genome.fa.s1129.2.7.7.80.10.50.1000.9.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  9  of  89  ( 10573 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)
1674837--1674924	32	2.7	33	94	3	160	46	21	19	12	1.82
1674939--1674998	20	3.2	19	83	4	77	15	23	21	40	1.91
1675352--1675439	41	2.1	42	85	2	124	21	43	14	20	1.88
1676981--1677030	14	3.0	17	75	24	61	48	18	22	12	1.80
1677297--1677408	20	5.5	20	75	5	73	22	17	19	40	1.92
1677297--1677388	41	2.3	40	80	1	103	21	16	20	41	1.90
1677374--1677425	20	2.5	21	87	3	70	21	23	17	38	1.93
1677622--1677655	12	2.9	12	86	4	52	17	41	5	35	1.74
1678210--1678263	24	2.2	24	90	0	81	22	16	20	40	1.91
1680757--1680873	19	6.7	19	71	18	110	42	17	22	17	1.89
1680775--1680869	33	2.9	33	83	9	122	42	17	22	17	1.90
1680869--1680910	19	2.2	19	91	0	66	16	19	23	40	1.91
1680878--1680943	19	3.8	19	73	20	72	12	21	21	45	1.84
1681050--1681086	14	2.6	14	91	0	65	45	24	0	29	1.53
1682350--1682458	21	5.2	21	64	8	51	23	19	34	22	1.96
1682323--1682528	42	4.9	41	72	12	150	22	18	36	21	1.95
1682353--1682528	84	2.1	84	98	0	343	23	17	37	21	1.94
1682747--1682931	91	2.0	90	89	8	284	47	18	12	21	1.81
1684623--1684721	33	3.0	33	93	1	162	40	22	24	13	1.89
1684660--1684776	52	2.2	52	92	0	189	44	21	22	11	1.84
1684598--1684776	19	10.1	19	70	19	127	44	20	22	12	1.85
1684772--1684816	19	2.4	19	92	0	72	8	15	26	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685369--1685421	20	2.7	20	93	0	88	26	20	28	24	1.99
1687278--1687326	25	1.9	26	84	12	66	48	0	2	48	1.12
1689466--1689648	75	2.4	75	88	1	251	40	13	14	31	1.85
1689631--1689694	23	2.8	23	97	0	119	32	18	12	35	1.89
1689678--1689844	75	2.2	75	82	6	196	40	11	12	35	1.80
1689480--1689921	196	2.3	195	87	2	618	38	14	14	33	1.86
1689819--1689889	23	3.1	23	83	4	99	38	18	14	29	1.90
1690417--1690630	107	2.0	108	82	6	265	37	10	11	39	1.77
1690589--1690660	30	2.4	30	88	0	99	34	8	11	45	1.70
1695727--1696381	183	3.6	183	89	1	992	41	14	16	27	1.86
1698688--1698721	15	2.3	15	100	0	68	20	5	61	11	1.50
1698842--1698972	66	2.0	66	85	5	176	33	3	41	22	1.69
1702867--1702926	22	2.7	23	81	5	77	26	28	26	18	1.98
1702945--1703159	103	2.1	103	95	0	385	37	24	13	25	1.91
1706006--1706066	12	5.4	12	75	15	58	18	21	8	52	1.71
1706006--1706058	16	3.3	16	86	0	79	18	20	7	52	1.69
1706005--1706066	20	2.9	20	81	13	70	19	20	8	51	1.72
1706008--1706054	8	5.9	8	87	0	67	17	21	8	53	1.70
1707705--1709422	199	8.7	199	91	0	2629	38	14	15	31	1.88
1707705--1709422	397	4.3	397	91	1	2604	38	14	15	31	1.88
1707718--1709422	596	2.9	595	90	0	2628	38	14	15	31	1.88
1709128--1709166	20	2.0	20	94	0	69	43	5	15	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709129--1709172	20	2.2	20	87	0	61	45	4	15	34	1.67
1711265--1711310	2	23.0	2	100	0	92	50	0	0	50	1.00
1711907--1711957	23	2.2	23	85	0	66	33	21	7	37	1.82
1711917--1711966	23	2.2	23	88	0	73	34	18	10	38	1.84
1715107--1715170	20	3.1	20	82	6	83	23	37	26	12	1.90
1717367--1717411	16	3.0	14	84	12	54	62	2	0	35	1.08
1717368--1717413	14	3.1	14	84	12	56	63	2	0	34	1.07
1717340--1717406	24	2.8	23	73	15	64	58	1	0	40	1.07
1717368--1717426	31	1.9	31	82	6	75	64	1	1	32	1.13
1717772--1717829	25	2.4	25	80	8	66	41	13	6	37	1.72
1718000--1718050	15	3.6	14	75	19	52	27	0	5	66	1.14
1718404--1718450	23	2.0	25	84	16	64	53	0	0	46	1.00
1718400--1718454	20	2.7	21	75	13	62	56	0	0	43	0.99
1718400--1718455	19	2.8	20	72	8	60	55	0	0	44	0.99
1720477--1720504	3	9.3	3	100	0	56	32	0	0	67	0.91
