genome.fa.s8053.2.7.7.80.10.50.1000.28.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  28  of  32  ( 3749 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)
5640436--5640460	12	2.1	12	100	0	50	16	36	8	40	1.77
5649104--5649148	21	2.1	21	83	0	54	60	0	4	35	1.17
5650991--5651035	21	2.1	21	87	0	63	28	13	33	24	1.93
5654298--5654340	22	2.0	22	95	4	79	23	32	23	20	1.98
5668484--5668524	14	3.1	14	86	13	68	39	7	7	46	1.60
5668484--5668522	12	3.0	13	88	11	62	38	7	7	46	1.61
5672727--5672869	64	2.2	63	80	8	155	34	16	20	27	1.94
5673361--5673395	18	1.9	18	88	11	54	54	5	17	22	1.64
5674125--5674588	149	3.1	149	95	1	815	26	16	21	34	1.95
5674556--5674600	23	2.0	23	95	0	81	24	24	26	24	2.00
5677735--5677895	64	2.5	65	85	7	195	33	18	21	27	1.96
5678387--5678421	18	1.9	18	88	11	54	54	5	17	22	1.64
5679151--5679603	149	3.0	149	97	0	836	26	16	21	35	1.95
5679581--5679626	23	2.0	23	86	0	65	21	21	26	30	1.99
5683114--5683153	21	1.9	21	85	10	55	35	10	2	52	1.48
5685406--5685455	12	4.0	12	90	10	82	40	8	8	44	1.63
5685406--5685458	26	2.0	26	100	0	106	39	7	7	45	1.61
5700448--5700472	4	6.2	4	100	0	50	0	24	24	52	1.48
5704224--5704285	24	2.6	24	92	0	97	9	41	20	27	1.84
5709364--5709455	29	3.2	29	93	0	157	32	22	18	26	1.97
5712591--5712632	20	2.0	23	86	13	63	40	7	4	47	1.52
5720280--5720336	30	1.9	30	100	0	114	38	29	8	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5720901--5721173	81	3.4	80	81	7	329	33	14	15	36	1.88
5722946--5722994	19	2.6	19	80	0	53	48	0	6	44	1.27
5732391--5732419	3	9.7	3	100	0	58	65	0	0	34	0.93
5737710--5737824	41	2.8	41	79	0	113	26	19	18	35	1.94
5748035--5748164	60	2.2	59	81	10	158	34	9	4	51	1.54
5748050--5748163	60	1.9	60	85	7	160	35	8	5	50	1.56
5748874--5748913	17	2.2	19	86	8	57	55	5	0	40	1.22
5758579--5758616	19	2.0	19	89	0	58	21	10	15	52	1.72
5758633--5758765	21	6.4	21	83	3	153	22	21	24	31	1.98
5759178--5759286	19	5.4	19	76	13	92	31	26	5	36	1.79
5766610--5766657	16	3.1	15	85	11	62	29	0	4	66	1.10
5767775--5767890	50	2.3	50	81	11	132	25	28	28	17	1.97
5774868--5774933	29	2.2	29	81	2	87	24	10	15	50	1.75
5774882--5774954	29	2.5	28	77	14	69	30	8	9	52	1.63
5777194--5777219	13	2.0	13	100	0	52	46	0	7	46	1.31
5791357--5791400	18	2.4	18	96	0	79	40	11	13	34	1.81
5793641--5793669	3	10.0	3	92	7	51	68	0	31	0	0.89
5796302--5796352	15	3.4	15	91	0	84	7	66	17	7	1.41
5797210--5797294	44	1.9	44	82	0	107	41	23	17	17	1.90
5810701--5810732	13	2.5	13	100	0	64	56	6	6	31	1.49
5813566--5814423	258	3.4	254	86	8	1071	28	12	17	40	1.87
5815073--5815143	35	2.0	35	94	0	124	50	12	0	36	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5815076--5815138	17	3.7	16	71	21	56	50	11	0	38	1.38
5822066--5822179	24	4.8	24	86	2	158	57	20	12	9	1.62
5822963--5823027	31	2.1	31	82	0	76	24	27	9	38	1.86
5823298--5823326	3	9.7	3	100	0	58	65	0	0	34	0.93
5839271--5839326	23	2.4	23	96	0	103	14	48	3	33	1.61
5840639--5840846	75	2.8	77	85	4	280	24	31	23	20	1.98
5846332--5846389	22	2.5	23	80	5	73	31	12	12	44	1.78
5847229--5847268	21	1.9	21	84	0	53	32	0	17	50	1.47
5858937--5858988	15	3.1	17	71	23	56	51	0	0	48	1.00
5858936--5859010	32	2.3	33	84	13	93	49	0	0	50	1.00
5858961--5859027	21	3.4	21	73	19	63	46	0	0	53	1.00
5862957--5863015	31	1.9	31	92	0	100	27	16	20	35	1.94
5866591--5866629	18	2.1	19	85	4	53	58	5	5	30	1.41
5867164--5867280	55	2.1	58	85	4	159	41	6	4	47	1.50
5878224--5878479	135	1.9	135	88	0	386	26	21	18	33	1.96
