genome.fa.s1129.2.7.7.80.10.50.1000.78.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  78  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)
18782965--18783091	66	1.9	66	88	3	193	24	18	19	37	1.94
18783700--18783735	18	1.9	18	88	5	54	22	0	5	72	1.05
18792127--18792555	213	2.0	215	98	1	835	30	27	11	30	1.92
18797193--18797235	19	2.3	19	84	8	52	51	2	2	44	1.27
18797652--18797689	14	2.8	13	92	7	67	42	0	2	55	1.14
18799009--18799051	22	2.0	22	86	9	61	67	4	13	13	1.38
18803217--18803281	30	2.1	31	91	2	105	0	4	13	81	0.84
18803613--18803657	11	4.1	11	82	5	56	71	4	11	13	1.29
18803613--18803654	22	1.9	22	90	9	68	69	4	11	14	1.34
18807586--18807766	90	2.0	90	95	2	328	30	17	21	30	1.96
18813485--18813686	104	1.9	105	84	3	273	39	10	11	38	1.76
18814898--18814976	40	2.0	40	92	0	131	50	13	20	15	1.77
18816353--18816402	20	2.5	19	87	6	64	24	26	22	28	1.99
18817273--18817425	2	78.5	2	94	5	278	49	50	0	0	1.00
18817425--18817468	2	22.0	2	95	0	79	47	2	0	50	1.13
18820649--18821160	257	2.0	257	93	0	871	35	18	11	34	1.88
18821609--18821662	20	2.7	20	83	11	74	25	31	20	22	1.98
18822527--18822554	2	14.0	2	100	0	56	50	0	0	50	1.00
18822554--18822590	2	18.5	2	100	0	74	0	0	48	51	1.00
18826557--18826610	20	2.7	20	88	0	81	25	29	22	22	1.99
18827252--18827664	203	2.0	207	96	3	771	35	18	8	38	1.80
18828011--18828085	19	3.7	19	70	16	69	24	24	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18827995--18828084	43	2.1	43	93	0	153	23	25	16	34	1.95
18831080--18831133	21	2.6	21	87	0	81	48	16	0	35	1.47
18831184--18831223	14	2.9	14	80	0	53	55	30	0	15	1.41
18841491--18841556	18	3.7	18	75	17	66	43	10	10	34	1.74
18841491--18841549	17	3.4	17	75	13	57	44	10	10	35	1.72
18854834--18854964	11	12.6	11	69	22	54	76	0	2	20	0.95
18854834--18854978	26	5.6	25	72	16	95	76	0	2	20	0.95
18854837--18854924	32	3.0	29	75	12	90	76	0	3	20	0.93
18854837--18854973	40	3.6	37	70	20	104	76	0	2	19	0.96
18854887--18854966	9	9.0	9	78	8	83	81	1	1	16	0.83
18854889--18854980	14	6.0	14	72	21	62	80	1	2	16	0.87
18854939--18854989	15	3.4	16	78	7	54	78	0	3	17	0.90
18854832--18854988	48	3.2	46	70	20	104	75	0	3	20	1.00
18855060--18855100	15	2.7	15	88	3	55	68	0	0	31	0.90
18855062--18855114	25	2.1	25	82	0	61	67	1	3	26	1.17
18856865--18857651	164	4.8	165	87	1	1132	24	20	24	29	1.99
18856865--18857651	329	2.4	329	95	0	1416	24	20	24	29	1.99
18862832--18862969	9	15.0	9	69	22	67	75	0	2	21	0.98
18862832--18862916	25	3.2	25	75	16	73	74	0	3	22	0.97
18862835--18862959	28	4.4	29	74	20	90	76	0	3	20	0.98
18862833--18862977	48	3.1	46	77	13	145	74	0	3	21	1.01
18862885--18862962	11	6.8	12	77	12	65	80	1	2	15	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18862884--18862967	23	3.5	22	75	13	71	80	1	2	15	0.87
18862833--18863014	48	3.7	48	74	11	129	74	1	4	19	1.07
18862883--18862968	12	6.8	12	75	17	59	80	1	2	16	0.88
18863046--18863085	15	2.6	15	88	4	53	67	0	0	32	0.91
18863047--18863099	25	2.1	25	82	0	61	67	1	3	26	1.17
18867912--18868073	40	4.1	40	94	0	270	24	16	24	33	1.96
18875220--18875399	66	2.7	64	84	3	225	38	14	21	26	1.91
18875603--18875666	32	2.0	32	93	0	110	32	28	15	23	1.95
18876165--18876200	12	3.0	12	95	0	63	16	13	0	69	1.19
18876259--18876348	45	2.0	46	85	10	123	27	21	10	41	1.85
18876321--18876448	46	2.8	46	91	0	193	23	20	8	47	1.77
18876481--18876684	67	3.0	66	82	7	239	30	23	15	31	1.95
18876846--18877400	55	10.1	55	86	0	702	27	19	18	34	1.95
18877353--18877562	54	3.9	54	89	1	323	31	20	19	29	1.97
18877888--18877940	22	2.5	22	87	6	74	32	26	13	28	1.93
