	62	21	84	47	10	13	29	1.75
1530152--1530306	76	2.0	76	97	0	292	47	9	13	29	1.74
1531674--1531717	16	2.8	16	89	0	70	38	22	11	27	1.88
1531674--1531734	32	1.9	32	83	6	79	40	22	9	26	1.85
1531923--1532011	32	2.8	32	79	6	108	38	24	11	25	1.89
1542852--1542913	27	2.2	29	88	8	94	61	3	8	27	1.40
1547384--1547463	17	4.7	17	76	4	72	20	16	37	26	1.93
1548870--1548924	25	2.2	25	78	18	62	41	16	0	41	1.48
1556703--1556745	21	2.0	21	86	0	59	23	20	16	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562469--1562503	7	5.1	7	96	3	63	0	42	0	57	0.99
1562854--1563004	41	3.7	41	94	0	250	16	19	26	37	1.93
1562899--1562972	21	3.6	21	74	3	87	13	18	32	35	1.90
1562879--1562992	20	5.6	20	71	4	102	11	21	28	39	1.87
1562858--1563004	20	7.2	21	67	6	88	16	19	27	36	1.93
1563130--1563192	6	10.5	6	92	0	108	33	49	14	3	1.59
1563681--1563712	5	6.6	5	96	3	57	0	40	21	37	1.54
1563831--1563984	20	7.6	20	77	2	164	40	22	22	14	1.91
1563851--1563964	41	2.8	41	97	0	210	37	24	21	15	1.93
1563892--1564009	61	1.9	61	96	0	218	38	22	20	17	1.93
1579300--1579331	12	2.7	12	90	0	55	31	25	18	25	1.98
1579242--1579665	207	2.0	209	94	3	753	30	13	21	34	1.92
1589284--1589316	16	2.0	17	94	5	59	42	18	0	39	1.50
1604801--1604851	5	10.2	5	93	0	84	21	19	41	17	1.91
1605489--1605564	30	2.6	29	75	8	73	25	10	26	38	1.88
1606876--1607024	4	37.2	4	98	0	289	50	24	0	25	1.50
1610353--1610712	179	2.0	178	89	0	540	43	16	12	27	1.84
1615147--1615271	2	64.5	2	93	6	222	49	0	0	50	1.00
1618778--1618845	31	2.2	30	92	2	109	16	17	32	33	1.92
1618778--1618856	30	2.6	31	89	2	115	16	16	35	31	1.91
1619433--1619488	13	4.1	14	78	15	55	55	16	3	25	1.57
1619967--1619996	6	5.0	6	91	0	51	36	13	0	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1620542--1620650	31	3.5	31	93	1	184	40	21	19	19	1.92
1620758--1620871	59	1.9	59	82	7	142	29	19	8	42	1.81
1625281--1625336	19	3.1	18	80	10	60	39	12	14	33	1.83
1635035--1635085	2	26.5	2	92	7	88	47	0	0	52	1.00
1635425--1635747	162	2.0	163	97	2	614	37	18	13	30	1.90
1636053--1636077	9	2.8	9	100	0	50	0	56	0	44	0.99
1637549--1637626	24	3.2	24	62	16	61	48	5	11	34	1.61
1637541--1637640	49	2.1	48	96	1	182	51	7	11	31	1.64
1639846--1639906	30	2.0	30	93	0	104	36	29	21	13	1.91
1644712--1644742	2	15.5	2	100	0	62	51	0	0	48	1.00
1652100--1652138	20	2.0	20	94	0	69	38	17	20	23	1.93
1653185--1653219	12	2.8	13	87	12	56	57	0	0	42	0.99
1654636--1654742	3	35.7	3	90	0	169	62	0	2	34	1.10
1654994--1656107	113	9.8	113	92	1	1775	28	19	13	37	1.91
1654994--1656108	340	3.3	339	92	1	1802	28	19	13	37	1.91
1654994--1656107	453	2.5	453	99	0	2203	28	19	13	37	1.91
1656722--1656984	82	3.2	81	89	3	418	35	22	13	28	1.92
1658106--1658177	11	7.0	10	78	13	67	2	18	0	79	0.86
1658111--1658182	31	2.3	32	85	2	101	2	18	0	79	0.86
1658107--1658176	5	13.6	5	78	15	72	2	17	0	80	0.84
1668803--1668844	18	2.4	17	84	11	50	69	4	0	26	1.08
1669544--1669578	12	2.8	13	87	12	56	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1670992--1671095	3	34.7	3	90	0	154	61	0	2	35	1.11
1671635--1671667	11	2.9	11	95	4	57	39	0	0	60	0.97
1677614--1677680	28	2.6	24	81	9	71	37	4	4	53	1.41
1677676--1677724	23	2.1	24	88	3	73	53	4	2	40	1.32
1677837--1677997	32	5.1	32	99	0	315	52	9	15	21	1.71
1680480--1680727	130	1.9	130	93	0	424	35	14	13	36	1.85
1680494--1680758	130	2.0	129	81	4	309	38	12	13	34	1.83
1681052--1681114	28	2.3	27	78	8	63	46	1	3	49	1.27
1681194--1681227	16	2.0	18	88	11	54	64	5	2	26	1.30
1681350--1681392	21	2.0	21	100	0	86	39	0	13	46	1.44

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