genome.fa.s8245.2.7.7.80.10.50.1000.23.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  23  of  33  ( 3922 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)
4643616--4643780	46	3.6	46	85	4	199	24	19	10	45	1.81
4643615--4643806	92	2.1	92	81	4	219	25	18	10	45	1.81
4643835--4644280	54	8.3	54	90	1	606	34	18	16	30	1.93
4646552--4646614	31	2.0	31	100	0	126	31	19	9	39	1.83
4648532--4648564	15	2.2	15	89	10	50	48	12	6	33	1.65
4650667--4650696	12	2.5	12	94	0	51	23	3	3	70	1.18
4656408--4657164	201	3.8	201	79	2	736	33	17	20	28	1.96
4657512--4657703	39	4.9	38	73	16	162	45	4	8	41	1.56
4657519--4657611	37	2.4	37	85	8	116	47	5	6	40	1.52
4657519--4657710	77	2.5	78	79	11	225	44	5	9	40	1.59
4657669--4657731	23	2.7	24	74	18	62	50	3	6	39	1.44
4657677--4657731	23	2.4	23	84	6	67	49	3	7	40	1.48
4657700--4657950	73	3.5	73	82	10	279	43	3	6	46	1.46
4657989--4658027	11	3.5	11	82	6	51	17	2	2	76	1.01
4659317--4659346	14	2.2	14	94	5	53	16	13	0	70	1.18
4660530--4660555	2	13.0	2	100	0	52	50	0	0	50	1.00
4660958--4660993	18	2.0	18	88	0	54	36	13	13	36	1.85
4683507--4683539	17	2.0	17	88	5	50	42	9	0	48	1.35
4683533--4683594	2	31.0	2	100	0	124	50	0	0	50	1.00
4687273--4687313	8	5.2	8	82	5	57	34	0	29	36	1.58
4687394--4687859	127	3.7	127	95	1	830	20	24	21	33	1.97
4688263--4688370	34	3.1	34	82	1	135	37	2	3	55	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4688883--4688993	21	5.3	21	78	7	118	25	25	29	19	1.99
4688900--4688988	42	2.1	42	91	0	142	25	23	30	20	1.98
4688998--4689045	21	2.3	21	88	0	69	20	12	41	25	1.87
4689847--4689879	16	2.1	16	88	11	50	75	0	6	18	1.00
4693530--4693561	2	16.0	2	100	0	64	50	0	0	50	1.00
4694759--4694880	21	5.9	21	72	8	88	18	18	33	28	1.95
4694763--4694882	42	2.9	42	75	10	111	20	18	32	28	1.96
4694746--4694865	63	1.9	63	82	3	152	19	21	32	26	1.97
4695038--4695071	17	2.0	17	94	0	59	2	47	20	29	1.65
4696752--4696864	22	5.1	22	76	14	117	48	0	9	41	1.36
4696859--4696891	13	2.5	13	86	13	50	42	0	3	54	1.15
4697019--4697069	3	17.0	3	76	8	50	29	1	5	62	1.29
4697025--4697055	12	2.6	12	100	0	62	32	0	6	61	1.21
4703259--4703381	31	4.0	31	93	0	210	43	8	25	23	1.81
4704701--4704814	57	2.0	57	96	0	210	34	9	19	36	1.84
4704704--4704843	57	2.5	57	89	3	203	37	9	17	35	1.82
4705022--4705407	67	5.8	67	88	2	533	31	15	24	29	1.95
4705425--4705570	45	3.2	45	86	5	206	36	13	25	24	1.91
4713284--4713350	7	9.1	7	78	15	57	74	0	25	0	0.82
4713278--4713350	14	4.9	15	80	14	80	75	0	23	1	0.88
4713258--4713352	45	2.1	45	82	9	122	75	0	21	3	0.93
4713284--4713352	31	2.2	31	83	16	90	75	0	24	0	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4713253--4713360	31	3.4	31	80	13	87	76	0	19	3	0.93
4714685--4715354	135	5.0	134	85	3	841	29	20	18	31	1.96
4715663--4715703	14	2.9	14	100	0	82	34	0	51	14	1.43
4719561--4719738	90	2.0	90	94	0	311	44	6	11	37	1.68
4721259--4721299	18	2.3	18	86	0	55	26	14	48	9	1.75
4721398--4721595	75	2.6	75	82	4	240	52	14	5	28	1.62
4721515--4721543	12	2.5	12	94	5	51	62	10	0	27	1.28
4721815--4721858	21	2.1	21	91	0	70	29	29	4	36	1.77
4724955--4724987	17	2.0	17	88	5	50	39	0	3	57	1.14
4726062--4726116	28	2.0	28	82	7	67	45	0	1	52	1.11
4726234--4726559	163	2.0	163	100	0	652	37	11	15	36	1.83
4729568--4729640	37	2.0	36	84	7	94	43	1	4	50	1.29
4730602--4730633	3	11.0	3	93	6	57	68	0	0	31	0.90
4731323--4731404	42	2.0	42	90	0	128	32	21	20	24	1.98
4731831--4731927	42	2.3	41	85	1	122	31	22	22	22	1.98