5889811--5889984	59	2.9	60	86	3	235	36	16	16	31	1.91
5889830--5889927	31	3.3	31	66	13	78	38	18	17	25	1.92
5889861--5889961	29	3.4	29	68	11	89	34	16	17	30	1.93
5890094--5890127	17	2.0	17	88	0	50	41	5	0	52	1.25
5895662--5895711	21	2.4	21	86	6	66	52	12	32	4	1.57
5897019--5897071	27	1.9	27	88	3	79	60	3	3	32	1.32
5897407--5897457	18	2.8	18	85	5	68	56	0	5	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5898181--5898243	29	2.2	29	82	2	74	53	4	3	38	1.38
5901724--5901766	23	1.9	22	90	4	68	13	11	4	69	1.33
5902094--5902141	22	2.2	22	85	3	62	77	12	6	4	1.11
5906009--5906042	16	2.1	17	89	10	54	23	0	5	70	1.09
5907041--5907148	43	2.5	43	95	0	189	21	12	30	36	1.90
5914375--5914599	103	2.1	105	89	5	337	26	12	24	36	1.91
5914615--5914683	23	3.0	23	84	0	84	21	24	24	28	1.99
5920306--5920519	103	2.1	103	91	1	349	26	13	23	36	1.92
5920548--5920601	23	2.3	23	87	0	72	24	24	22	29	1.99
5920559--5920603	23	2.0	23	95	0	81	22	20	26	31	1.98
5923160--5923209	22	2.3	22	100	0	100	32	16	42	10	1.81
5924707--5924737	2	15.5	2	100	0	62	48	0	0	51	1.00
5930807--5930844	2	19.0	2	100	0	76	50	0	0	50	1.00
5936966--5937013	16	3.0	16	75	22	55	41	14	29	14	1.85
5938461--5938532	12	6.1	11	70	13	54	47	18	15	19	1.83
5938458--5938535	24	3.2	24	87	0	111	47	17	14	20	1.82
5938472--5938549	24	3.2	24	83	3	95	46	17	16	19	1.85
5943127--5943183	12	4.8	12	77	0	60	50	19	14	15	1.77
5943127--5943208	24	3.4	24	78	6	76	50	18	13	18	1.79
5943145--5943221	24	3.2	24	83	3	93	46	16	15	20	1.84
5947525--5947596	36	2.0	36	83	8	92	48	1	4	45	1.30
5947738--5947792	20	2.8	20	97	2	103	18	25	10	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5948133--5948166	16	2.1	16	94	0	59	32	8	26	32	1.87
5948915--5948946	15	2.1	16	94	5	57	50	18	25	6	1.70
5954155--5954544	192	2.0	196	97	2	743	26	21	28	24	1.99
5954894--5954951	27	2.1	28	87	9	84	58	5	3	32	1.37
5958798--5958830	17	1.9	17	100	0	66	12	24	12	51	1.73
5959681--5959710	14	2.1	14	93	0	51	73	3	6	16	1.18
5959729--5959758	3	10.0	3	100	0	60	66	0	0	33	0.92
5961972--5962056	42	2.0	42	84	4	109	50	1	2	45	1.22
5961989--5962071	15	5.7	15	69	13	66	53	1	1	44	1.16
5964544--5964570	14	1.9	14	100	0	54	7	14	48	29	1.71
5965032--5965072	16	2.6	16	100	0	82	43	19	12	24	1.85
5969687--5969763	30	2.6	29	80	10	84	38	7	7	45	1.62
5976734--5976812	42	2.0	41	90	7	126	17	25	17	39	1.92
5980196--5980228	2	16.5	2	93	0	57	48	0	51	0	1.00
5980186--5980228	12	3.4	12	81	12	50	48	2	48	0	1.14
5985986--5986022	19	1.9	19	94	0	65	40	0	0	59	0.97
5986053--5986086	14	2.4	14	86	13	52	55	0	0	44	0.99
5986064--5986109	23	2.0	24	86	4	67	52	0	0	47	1.00
5992056--5992098	12	3.8	12	79	17	56	65	20	9	4	1.40
5992057--5992100	21	2.1	21	100	0	88	68	18	9	4	1.34
6008113--6008152	18	2.2	18	95	0	71	5	45	17	32	1.70
6008452--6008532	8	10.1	8	74	10	67	37	30	0	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6012835--6012892	20	2.7	20	84	10	71	32	20	20	25	1.97
6018314--6018347	18	1.9	17	88	5	50	26	11	0	61	1.30
6018512--6018584	25	3.0	24	75	13	69	27	4	6	61	1.40
6021552--6021589	7	5.4	7	100	0	76	26	28	28	15	1.96
6021586--6021643	5	10.8	5	78	14	62	6	22	51	18	1.70
6021579--6021643	22	3.0	22	100	0	130	9	23	49	18	1.76
6021640--6021737	19	5.2	18	83	12	117	28	29	28	13	1.94
6021640--6021757	38	3.1	38	83	13	129	29	27	27	14	1.95
6021640--6021757	29	4.1	28	81	12	116	29	27	27	14	1.95
6021640--6021757	9	12.3	9	80	10	110	29	27	27	14	1.95

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