genome.fa.s1129.2.7.7.80.10.50.1000.86.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  86  of  89  ( 10573 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)
20675183--20675227	2	22.5	2	100	0	90	51	0	0	48	1.00
20677006--20677055	19	2.6	19	93	0	82	30	14	32	24	1.94
20677201--20677271	22	3.3	22	76	7	92	35	12	19	32	1.90
20677216--20677281	20	3.2	20	75	8	78	33	10	24	31	1.89
20677191--20677282	42	2.2	42	100	0	184	31	11	26	30	1.92
20677635--20677775	54	2.6	54	88	5	205	35	12	19	31	1.90
20677635--20677769	55	2.5	55	90	6	204	36	12	19	31	1.89
20677980--20678167	68	2.8	68	86	3	245	32	14	21	30	1.94
20678048--20678834	150	5.3	150	82	6	939	32	14	23	30	1.94
20678498--20678753	68	3.8	68	87	1	352	30	14	23	31	1.94
20678711--20678867	81	1.9	81	89	2	244	36	10	23	28	1.89
20681840--20682214	29	12.9	29	96	0	669	31	6	6	54	1.53
20682184--20682233	23	2.2	22	82	3	55	32	10	8	50	1.65
20687869--20688516	318	2.0	309	95	4	994	38	14	10	36	1.80
20697001--20697436	205	2.1	205	89	2	662	34	15	19	31	1.93
20700152--20700242	42	2.2	42	80	2	103	29	17	21	30	1.96
20700578--20700627	24	2.0	26	84	7	68	72	0	16	12	1.13
20700568--20700634	35	2.0	33	82	5	80	73	0	11	14	1.11
20702008--20702044	7	5.1	7	93	6	65	29	0	0	70	0.88
20710095--20710326	48	5.0	48	79	7	253	23	15	26	34	1.95
20710095--20710326	89	2.5	89	83	4	266	23	15	26	34	1.95
20710212--20710300	41	2.2	41	91	0	142	24	15	24	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20710253--20710347	48	2.0	48	82	0	118	22	14	27	35	1.93
20710477--20710560	30	2.8	30	85	0	105	48	7	13	30	1.68
20714081--20714105	10	2.5	10	100	0	50	44	8	32	16	1.76
20720084--20720127	15	3.0	15	83	12	56	15	0	6	77	0.97
20727657--20727706	25	2.1	22	82	10	55	32	0	10	58	1.31
20734434--20734486	19	2.8	19	85	0	79	33	16	20	28	1.95
20737289--20737340	20	2.6	20	100	0	104	34	17	19	28	1.94
20740791--20740838	18	2.7	18	100	0	96	29	20	20	29	1.98
20744093--20744799	194	3.6	193	82	5	724	35	20	8	34	1.84
20749380--20749442	23	3.0	20	71	15	63	52	15	4	26	1.63
20749537--20749590	29	1.9	27	92	3	81	53	11	12	22	1.70
20749942--20749989	24	2.0	24	95	0	87	33	10	29	27	1.90
20755320--20755351	16	2.1	15	94	5	55	40	28	18	12	1.87
20755265--20755349	32	2.7	32	77	0	98	45	24	15	14	1.83
20756719--20756831	17	6.5	17	75	5	100	44	11	10	33	1.75
20756719--20756831	35	3.2	34	82	5	129	44	11	10	33	1.75
20757872--20757925	25	2.1	26	83	13	67	48	9	7	35	1.63
20758479--20758517	21	2.0	20	90	10	62	41	15	5	38	1.69
20763721--20763815	29	3.3	29	98	0	181	36	12	17	32	1.88
20763932--20764044	17	6.5	17	76	5	109	43	12	10	33	1.77
20763932--20764044	35	3.2	34	83	5	138	43	12	10	33	1.77
20765905--20765944	8	5.0	8	87	0	62	57	12	0	30	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20765905--20765944	16	2.5	16	100	0	80	57	12	0	30	1.36
20779470--20779509	18	2.2	18	86	8	55	10	12	37	40	1.77
20779556--20779595	21	1.9	21	90	10	64	62	2	0	35	1.09
20780195--20780233	21	2.0	20	90	10	62	41	15	5	38	1.69
20782228--20782282	22	2.5	22	82	5	67	34	1	9	54	1.43
20782430--20782565	39	3.5	39	89	0	200	24	17	28	29	1.97
20788953--20789029	8	9.4	8	70	16	59	79	0	15	5	0.91
20788964--20789021	22	2.8	20	75	19	55	75	0	17	6	1.01
20788967--20789021	21	2.5	21	88	5	74	76	0	16	7	1.00
20790354--20790843	130	3.7	131	79	4	497	30	19	19	30	1.96
20791036--20791138	3	33.7	3	75	14	70	32	0	0	66	1.05
20791094--20791150	27	2.1	27	83	6	71	29	1	1	66	1.12
20792625--20792666	21	2.0	21	95	0	75	33	14	7	45	1.72
20793976--20794040	13	4.9	13	78	14	62	73	6	3	16	1.16
20793990--20794048	26	2.3	26	82	8	68	74	6	3	15	1.16
