genome.fa.s8242.2.7.7.80.10.50.1000.8.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  8  of  73  ( 8740 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)
1539208--1539286	8	10.5	8	77	15	55	7	15	1	75	1.08
1541215--1541251	17	2.2	17	90	9	58	72	2	2	21	1.09
1546419--1546464	23	2.0	23	82	0	56	47	8	28	15	1.74
1550601--1550636	17	2.1	18	89	5	56	75	2	0	22	0.94
1551508--1551575	27	2.6	27	88	2	102	32	25	11	30	1.91
1552300--1552497	99	2.0	99	100	0	396	32	24	19	24	1.97
1554704--1554955	126	2.0	126	100	0	504	23	25	19	32	1.97
1569480--1569521	18	2.3	19	83	4	50	64	7	2	26	1.32
1569532--1569580	17	2.8	17	87	9	64	48	6	10	34	1.62
1569604--1569654	17	3.1	16	77	8	57	47	5	15	31	1.70
1570353--1570513	80	2.0	80	80	8	177	40	10	13	34	1.79
1570948--1571003	18	3.1	18	97	0	103	17	12	32	37	1.88
1571601--1571765	21	8.0	21	74	11	135	22	19	23	34	1.96
1571601--1571762	42	3.9	40	87	3	198	21	19	24	35	1.96
1571843--1571897	27	2.0	27	100	0	110	38	36	14	10	1.81
1572520--1572671	21	7.4	21	66	22	92	36	23	19	21	1.95
1572508--1572933	40	10.5	42	76	13	312	35	24	18	21	1.96
1572541--1572778	21	11.6	21	75	8	222	34	25	19	20	1.96
1572508--1572772	61	4.3	61	80	9	324	34	24	19	21	1.96
1572843--1572912	19	3.4	21	70	18	67	37	22	20	20	1.95
1572829--1572952	61	2.0	60	81	6	142	34	26	17	20	1.95
1572864--1572958	21	4.6	21	80	5	113	32	29	17	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572967--1573016	21	2.4	21	93	0	82	18	22	30	30	1.97
1578235--1578272	19	2.0	20	89	5	60	42	18	18	21	1.90
1579098--1579128	15	2.1	15	93	0	53	41	22	9	25	1.84
1579948--1580025	36	2.2	36	90	0	120	34	16	20	28	1.94
1581823--1581859	19	1.9	19	94	0	65	37	18	18	24	1.94
1583474--1583549	21	3.6	21	70	0	62	28	14	17	39	1.89
1586492--1586572	32	2.5	32	81	0	99	48	4	13	33	1.64
1590299--1590338	21	1.9	21	89	0	62	57	5	7	30	1.48
1593033--1593087	20	2.8	20	97	0	101	21	32	29	16	1.95
1598762--1598824	20	3.0	20	81	9	72	20	33	23	22	1.97
1598763--1598845	23	3.8	22	88	4	107	21	32	24	21	1.98
1598828--1598865	20	1.9	20	84	10	51	26	34	26	13	1.93
1602858--1602889	16	2.0	16	100	0	64	50	18	6	25	1.70
1603429--1603573	21	6.5	23	74	15	135	28	22	20	28	1.98
1603429--1603575	44	3.3	44	89	4	208	28	22	20	28	1.98
1606078--1606232	64	2.4	64	88	4	215	29	19	18	33	1.95
1606078--1606255	64	2.8	64	81	11	204	28	20	18	32	1.96
1608131--1608226	7	13.6	7	98	1	183	42	0	14	42	1.45
1608376--1608452	20	3.8	20	91	0	118	48	10	19	22	1.79
1608377--1608452	40	1.9	40	94	0	134	48	10	18	22	1.78
1609901--1610196	36	8.3	36	84	3	346	18	24	23	32	1.97
1615150--1616020	84	10.6	83	75	6	714	26	18	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615150--1616020	249	3.5	248	84	2	1139	26	18	24	30	1.98
1617160--1617337	95	1.9	95	90	2	286	32	19	17	30	1.95
1617279--1617399	62	2.0	62	91	3	199	32	19	17	31	1.95
1617181--1617494	157	2.0	157	100	0	628	32	19	17	30	1.95
1623462--1623495	15	2.3	15	89	0	50	50	8	29	11	1.69
1625316--1625365	21	2.4	21	89	0	73	30	32	22	16	1.95
1625374--1625613	21	11.6	21	72	10	181	20	18	25	35	1.95
1625380--1625629	42	6.1	40	83	3	216	21	18	24	36	1.95
1625380--1625529	61	2.5	61	92	0	246	20	18	27	34	1.96
1625461--1625625	84	2.0	82	89	2	249	22	16	23	38	1.93
1625522--1625629	21	5.1	21	69	16	89	21	17	21	39	1.92
1625711--1625744	6	5.7	6	92	0	59	35	50	14	0	1.44
1626350--1626467	21	5.8	19	75	9	83	33	22	21	22	1.97
1626379--1626473	21	4.6	21	80	5	104	33	25	21	20	1.97
1626354--1626473	42	2.9	40	87	5	150	35	23	21	20	1.96