1720919--1720969	20	2.5	20	93	3	84	66	19	3	9	1.36
1729348--1729451	40	2.5	40	76	13	104	37	26	14	21	1.92
1737118--1737168	23	2.2	24	82	10	61	76	1	19	1	0.98
1743889--1743930	21	2.0	21	86	9	59	69	0	0	30	0.89
1747418--1747475	20	2.9	21	82	7	68	17	29	31	22	1.96
1747862--1747910	24	2.0	24	100	0	98	36	22	0	40	1.54
1749655--1749701	22	2.1	23	88	4	69	25	23	29	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749655--1749712	22	2.5	22	80	5	62	24	25	25	24	2.00
1755509--1755837	30	11.2	30	80	7	259	35	4	34	25	1.77
1755550--1755750	88	2.3	90	81	4	221	35	5	33	25	1.79
1755534--1755860	118	2.8	118	81	8	371	35	5	33	25	1.78
1755720--1755765	15	3.1	15	71	22	51	36	2	36	23	1.68
1758898--1758939	22	1.9	22	85	9	59	61	9	11	16	1.55
1760924--1760957	17	2.1	17	89	10	54	29	0	8	61	1.26
1762506--1762536	14	2.1	15	94	5	55	35	12	0	51	1.40
1762832--1762868	3	12.3	3	94	0	65	29	0	2	67	1.04
1762905--1762932	6	4.7	6	100	0	56	71	28	0	0	0.86
1776327--1776667	118	2.9	117	86	3	477	39	14	20	25	1.91
1784099--1784133	11	3.2	11	91	0	52	34	28	8	28	1.87
1784640--1784735	31	3.1	31	80	3	113	33	21	18	26	1.97
1793265--1793367	20	4.9	20	83	8	100	24	35	25	14	1.93
1793328--1793367	21	1.9	21	89	0	62	25	40	25	10	1.86
1800182--1800253	31	2.3	31	83	4	83	31	23	16	27	1.96
1802683--1802734	21	2.5	21	81	6	61	26	9	0	63	1.25
1803064--1803113	21	2.4	21	86	0	82	26	26	22	26	2.00
1803808--1803846	16	2.4	16	91	0	60	20	25	17	35	1.95
1804015--1804046	16	2.1	15	94	5	55	31	0	0	68	0.90
1804143--1804221	18	4.4	17	73	17	54	44	1	2	51	1.23
1804496--1804740	2	120.0	2	64	22	75	44	4	5	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1804475--1804548	18	3.9	19	81	8	80	45	2	4	47	1.35
1804496--1804586	29	3.1	29	76	17	91	43	2	4	49	1.34
1804527--1804588	27	2.3	27	86	10	83	41	3	6	48	1.45
1804695--1804802	39	2.8	39	77	12	105	42	2	8	46	1.48
1804733--1804826	39	2.4	37	76	15	91	41	5	8	44	1.57
1804625--1804919	148	2.0	148	81	9	343	42	5	7	44	1.54
1804807--1804919	20	5.5	21	74	17	78	41	5	7	45	1.56
1804861--1804910	11	4.7	11	80	9	68	38	2	10	50	1.48
1804812--1804908	40	2.4	40	77	17	103	39	4	9	47	1.55
1804997--1805034	20	2.0	20	84	5	51	47	5	0	47	1.24
1805129--1805168	18	2.2	18	86	0	53	42	5	7	45	1.54
1805163--1805407	11	23.9	11	67	19	61	46	4	4	45	1.42
1805258--1805317	17	3.4	17	76	19	59	40	3	3	53	1.34
1805303--1805396	39	2.5	38	83	11	113	48	2	4	44	1.34
1805145--1805407	2	134.0	2	63	22	69	46	4	4	45	1.41
1806237--1806286	26	2.0	25	84	4	64	24	28	18	30	1.97
1806427--1806463	2	18.5	2	100	0	74	48	0	0	51	1.00
1806654--1806689	18	2.0	18	100	0	72	44	0	5	50	1.25
1808715--1808757	18	2.4	18	81	14	54	37	2	13	46	1.57
1809984--1810033	10	5.1	10	82	4	66	60	22	10	8	1.55
1809984--1810042	19	3.0	20	80	7	68	61	23	8	6	1.49
1810566--1810625	30	2.0	31	93	3	104	40	8	1	50	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1811836--1811903	29	2.3	29	94	0	118	47	22	19	11	1.81
1813279--1813316	20	1.9	20	94	0	67	31	5	2	60	1.33
1813508--1813538	3	10.3	3	92	0	53	64	0	0	35	0.94
1813666--1813985	166	1.9	167	90	0	516	45	10	5	37	1.63
1816469--1816514	19	2.4	19	85	3	56	69	0	0	30	0.89
1816476--1816533	26	2.3	25	79	8	73	70	0	0	29	0.87
1816470--1816531	25	2.6	24	82	10	74	70	0	0	29	0.87
1816475--1816545	36	2.0	35	81	13	83	67	1	0	30	0.99
1816530--1816627	40	2.4	41	78	18	105	47	5	2	44	1.36
1816586--1816686	35	2.9	35	76	13	109	42	8	3	44	1.54

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89