20795255--20795309	22	2.5	22	93	0	92	34	9	23	32	1.86
20795890--20795933	7	6.1	7	81	5	52	36	2	25	36	1.69
20795889--20795927	15	2.7	14	84	7	51	33	5	25	35	1.78
20800188--20800222	18	1.9	18	88	0	52	22	17	25	34	1.96
20801860--20801922	31	2.0	31	93	0	108	23	22	9	44	1.82
20803575--20803721	40	3.7	40	80	3	170	28	22	16	32	1.95
20803573--20803721	81	1.8	81	85	2	210	28	22	16	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20804111--20804405	37	8.2	35	75	14	237	45	4	6	44	1.49
20804271--20804331	29	2.1	29	90	0	95	45	6	4	42	1.51
20804230--20804405	67	2.6	66	83	8	201	44	5	5	44	1.48
20804371--20804430	29	2.1	28	84	6	77	45	5	5	45	1.47
20804471--20804501	2	16.0	2	93	6	55	48	0	0	51	1.00
20804722--20804751	16	1.9	15	93	6	51	20	40	26	13	1.89
20805749--20805791	14	2.9	14	86	10	50	11	2	2	83	0.83
20805922--20805964	15	2.9	15	92	0	68	23	6	0	69	1.12
20810873--20811756	84	10.7	82	81	7	893	29	25	21	23	1.99
20810873--20811759	165	5.4	165	88	3	1300	29	25	21	23	1.99
20810873--20811759	330	2.7	329	93	1	1434	29	25	21	23	1.99
20812357--20812607	37	6.9	36	76	11	203	45	3	5	44	1.46
20812356--20812601	36	6.9	36	76	13	206	45	4	5	45	1.46
20812477--20812532	29	1.9	29	96	0	103	44	3	5	46	1.43
20812478--20812540	29	2.2	29	91	0	99	46	6	4	42	1.50
20812505--20812616	36	3.1	38	81	5	124	43	6	6	43	1.54
20812439--20812614	67	2.6	66	83	8	210	44	4	5	45	1.46
20812578--20812672	29	3.3	26	78	16	91	48	3	3	45	1.34
20812431--20812713	67	4.2	66	73	20	205	45	3	5	46	1.41
20814130--20814170	15	2.7	15	92	0	64	21	7	0	70	1.11
20819270--20819404	43	3.2	43	89	3	184	26	18	21	33	1.96
20821046--20821106	27	2.2	28	85	2	79	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20822416--20822447	2	16.0	2	100	0	64	50	0	0	50	1.00
20823704--20823754	25	2.0	25	88	0	75	29	33	0	37	1.58
20823718--20823786	32	2.2	30	87	7	102	28	33	0	37	1.58
20824198--20824268	21	3.5	21	75	14	69	19	36	26	16	1.94
20824192--20824304	19	5.9	18	72	21	81	22	34	28	15	1.94
20824190--20824304	40	3.0	39	78	16	134	22	33	28	14	1.94
20826305--20826345	21	2.0	21	86	13	59	51	2	7	39	1.43
20829803--20829918	20	5.9	20	74	17	109	21	31	29	17	1.96
20829803--20829915	42	2.9	40	81	12	146	22	30	30	17	1.97
20832779--20835313	862	3.0	845	93	2	4221	30	20	12	36	1.90
20835029--20835067	18	2.2	18	85	0	51	46	35	2	15	1.60
20840437--20840518	20	3.9	21	71	16	71	25	34	25	14	1.94
20842353--20842399	16	2.8	17	75	15	53	23	0	21	55	1.44
20853401--20853616	54	4.0	54	95	0	378	37	18	11	32	1.86
20860016--20860461	54	8.3	54	93	0	739	37	17	12	32	1.87
20861979--20862108	65	2.0	62	85	7	172	20	6	19	53	1.67
20862046--20862161	52	2.2	50	79	8	124	20	9	18	50	1.74
20863482--20863535	22	2.4	23	75	12	58	55	0	1	42	1.10
20863624--20863704	32	2.6	31	80	3	99	46	11	4	37	1.61
20864694--20864827	67	2.0	67	100	0	268	26	37	17	17	1.93
20865482--20865511	7	4.3	7	100	0	60	0	70	0	30	0.88
20867834--20867885	19	2.7	19	84	3	59	44	5	13	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20869485--20869534	21	2.4	21	100	0	100	26	30	18	26	1.98
20870667--20870765	49	2.0	49	98	0	189	28	12	10	49	1.72
20886266--20886319	23	2.4	23	81	3	74	70	9	7	12	1.33
20886337--20886367	14	2.2	14	100	0	62	80	6	6	6	1.02
20886335--20886437	10	10.7	9	67	16	55	76	4	4	13	1.11
20886374--20886446	27	2.7	26	83	12	85	78	5	2	13	1.04
20886396--20886469	38	2.0	38	83	2	96	77	4	6	12	1.11
20886514--20886576	2	31.5	2	100	0	126	50	0	0	49	1.00
20886643--20886721	43	1.9	39	82	12	97	29	13	17	39	1.89
20888715--20888745	2	16.0	2	93	6	55	51	0	0	48	1.00

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89