4734964--4735026	3	21.7	3	78	18	71	68	0	3	28	1.05
4734963--4735014	11	4.7	11	83	7	70	69	0	1	28	0.99
4734965--4735026	26	2.2	28	83	8	74	67	0	3	29	1.06
4734965--4735026	29	2.1	29	85	5	81	67	0	3	29	1.06
4734964--4735030	20	3.5	20	84	10	77	68	0	2	28	1.04
4736056--4736124	30	2.3	30	94	0	120	13	28	14	43	1.83
4739176--4739272	21	4.6	21	93	0	158	29	27	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4749463--4749531	31	2.3	31	89	2	104	31	21	8	37	1.84
4750291--4750358	30	2.3	30	85	7	86	29	19	10	41	1.84
4752391--4752447	21	2.7	21	86	5	80	29	28	15	26	1.96
4754909--4754939	14	2.2	14	94	0	53	29	16	29	25	1.96
4757264--4757688	41	10.4	41	80	6	423	26	18	19	34	1.95
4757267--4757693	165	2.6	163	81	4	477	26	18	19	35	1.95
4757261--4757683	124	3.4	122	79	7	446	27	18	19	34	1.95
4757263--4757685	206	2.1	204	83	4	530	27	18	19	34	1.96
4760121--4760200	36	2.2	36	95	0	142	30	15	17	37	1.90
4761232--4761261	15	2.0	15	93	0	51	43	20	23	13	1.86
4762874--4763078	42	4.9	43	82	5	240	43	17	20	19	1.88
4768841--4768947	42	2.6	41	75	8	110	30	20	19	28	1.97
4768505--4769195	245	2.9	238	85	5	914	35	16	16	31	1.91
4769086--4769191	41	2.6	40	79	7	115	33	20	18	27	1.96
4769249--4769498	57	4.5	56	85	7	278	40	19	11	28	1.86
4774389--4774489	28	3.4	28	83	8	112	34	16	15	32	1.91
4774680--4774712	2	16.5	2	93	0	57	48	3	0	48	1.17
4775411--4775702	148	2.0	148	100	0	584	26	24	18	30	1.98
4775897--4775980	42	2.0	42	100	0	168	35	23	0	40	1.55
4777213--4777250	19	2.0	19	94	0	67	18	23	5	52	1.65
4779027--4779116	31	3.0	30	86	1	99	35	18	18	26	1.95
4779059--4779117	31	1.9	31	96	0	109	33	23	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4788091--4788140	24	2.1	24	88	0	73	20	20	8	52	1.71
4789583--4789772	95	2.0	95	100	0	380	29	10	20	40	1.85
4791460--4791506	14	3.1	16	76	14	55	38	2	0	59	1.09
4791455--4791526	29	2.4	29	79	6	74	34	2	4	58	1.32
4791797--4791847	23	2.2	23	89	0	84	29	7	3	58	1.44
4791789--4791850	23	2.4	27	71	20	78	33	6	3	56	1.41
4796504--4796897	195	2.0	194	95	4	715	24	15	31	28	1.96
4811501--4811531	4	7.8	4	100	0	62	25	0	0	74	0.82
4816537--4816617	23	3.6	23	94	3	146	25	20	30	22	1.98
4817693--4817830	68	2.0	72	94	5	248	31	23	7	38	1.82
4831350--4831390	2	20.5	2	100	0	82	48	0	0	51	1.00
4833864--4833896	3	11.0	3	87	12	50	36	0	0	63	0.95
4833863--4833897	18	1.9	18	100	0	70	40	0	0	60	0.97
4834188--4834231	22	2.0	22	86	0	61	25	34	18	22	1.96
4835284--4835342	16	3.6	16	72	19	50	52	1	1	44	1.21
4835377--4835438	31	1.9	33	84	12	85	38	1	1	58	1.18
4835530--4835567	2	19.0	2	100	0	76	50	0	0	50	1.00
4838214--4838300	43	2.0	44	86	2	122	31	11	22	34	1.90
4841199--4841241	16	2.6	16	82	17	52	79	2	18	0	0.85
4841196--4841241	18	2.6	18	80	19	60	78	2	19	0	0.86
4841691--4841751	32	1.9	32	93	0	104	42	21	16	19	1.89
4846441--4847004	77	7.4	77	93	0	970	25	18	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4846441--4847004	153	3.7	154	92	1	963	25	18	21	34	1.96
4846441--4847004	230	2.4	230	93	0	975	25	18	21	34	1.96
4847155--4847204	3	17.0	3	87	4	75	34	0	4	62	1.14
4847493--4847535	22	2.0	22	85	0	59	20	34	20	23	1.96
4848571--4848630	16	3.5	17	71	17	52	45	0	3	51	1.17
4848808--4848840	2	16.5	2	93	0	57	51	0	0	48	1.00
4849526--4849587	28	2.2	29	77	13	67	48	6	4	40	1.50
4850711--4850761	21	2.4	21	80	6	59	33	19	17	29	1.95
4852915--4853289	9	40.3	9	68	19	98	18	8	1	72	1.19
4852838--4853046	81	2.6	82	77	11	200	25	5	1	67	1.19

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