genome.fa.s8620.2.7.7.80.10.50.1000.59.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  59  of  64  ( 7674 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)
11952105--11952219	57	2.0	58	98	1	223	30	12	8	48	1.70
11952575--11952613	21	1.9	21	94	5	71	46	23	10	20	1.81
11953236--11953434	53	3.8	53	82	7	212	37	15	22	24	1.92
11953793--11953845	20	2.5	22	84	6	74	33	13	15	37	1.86
11954234--11954453	69	3.0	75	92	7	364	40	12	21	25	1.89
11954378--11955047	224	3.0	224	87	8	916	38	15	18	27	1.90
11954378--11955047	111	5.9	113	89	6	936	38	15	18	27	1.90
11954851--11954909	19	3.1	19	68	22	59	50	8	22	18	1.73
11954836--11955186	120	2.9	120	87	5	494	40	15	18	25	1.90
11954843--11955233	120	3.2	118	83	8	459	40	15	18	24	1.90
11955394--11955446	3	17.3	3	81	11	63	39	0	0	60	0.97
11956635--11956694	15	4.0	15	75	14	52	28	3	1	66	1.17
11956750--11956782	15	2.3	15	89	5	50	42	0	0	57	0.98
11959216--11959254	14	2.8	14	88	0	60	28	12	5	53	1.60
11962543--11962574	17	1.9	16	93	6	55	84	0	15	0	0.63
11964820--11965045	114	2.0	114	91	0	362	33	15	20	30	1.94
11966978--11967164	54	3.6	52	81	8	202	38	13	21	26	1.90
11967536--11967590	22	2.5	22	90	0	92	34	12	10	41	1.78
11967990--11969011	113	9.0	113	94	2	1682	39	16	17	27	1.90
11967990--11969011	451	2.2	451	92	3	1680	39	16	17	27	1.90
11968800--11969153	120	2.9	119	88	4	510	40	16	18	25	1.90
11969361--11969422	3	20.0	3	86	6	88	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11970634--11970693	15	4.1	14	75	12	50	26	1	1	70	1.07
11972748--11972866	42	2.8	42	83	2	132	21	34	18	26	1.96
11972748--11972842	21	4.5	21	76	5	93	22	34	16	26	1.95
11974129--11974303	66	2.6	64	87	6	233	28	2	16	52	1.56
11974473--11974511	13	2.9	14	78	21	55	12	17	28	41	1.87
11974732--11974767	18	2.0	18	94	0	63	16	2	25	55	1.55
11977035--11977088	24	2.2	24	86	0	72	40	20	14	24	1.90
11978035--11978117	19	4.2	20	80	11	82	30	10	22	36	1.89
11978055--11978114	19	3.1	19	92	2	84	31	11	23	33	1.91
11978081--11978127	19	2.4	19	85	7	58	36	8	17	38	1.80
11978121--11978305	20	9.2	20	75	14	111	20	16	21	41	1.90
11978108--11978305	60	3.3	60	76	14	176	20	16	21	41	1.90
11978094--11978249	40	3.9	40	80	7	181	21	16	21	40	1.91
11983911--11984006	33	3.0	32	87	4	131	23	13	22	39	1.90
11984028--11984054	12	2.2	12	100	0	54	25	0	14	59	1.36
11988671--11988770	33	3.1	33	81	8	125	26	13	21	40	1.89
11990952--11990990	20	2.0	20	89	0	60	33	23	10	33	1.88
11997702--11997746	22	2.0	22	87	8	65	77	4	2	15	1.02
11999360--11999398	20	2.0	20	89	0	60	33	23	10	33	1.88
12009107--12009245	70	2.0	70	100	0	278	34	5	20	40	1.74
12009667--12009725	22	2.7	22	91	0	100	20	27	20	32	1.97
12018258--12018301	21	2.1	21	86	0	61	22	18	20	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12018598--12018672	31	2.4	31	95	0	132	22	22	22	32	1.98
12019854--12019899	20	2.3	19	85	14	58	50	8	15	26	1.73
12024942--12024977	14	2.6	14	81	0	54	25	5	30	38	1.78
12025497--12025536	2	20.0	2	100	0	80	50	0	0	50	1.00
12030047--12030120	32	2.3	31	82	11	80	50	2	2	44	1.30
12033096--12033182	23	3.8	23	80	3	77	47	17	22	12	1.81
12033096--12033173	23	3.4	23	83	1	95	46	17	24	11	1.82
12046782--12046842	21	3.0	20	74	11	61	24	34	24	16	1.95
12066207--12066250	2	22.0	2	100	0	88	50	0	0	50	1.00
12068313--12068363	20	2.5	20	90	0	75	31	19	5	43	1.75
12069987--12070032	24	2.0	21	88	12	65	52	0	0	47	1.00
12073951--12074013	30	2.1	29	82	8	74	41	7	3	47	1.48
12074071--12074228	63	2.4	65	81	9	171	46	5	8	39	1.56
12074068--12074228	34	4.9	33	68	21	106	46	4	8	40	1.55
12079640--12079803	64	2.5	65	81	12	194	43	6	7	41	1.60
