genome.fa.s1465.2.7.7.80.10.50.1000.53.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  53  of  55  ( 6520 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)
10655067--10655140	24	3.1	24	86	3	78	21	16	18	43	1.88
10657331--10657406	13	5.3	13	77	17	71	15	43	22	18	1.88
10657309--10657385	18	4.6	18	78	15	101	16	49	20	12	1.79
10657313--10657391	31	2.5	31	93	0	140	16	46	21	15	1.83
10657349--10657420	8	9.5	8	77	19	75	15	38	25	20	1.92
10657383--10657421	7	5.4	7	93	6	69	12	33	28	25	1.93
10657367--10657421	15	3.9	15	90	6	80	14	36	27	21	1.93
10659853--10659984	48	2.8	48	76	13	137	21	16	18	42	1.89
10659870--10659984	24	4.8	24	88	6	162	22	17	19	40	1.91
10659921--10659994	24	3.1	24	86	3	78	21	16	18	43	1.88
10660823--10660867	22	2.0	22	82	4	54	31	31	26	11	1.91
10661663--10661731	2	35.0	2	97	2	131	49	0	0	50	1.00
10662300--10662366	21	3.2	21	95	0	125	29	10	25	34	1.89
10662383--10662425	22	2.0	22	85	0	59	23	20	25	30	1.99
10666068--10666110	21	2.0	21	81	0	50	30	30	25	13	1.94
10666139--10666183	22	2.0	22	82	4	54	31	31	26	11	1.91
10666969--10666998	2	15.0	2	100	0	60	50	0	0	50	1.00
10667567--10667612	21	2.2	21	100	0	92	28	10	26	34	1.90
10670292--10670330	19	2.1	19	100	0	78	20	15	33	30	1.94
10675012--10675990	106	9.3	106	94	0	1712	33	26	17	21	1.96
10675012--10675990	317	3.1	318	94	0	1721	33	26	17	21	1.96
10675012--10675990	423	2.3	423	97	0	1843	33	26	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10677452--10677516	27	2.5	27	85	14	84	23	7	1	67	1.25
10677482--10677532	25	2.0	24	82	14	59	21	7	0	70	1.12
10677795--10677845	20	2.5	20	80	3	66	17	21	5	54	1.63
10699904--10700053	15	9.5	15	76	15	142	45	0	3	50	1.23
10700015--10700071	18	3.4	18	72	18	59	35	0	10	54	1.35
10700001--10700130	32	4.4	31	76	18	134	38	0	7	53	1.35
10699881--10700079	79	2.5	75	80	17	235	44	0	5	49	1.29
10700024--10700640	54	11.6	54	72	16	473	35	0	11	52	1.40
10700056--10700628	80	7.2	78	85	10	672	34	0	12	52	1.41
10700190--10700384	22	8.0	22	71	20	129	36	0	11	51	1.38
10700373--10700426	14	3.6	14	72	18	54	37	0	5	57	1.22
10700588--10700630	22	2.0	22	100	0	86	34	0	13	51	1.42
10700655--10700713	31	1.9	31	92	0	100	42	10	6	40	1.65
10701494--10701535	20	2.1	20	95	0	75	40	11	4	42	1.63
10704428--10704458	15	2.1	15	93	0	53	77	0	0	22	0.77
10715825--10715900	35	2.2	35	90	0	116	39	22	1	36	1.63
10716285--10716532	130	1.9	130	91	0	406	36	14	12	35	1.85
10716299--10716563	130	2.0	129	80	4	291	40	13	12	33	1.82
10716994--10717027	16	2.0	18	88	11	54	64	5	2	26	1.30
10717027--10717085	28	2.1	28	81	6	66	45	6	1	45	1.40
10720199--10720225	14	1.9	14	100	0	54	7	7	29	55	1.55
10720199--10720249	24	2.1	24	81	0	57	9	11	23	54	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10721311--10721348	16	2.4	16	95	0	67	7	13	23	55	1.64
10723557--10723590	14	2.3	15	90	5	52	52	23	0	23	1.47
10725054--10725225	54	3.2	54	90	4	242	22	27	23	26	2.00
10727804--10727834	16	1.9	16	100	0	62	58	22	12	6	1.58
10727904--10727952	16	3.1	16	93	0	80	55	22	14	8	1.65
10729799--10729832	17	2.0	17	88	0	50	52	32	0	14	1.42
10731318--10731358	19	2.2	19	83	16	50	53	14	0	31	1.41
10731355--10731414	25	2.5	24	84	12	79	33	3	6	56	1.42
10731777--10731816	21	1.9	21	94	0	71	12	25	37	25	1.91
10731778--10731830	21	2.4	21	84	6	61	18	20	35	24	1.95
10735649--10735688	21	1.9	21	90	10	64	37	10	0	52	1.35
10738638--10738701	14	5.1	14	70	24	54	50	26	14	9	1.73
10738629--10738700	34	2.1	34	86	0	99	51	25	13	9	1.72
10743228--10743269	19	2.2	19	91	0	66	47	19	7	26	1.74
10743248--10743347	38	2.6	38	91	0	155	42	23	5	30	1.75
10743240--10743353	18	6.0	18	66	15	61	41	22	5	30	1.76