1626461--1626552	20	4.6	20	98	0	175	39	16	19	25	1.92
1627587--1627631	20	2.3	20	80	3	56	46	4	2	46	1.35
1631443--1631489	21	2.2	21	92	0	76	38	21	23	17	1.93
1640983--1641017	11	3.2	11	100	0	70	25	17	17	40	1.90
1641048--1641374	163	2.0	163	100	0	654	24	11	34	30	1.90
1641494--1641523	3	9.7	3	92	7	51	70	0	0	30	0.88
1641497--1641524	13	2.2	13	100	0	56	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642285--1642360	40	1.9	39	83	2	98	22	17	22	38	1.93
1642783--1642839	30	1.9	30	88	0	87	24	22	19	33	1.97
1643132--1643191	24	2.5	24	86	2	75	40	1	18	40	1.60
1643174--1643209	18	2.0	18	88	0	54	44	0	8	47	1.33
1649337--1649416	32	2.5	33	84	8	94	32	11	27	28	1.91
1652348--1652391	19	2.3	19	96	0	79	56	6	6	29	1.51
1653779--1653870	23	4.0	22	76	12	87	72	3	5	18	1.17
1653798--1653869	9	8.0	9	71	15	51	73	2	4	19	1.12
1655051--1655102	24	2.3	23	87	9	72	46	7	0	46	1.31
1655024--1655208	66	3.1	60	84	12	238	46	7	1	45	1.37
1655051--1655160	26	4.2	26	85	11	152	47	7	0	45	1.30
1655134--1655285	37	3.7	40	76	16	134	41	7	3	48	1.47
1655024--1655249	66	3.7	66	77	14	179	45	6	1	46	1.39
1663357--1663410	6	8.7	6	84	15	74	79	0	0	20	0.73
1664404--1664452	18	2.7	18	96	0	89	24	26	22	26	2.00
1664623--1664687	29	2.2	29	91	0	112	33	3	21	41	1.69
1667124--1667175	21	2.5	21	87	9	72	36	19	15	28	1.92
1667124--1667178	20	2.7	19	86	10	74	36	18	14	30	1.91
1674602--1674711	26	4.5	24	74	17	68	54	2	1	40	1.25
1674602--1674711	10	10.3	11	66	28	60	54	2	1	40	1.25
1674619--1674712	2	47.0	2	76	16	70	52	3	1	43	1.24
1674628--1674708	28	2.8	30	88	9	132	51	3	1	43	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1674706--1674755	26	1.9	26	88	8	75	48	6	0	46	1.27
1674694--1674862	37	4.4	37	86	6	223	43	5	1	49	1.32
1674694--1674866	76	2.2	78	87	4	278	43	5	1	49	1.32
1675452--1675512	3	19.7	3	83	6	68	62	3	3	31	1.27
1675452--1675512	19	3.3	19	93	2	97	62	3	3	31	1.27
1676272--1676312	16	2.6	16	96	3	75	14	29	0	56	1.39
1682196--1682314	48	2.6	44	82	10	148	38	8	21	31	1.83
1689339--1689449	48	2.4	46	85	5	136	39	9	19	31	1.83
1690767--1691158	193	2.0	199	96	3	742	32	20	20	25	1.97
1692521--1692569	23	2.1	23	92	0	80	22	20	32	24	1.98
1692673--1692780	53	2.1	52	98	1	207	37	24	20	17	1.93
1697088--1697129	18	2.4	18	76	4	50	54	4	16	23	1.61
1700237--1700294	7	8.6	7	83	7	75	13	25	31	29	1.94
1700237--1700292	20	2.8	20	86	5	69	14	26	32	26	1.95
1700237--1700294	27	2.1	27	93	0	98	13	25	31	29	1.94
1700631--1700799	30	5.6	31	76	6	125	18	21	19	40	1.91
1700633--1700810	61	3.0	60	77	6	180	17	21	19	41	1.90
1701659--1702021	180	2.0	180	100	0	726	32	14	14	38	1.86
1702218--1702413	51	3.9	51	88	4	263	47	15	13	23	1.81
1702220--1702405	101	1.8	102	86	5	270	47	15	13	23	1.80
1702771--1702808	13	2.6	14	84	16	51	23	10	26	39	1.87
1705044--1705086	21	2.0	21	90	0	68	55	9	9	25	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712895--1712932	14	2.4	16	87	12	53	55	0	39	5	1.23
1715039--1715075	15	2.5	15	95	0	65	40	21	0	37	1.54
1715508--1715716	105	2.0	107	97	1	395	39	13	11	35	1.81
1718282--1718329	20	2.4	21	83	10	57	64	0	31	4	1.12
1718274--1718329	23	2.4	23	82	11	62	64	0	32	3	1.11
1719131--1719169	20	2.0	20	89	0	60	33	10	23	33	1.88
1724929--1725069	70	2.0	70	100	0	282	31	14	25	28	1.95
1729569--1729705	66	2.1	67	98	1	267	34	7	20	37	1.80
1729674--1729785	60	1.9	59	85	5	154	35	16	12	34	1.87
1739576--1739862	36	8.1	36	88	3	350	19	24	21	34	1.96

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   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73