12082843--12082927	32	2.7	32	98	0	161	27	29	25	17	1.98
12086552--12086608	20	2.7	21	72	20	55	50	0	5	43	1.24
12086458--12086687	128	1.8	123	83	8	302	47	6	8	38	1.58
12086841--12086903	29	2.3	27	81	10	65	61	1	1	34	1.15
12087402--12087426	11	2.3	11	100	0	50	8	36	8	48	1.62
12088287--12088357	3	24.0	3	78	13	76	64	1	2	30	1.16
12088287--12088357	13	5.7	13	78	17	62	64	1	2	30	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12088287--12088354	16	4.4	16	85	10	88	64	1	2	30	1.17
12094169--12094669	200	2.5	198	83	4	616	32	14	13	39	1.86
12094495--12094834	177	1.9	178	84	4	463	33	12	14	40	1.83
12097308--12097356	19	2.6	19	83	0	71	53	8	4	34	1.50
12099469--12099516	18	2.7	18	76	0	51	47	12	8	31	1.71
12100810--12100853	3	14.7	3	80	0	52	34	27	0	38	1.57
12101977--12102019	18	2.4	17	85	14	52	37	2	37	23	1.68
12102325--12102829	199	2.5	199	81	3	575	34	16	12	36	1.87
12102861--12103249	199	2.0	200	87	4	572	32	16	14	36	1.89
12103266--12103304	15	2.6	15	87	0	60	23	12	23	41	1.88
12103621--12103663	19	2.3	19	95	0	77	53	9	2	34	1.46
12105217--12105302	18	5.0	16	72	22	59	6	31	0	61	1.22
12105221--12105291	18	3.9	18	90	5	117	5	32	0	61	1.19
12105477--12105576	33	3.0	33	91	0	173	25	45	0	30	1.54
12105610--12105653	21	2.1	21	91	0	70	13	38	11	36	1.81
12108104--12108637	182	2.9	182	88	2	822	27	16	14	41	1.86
12108469--12108774	162	1.9	162	95	1	551	29	15	13	42	1.84
12130670--12131073	202	2.0	202	100	0	808	32	15	17	34	1.92
12131334--12131387	20	2.7	20	100	0	108	27	14	29	27	1.95
12131664--12131696	12	2.6	13	90	9	59	39	6	9	45	1.61
12131929--12131965	18	2.1	18	85	14	51	51	5	10	32	1.60
12132759--12132805	19	2.6	17	86	10	58	31	19	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12132778--12132984	65	3.2	64	78	11	217	27	18	23	30	1.98
12133442--12133491	2	25.5	2	95	4	93	50	0	0	50	1.00
12135640--12135723	23	3.7	22	78	9	98	26	23	26	23	2.00
12135646--12135742	44	2.2	44	85	7	126	26	21	24	26	1.99
12138800--12138997	100	2.0	100	98	0	387	38	21	7	32	1.81
12141540--12141586	19	2.6	17	86	10	58	31	19	23	25	1.98
12141559--12141765	65	3.2	63	77	12	206	28	17	22	31	1.96
12144067--12144092	13	2.0	13	100	0	52	46	7	0	46	1.31
12153600--12153629	15	1.9	15	93	6	51	60	0	3	36	1.14
12154789--12154818	15	1.9	16	93	6	53	26	23	20	30	1.98
12154995--12155228	108	2.2	109	88	0	344	37	12	15	34	1.86
12155996--12156020	12	2.1	12	100	0	50	92	0	8	0	0.40
12159861--12159895	18	1.9	18	88	0	52	40	8	0	51	1.33
12167172--12167223	21	2.5	21	80	0	68	11	30	36	21	1.89
12172059--12172454	124	3.2	124	85	2	517	32	23	16	27	1.96
12172060--12172516	124	3.7	122	83	1	482	32	22	16	28	1.96
12172060--12172514	248	1.8	248	83	1	599	32	23	16	28	1.96
12172716--12172850	21	7.3	21	63	29	74	23	20	14	40	1.90
12172684--12172863	36	4.9	36	91	2	263	26	20	13	40	1.89
12172881--12173000	58	2.1	58	87	0	168	25	20	12	41	1.87
12172944--12173021	37	2.1	36	90	2	120	30	20	12	35	1.90
12173900--12173977	23	3.3	23	81	1	93	32	23	20	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12173984--12174201	103	2.1	103	94	0	382	36	22	13	27	1.92
12179540--12179606	23	2.9	23	84	0	80	28	23	23	23	2.00
12179624--12179824	103	2.0	103	96	0	375	36	22	13	26	1.92
12180585--12180746	64	2.5	63	76	8	157	26	20	20	31	1.98
12181556--12181675	35	3.6	34	83	13	167	41	17	9	31	1.81
12183667--12183725	2	30.0	2	96	3	111	50	0	0	49	1.00
12185059--12185101	22	2.0	22	85	0	59	39	23	9	27	1.85
12186764--12186822	24	2.5	23	79	15	66	57	3	1	37	1.25
12190490--12190564	3	24.7	3	87	12	109	32	0	0	68	0.90
12195986--12196017	15	2.1	15	94	0	55	25	18	9	46	1.79

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