genome.fa.s190.2.7.7.80.10.50.1000.45.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  45  of  62  ( 7381 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)
10526732--10526761	2	15.0	2	100	0	60	50	0	0	50	1.00
10529629--10529669	21	2.0	21	90	0	64	68	2	7	21	1.26
10530511--10530546	2	18.0	2	100	0	72	50	0	0	50	1.00
10533499--10533534	18	2.0	18	100	0	72	33	5	11	50	1.61
10533949--10534009	22	2.6	24	87	7	81	42	22	0	34	1.54
10534156--10534193	12	3.2	12	92	0	67	31	0	0	68	0.90
10534947--10534971	3	8.3	3	100	0	50	0	32	0	68	0.90
10538051--10538618	283	2.0	285	99	0	1122	45	11	24	17	1.82
10542886--10542981	21	4.6	21	94	0	165	29	28	22	19	1.98
10542969--10543061	20	4.6	20	84	12	136	36	18	21	23	1.95
10542900--10543068	21	8.2	20	83	13	77	32	21	22	23	1.98
10543071--10543173	41	2.5	41	83	10	113	25	22	18	33	1.96
10543051--10543173	21	5.9	21	73	14	94	26	21	20	31	1.98
10543262--10543294	6	5.7	6	96	3	59	30	51	18	0	1.46
10543910--10544024	21	5.6	20	71	13	65	33	20	20	26	1.97
10544041--10544114	21	3.6	21	90	3	114	22	21	25	29	1.99
10546152--10546209	26	2.2	26	100	0	116	27	10	8	53	1.64
10550809--10550855	21	2.2	21	96	0	85	19	25	14	40	1.90
10550822--10550869	14	3.5	14	79	20	57	16	22	14	45	1.84
10556912--10556985	36	2.1	36	92	0	121	31	10	10	47	1.73
10556976--10557252	36	7.6	36	89	3	306	26	22	15	35	1.94
10557015--10557263	107	2.3	110	86	4	335	25	23	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10556976--10557263	71	3.9	71	86	3	288	26	23	15	35	1.94
10557364--10557866	43	11.6	43	74	15	387	27	13	29	30	1.94
10557352--10557792	128	3.4	128	80	14	484	26	13	29	30	1.94
10557604--10557793	40	4.5	39	72	22	152	24	13	30	31	1.93
10557663--10557845	51	3.8	50	74	19	167	28	13	27	30	1.94
10557382--10557866	218	2.2	217	82	11	598	27	13	29	30	1.94
10557633--10557890	92	2.9	91	87	9	365	27	13	29	30	1.94
10557926--10558149	86	2.6	88	92	4	357	25	17	20	35	1.95
10561203--10561309	43	2.6	41	73	15	103	43	8	0	47	1.33
10562619--10562647	13	2.1	14	93	6	51	13	20	10	55	1.68
10563894--10564081	21	9.0	21	72	16	140	21	20	22	35	1.96
10563900--10564081	42	4.3	42	90	0	301	21	19	22	35	1.96
10563900--10564081	84	2.2	84	96	0	337	21	19	22	35	1.96
10564167--10564231	6	11.3	6	98	1	109	30	52	16	0	1.45
10564721--10564762	5	8.0	5	97	2	66	0	19	57	23	1.41
10564860--10564950	42	2.2	42	95	0	164	37	20	18	23	1.94
10564860--10564929	21	3.3	21	69	15	72	40	20	17	22	1.92
10564860--10564941	21	3.8	21	70	15	69	37	19	19	23	1.94
10564885--10564952	21	3.2	21	74	15	77	33	22	20	23	1.97
10564994--10565076	21	4.3	21	75	20	81	28	27	20	22	1.99
10565091--10565191	21	4.8	21	92	0	166	21	20	25	31	1.98
10565205--10565279	21	3.6	21	94	0	123	28	26	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10565029--10565359	176	1.9	176	89	5	517	25	21	23	29	1.99
10565288--10565352	21	3.1	21	97	0	121	23	21	24	30	1.99
10566926--10567030	45	2.3	45	86	4	158	33	18	20	28	1.96
10567067--10567104	20	1.9	20	94	0	67	23	21	28	26	1.99
10575533--10575651	46	2.6	46	98	0	229	35	15	18	31	1.92
10575473--10575607	64	2.1	63	82	8	157	32	16	20	31	1.94
10576061--10576094	2	18.0	2	88	11	54	47	0	0	52	1.00
10577687--10577746	33	1.9	30	90	10	93	25	3	1	70	1.12
10581792--10581872	22	3.8	21	90	4	110	72	1	20	4	1.10
10581806--10581891	11	8.4	10	70	16	52	73	1	22	3	1.05
10581792--10581897	43	2.4	43	77	14	110	74	0	18	5	1.07
10581837--10581897	26	2.4	25	75	5	59	77	1	16	4	1.03
10582616--10582683	28	2.4	28	87	0	100	42	30	4	22	1.73
10583981--10584632	54	12.1	54	83	5	793	31	8	18	41	1.81
10585362--10585399	18	2.1	18	95	0	67	34	21	21	23	1.97