18880826--18880858	3	10.7	3	93	6	57	66	0	0	33	0.92
18881368--18881556	66	2.9	65	82	7	213	39	16	21	22	1.92
18882914--18882948	13	2.6	13	90	4	52	5	11	8	74	1.22
18882901--18882943	22	1.9	22	86	13	61	6	13	4	74	1.19
18884138--18884300	30	5.4	30	80	7	134	60	11	11	17	1.59
18886885--18886922	17	2.2	17	100	0	76	10	23	47	18	1.79
18886851--18886895	7	6.4	7	94	0	81	26	26	28	17	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18886878--18886926	22	2.1	23	88	7	73	12	22	46	18	1.82
18886930--18886993	10	6.7	9	77	12	65	26	32	25	15	1.95
18886930--18886993	19	3.3	20	85	10	89	26	32	25	15	1.95
18894272--18894304	17	1.9	17	100	0	66	12	24	45	18	1.83
18894252--18894282	7	4.4	7	91	0	53	25	25	29	19	1.99
18894317--18894369	9	5.7	9	76	8	52	28	26	26	18	1.98
18895830--18895884	3	18.7	3	96	3	103	65	0	0	34	0.93
18896466--18896642	65	2.7	66	83	4	225	40	14	20	24	1.89
18896687--18896769	36	2.4	34	82	7	112	36	6	22	34	1.79
18896709--18896768	15	3.6	15	72	23	57	35	3	20	41	1.68
18896698--18896780	36	2.3	36	91	0	139	34	9	21	33	1.86
18899232--18899386	30	5.3	30	78	9	151	58	11	11	18	1.63
18899232--18899386	61	2.6	61	81	7	160	58	11	11	18	1.63
18900757--18900813	22	2.6	22	88	0	96	21	19	26	33	1.97
18917130--18917238	48	2.3	48	82	3	121	51	14	13	20	1.76
18917131--18917238	24	4.5	24	74	6	85	50	14	13	20	1.77
18920838--18920870	3	10.7	3	93	6	57	63	3	0	33	1.10
18921039--18921418	131	2.9	131	79	7	317	27	16	29	26	1.97
18921463--18921642	66	2.7	65	84	3	227	40	14	20	25	1.90
18921514--18921630	36	3.4	35	64	21	86	38	13	21	26	1.91
18921614--18921678	33	2.0	33	82	14	82	33	10	16	38	1.84
18924236--18924265	14	2.1	15	93	6	53	53	13	20	13	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18926628--18926780	30	5.1	30	75	3	128	61	10	9	18	1.55
18926581--18926780	60	3.3	58	78	8	197	60	10	11	18	1.58
18926628--18926755	30	4.2	30	79	1	139	60	11	9	17	1.56
18928301--18928330	14	2.1	14	93	0	51	66	0	0	33	0.92
18931973--18932077	53	2.0	53	90	3	167	25	14	19	40	1.89
18932317--18932368	18	2.8	18	69	13	52	30	5	17	46	1.71
18939116--18939225	53	2.1	53	96	0	202	28	16	16	39	1.90
18963671--18963999	86	3.9	85	83	2	383	31	18	21	28	1.97
18963664--18964042	44	8.8	44	72	6	206	31	18	21	27	1.97
18963671--18963990	172	1.9	169	84	1	424	31	18	21	28	1.97
18965626--18965673	21	2.3	20	82	3	60	4	18	2	75	1.07
18967403--18967480	21	3.8	21	84	3	104	16	25	39	17	1.91
18973282--18973339	19	3.1	19	87	0	89	8	34	36	20	1.84
18973378--18973442	13	5.3	13	71	14	57	7	30	38	23	1.83
18973373--18973429	22	2.6	22	91	0	87	10	31	35	22	1.88
18973367--18973445	9	8.4	9	73	15	63	7	32	36	22	1.83
18973351--18973446	22	4.4	22	82	2	86	9	32	35	22	1.86
18974502--18974560	20	2.9	20	84	2	82	13	28	37	20	1.91
18974708--18975015	153	2.0	153	98	0	598	38	14	8	38	1.76
18978404--18978447	17	2.6	17	89	7	63	59	27	0	13	1.35
18980379--18980438	19	2.9	20	85	9	68	16	26	35	21	1.95
18984244--18984283	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18987089--18987191	20	5.0	21	82	7	131	12	26	38	22	1.90
18987089--18987182	21	4.6	20	84	11	120	12	24	40	22	1.89
18987089--18987188	41	2.4	41	93	1	164	13	27	38	22	1.90
18988603--18988664	21	2.9	22	85	4	83	17	30	33	17	1.94
18996545--18996594	12	4.3	11	90	7	64	78	2	0	20	0.86
18998430--18998470	19	2.2	19	95	0	73	19	39	14	26	1.90
19001439--19001474	18	1.9	19	88	5	56	77	2	0	19	0.88
19005621--19005650	13	2.3	13	94	0	51	56	10	0	33	1.32
19006867--19006929	22	2.8	22	80	2	72	66	1	1	30	1.10
19008091--19008141	21	2.4	21	96	0	93	35	7	19	37	1.81

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