10743241--10743354	19	6.0	19	66	15	65	41	23	5	29	1.76
10745378--10745425	25	1.9	25	100	0	96	25	25	25	25	2.00
10745525--10745551	2	13.5	2	100	0	54	51	0	0	48	1.00
10746757--10746804	20	2.3	21	82	7	62	18	37	31	12	1.88
10746774--10746817	20	2.2	20	87	0	61	18	47	25	9	1.77
10748766--10748820	27	2.0	27	96	0	101	30	0	3	65	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10749565--10749627	21	3.0	21	83	2	81	17	39	26	15	1.90
10751457--10751501	23	1.9	24	86	4	65	26	2	0	71	0.98
10753052--10753135	31	2.7	31	84	0	96	36	17	26	19	1.94
10753365--10753397	15	2.1	16	94	5	59	24	0	9	66	1.20
10753553--10753710	21	7.8	20	70	7	77	37	24	17	19	1.93
10753678--10754061	20	19.5	20	78	10	371	34	25	18	20	1.96
10753736--10754061	96	3.3	101	82	9	343	34	25	18	21	1.96
10753717--10754061	121	2.9	118	88	6	459	33	25	18	21	1.96
10757223--10757689	19	27.1	19	79	18	526	45	17	22	14	1.84
10757251--10757715	51	9.0	50	88	10	631	45	17	23	14	1.85
10757288--10757689	70	5.8	72	82	15	474	45	17	22	14	1.84
10757723--10757805	20	4.6	19	81	15	113	14	24	18	43	1.87
10757911--10757947	14	2.6	14	91	0	65	45	21	0	32	1.52
10759883--10759939	14	3.7	14	77	20	60	45	22	21	10	1.82
10759864--10759956	33	2.8	33	95	0	168	47	21	20	10	1.80
10759843--10759961	19	6.8	19	77	18	123	47	22	20	10	1.80
10759957--10760085	19	7.3	19	75	17	125	8	17	28	45	1.77
10759957--10760048	33	2.8	33	93	3	150	7	18	28	45	1.76
10760129--10760501	91	4.1	92	96	2	668	46	18	12	22	1.83
10760129--10760501	181	2.0	183	94	4	666	46	18	12	22	1.83
10762252--10762306	14	3.6	14	73	21	56	9	25	23	41	1.83
10762236--10762306	33	2.2	33	94	0	124	8	22	25	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10762247--10762328	33	2.5	33	89	2	119	9	25	21	42	1.84
10762259--10762347	20	4.8	20	72	19	75	12	24	19	43	1.85
10762426--10762496	33	2.2	33	92	0	115	47	18	22	11	1.80
10762677--10762731	22	2.5	22	81	0	74	20	16	40	23	1.91
10762877--10763069	20	9.6	20	80	5	210	19	19	26	35	1.95
10762877--10763069	60	3.2	60	81	0	242	19	19	26	35	1.95
10765149--10765195	15	3.4	15	72	22	57	23	6	40	29	1.79
10765145--10765198	26	2.1	26	100	0	108	24	7	42	25	1.80
10776649--10776678	15	2.0	15	93	0	51	66	0	30	3	1.07
10789203--10789300	50	1.9	52	85	4	137	45	14	25	14	1.82
10790072--10790730	105	6.3	105	93	2	1100	34	24	18	22	1.96
10790072--10790730	308	2.1	311	92	1	1108	34	24	18	22	1.96
10793349--10793592	82	3.0	82	83	5	303	32	18	17	31	1.94
10793388--10793510	41	3.0	40	68	20	101	30	19	21	28	1.97
10793293--10793592	164	1.8	166	82	2	390	33	17	16	33	1.92
10793963--10794058	29	3.3	29	69	13	97	36	17	3	42	1.65
10793991--10794079	29	3.0	29	66	15	83	30	13	5	50	1.64
10793945--10794079	59	2.3	59	97	0	252	30	14	5	48	1.68
10794353--10794443	26	3.5	26	67	15	71	40	3	6	49	1.45
10798607--10798658	20	2.6	20	87	0	77	25	23	25	26	2.00
10806925--10806969	21	2.1	21	100	0	90	22	11	4	62	1.46
10806931--10806976	21	2.2	21	88	0	65	30	10	4	54	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10809051--10809077	9	3.0	9	100	0	54	33	0	0	66	0.92
10811014--10811167	31	5.0	31	95	1	265	20	19	22	37	1.94
10812481--10812514	18	1.9	18	88	5	52	17	26	29	26	1.98
10814162--10814221	3	20.0	3	100	0	120	66	0	0	33	0.92
10821896--10821969	39	1.9	38	83	8	96	44	1	4	50	1.29
10823238--10823352	44	2.8	41	80	9	119	20	15	41	21	1.90
10823238--10823359	40	2.9	41	79	9	124	19	16	41	22	1.90
10823867--10824614	112	6.7	110	83	5	858	28	18	15	37	1.92
10823867--10824614	224	3.3	224	87	2	1056	28	18	15	37	1.92
10823749--10824614	336	2.5	336	87	4	1148	28	18	15	37	1.91

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