10585554--10585637	37	2.3	37	83	10	109	20	15	20	44	1.87
10585787--10585820	14	2.4	14	100	0	68	64	8	20	5	1.43
10586783--10586821	2	19.5	2	100	0	78	48	0	0	51	1.00
10589227--10589327	50	2.0	50	92	0	166	27	18	21	31	1.97
10598958--10599010	27	2.0	27	85	7	72	75	1	5	16	1.08
10598999--10599030	16	1.9	17	93	6	57	59	3	6	31	1.38
10600705--10601186	38	13.0	37	75	13	345	44	9	2	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10600733--10601163	77	5.8	76	78	9	245	44	8	3	43	1.51
10601151--10601176	12	2.2	12	100	0	52	50	7	0	42	1.31
10601073--10601175	36	2.8	36	81	8	102	46	10	3	38	1.57
10603062--10603471	85	4.8	85	82	1	448	26	14	22	36	1.93
10604988--10605194	99	2.1	99	88	2	301	33	18	14	33	1.91
10608746--10608804	19	3.0	20	85	12	77	77	1	5	15	1.01
10610518--10610592	9	8.5	8	85	14	71	69	1	0	29	0.97
10610527--10610592	12	5.6	12	89	8	82	69	1	0	28	0.97
10610542--10610592	3	17.0	3	95	0	93	68	0	0	31	0.90
10610618--10610939	74	4.3	75	85	11	364	44	4	3	47	1.39
10610648--10610939	37	7.8	37	80	11	328	44	4	3	47	1.40
10612101--10612126	2	13.0	2	100	0	52	50	0	0	50	1.00
10613339--10613390	21	2.5	21	96	3	97	36	7	9	46	1.66
10614259--10614312	19	2.8	19	86	5	74	27	24	24	24	2.00
10615022--10615066	22	2.0	22	95	0	81	26	20	22	31	1.98
10621161--10621241	24	3.4	24	71	6	74	24	13	17	44	1.85
10624585--10624651	33	2.0	33	94	0	116	46	14	17	20	1.84
10629607--10629708	18	5.7	18	86	0	141	27	32	20	19	1.97
10632054--10632365	91	3.4	91	90	0	491	24	21	16	37	1.93
10632442--10632476	14	2.5	14	90	0	61	34	8	25	31	1.86
10632877--10633135	129	2.0	130	99	0	511	26	19	13	41	1.88
10634558--10634606	5	9.8	5	84	6	64	0	14	0	85	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10634558--10634730	11	16.2	10	72	17	100	2	15	2	79	0.93
10634558--10634730	21	8.1	20	69	18	100	2	15	2	79	0.93
10634537--10634735	67	3.0	64	74	17	178	2	17	2	78	0.94
10634639--10634716	8	9.4	8	78	13	52	5	17	1	75	1.05
10634557--10634643	1	87.0	1	72	0	57	0	11	3	85	0.72
10634569--10634734	57	3.0	54	79	14	144	2	16	2	78	0.95
10641017--10641094	22	3.7	22	90	6	119	14	24	33	28	1.94
10647949--10648022	22	3.6	21	80	14	91	16	25	29	28	1.97
10647943--10648041	22	5.1	18	75	16	81	18	24	28	29	1.98
10647943--10648041	40	2.5	40	88	0	144	18	24	28	29	1.98
10649806--10649847	21	2.0	21	95	0	75	23	21	28	26	1.99
10650128--10650200	35	2.2	33	85	5	92	32	15	30	21	1.94
10651478--10651527	20	2.5	20	81	18	61	50	4	12	34	1.58
10652969--10653046	21	4.0	21	66	25	64	20	35	26	16	1.94
10653228--10653267	20	1.9	21	85	10	55	37	37	10	15	1.80
10653480--10653552	35	2.2	33	85	5	92	32	15	30	21	1.94
10654171--10654213	22	1.9	23	85	4	61	69	4	0	25	1.07
10654176--10654223	22	2.1	23	81	11	55	70	6	0	22	1.09
10655657--10655712	3	18.7	3	81	0	58	58	1	0	39	1.08
10655657--10655713	15	3.8	15	79	9	71	57	1	0	40	1.09
10657223--10657355	59	2.2	59	83	11	157	34	18	15	31	1.92
10658359--10658416	29	2.0	29	87	12	84	37	10	13	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10658919--10658949	15	2.1	15	93	0	53	38	6	12	41	1.69
10660827--10660857	15	2.1	15	93	0	53	54	0	0	45	0.99
10664171--10664282	24	4.7	24	89	0	152	34	22	18	24	1.96
10664171--10664282	48	2.3	48	89	0	170	34	22	18	24	1.96
10666754--10666796	18	2.4	18	96	0	77	11	20	48	18	1.79
10667915--10667947	2	16.5	2	100	0	66	48	0	0	51	1.00
10675350--10675403	19	3.0	19	71	13	51	44	0	0	55	0.99
10675349--10675415	28	2.4	28	82	7	82	41	0	0	58	0.98
10675350--10675434	37	2.4	36	84	5	102	43	2	0	54	1.13
10675443--10675476	12	2.8	12	90	4	50	29	2	5	61	1.34

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