genome.fa.s8620.2.7.7.80.10.50.1000.62.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  62  of  64  ( 7674 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)
12511180--12511549	85	4.3	84	81	5	377	29	20	25	24	1.99
12511220--12511537	42	7.5	41	80	8	325	29	20	24	25	1.99
12511180--12511549	127	2.9	129	80	7	387	29	20	25	24	1.99
12516219--12516603	41	9.4	41	76	7	314	31	19	20	29	1.97
12517808--12517940	17	8.2	16	70	16	62	63	2	0	34	1.07
12517792--12517892	24	4.4	22	74	21	82	66	0	0	32	0.99
12517794--12517939	9	18.5	8	71	22	80	63	2	0	34	1.06
12517794--12517896	7	13.7	7	74	18	52	66	0	0	32	0.98
12517834--12517904	37	1.9	36	86	13	101	61	1	0	36	1.05
12517829--12517939	44	2.5	44	83	14	131	60	1	0	37	1.07
12523129--12523203	37	2.0	37	82	10	91	49	4	1	45	1.29
12524728--12524752	2	12.5	2	100	0	50	48	0	0	52	1.00
12524721--12524800	8	10.2	8	79	11	69	41	1	0	57	1.07
12524870--12524903	17	1.9	18	88	5	52	5	2	11	79	1.02
12524930--12524979	15	3.1	15	76	15	55	16	8	6	70	1.32
12524928--12524973	15	2.9	15	83	9	56	15	4	6	73	1.19
12524928--12525002	33	2.3	33	84	9	91	17	8	4	70	1.27
12524994--12525035	17	2.5	16	85	11	57	14	4	2	78	1.01
12525010--12525042	10	3.0	11	87	12	50	18	3	0	78	0.87
12525006--12525035	6	5.0	6	91	0	51	16	3	0	80	0.85
12525047--12525089	19	2.2	20	84	12	54	9	16	0	74	1.06
12527960--12528115	31	5.0	31	94	1	260	37	22	19	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12532507--12532724	31	7.0	31	93	1	357	39	22	18	20	1.92
12535098--12535139	22	1.9	22	95	0	75	26	26	23	23	2.00
12541956--12542023	18	3.8	18	86	3	84	29	30	23	16	1.96
12542285--12542315	2	15.5	2	100	0	62	51	0	0	48	1.00
12548379--12548748	188	2.0	182	96	3	686	36	14	23	25	1.92
12550165--12550192	6	4.7	6	100	0	56	85	0	14	0	0.59
12551470--12551516	24	2.0	24	83	8	60	57	12	2	27	1.47
12561184--12561217	10	3.3	10	87	4	50	76	0	5	17	0.98
12561691--12561737	24	2.0	24	83	8	60	57	12	2	27	1.47
12565796--12565847	24	2.2	24	82	0	59	50	17	11	21	1.77
12565816--12565934	24	5.0	24	88	6	161	40	19	16	23	1.91
12565852--12565952	48	2.1	48	87	3	141	41	19	14	23	1.89
12568387--12568451	31	2.1	31	88	0	94	18	20	44	16	1.87
12568411--12568447	13	2.8	13	83	0	56	16	21	45	16	1.84
12569669--12569714	15	2.7	18	80	19	71	19	4	4	71	1.20
12570770--12570806	2	18.5	2	94	0	65	48	2	0	48	1.15
12571611--12571749	70	2.0	70	92	2	235	36	16	15	30	1.90
12573749--12573793	20	2.2	21	84	7	58	20	6	2	71	1.20
12577124--12577182	11	4.8	12	71	17	50	32	16	0	50	1.46
12577110--12577193	38	2.3	38	91	4	136	30	14	1	53	1.48
12577120--12577197	38	2.1	37	97	2	147	30	15	0	53	1.42
12577389--12577683	144	2.0	150	95	4	539	36	17	5	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12577667--12577716	19	2.6	19	100	0	100	40	20	6	34	1.77
12577785--12577810	2	13.0	2	100	0	52	50	0	0	50	1.00
12584831--12584920	29	3.1	29	91	0	153	31	5	16	46	1.70
12585546--12585613	2	34.0	2	89	0	100	47	2	1	48	1.26
12586529--12586571	20	2.0	20	86	8	59	39	0	25	34	1.56
12586737--12586895	64	2.5	63	84	6	212	32	19	23	24	1.98
12586883--12586940	20	2.7	20	84	10	71	29	20	24	25	1.99
12589098--12589204	31	3.5	31	74	8	101	29	17	15	36	1.92
12589527--12589570	2	21.5	2	95	4	79	47	0	2	50	1.13
12589556--12589619	33	2.0	33	85	11	89	34	0	15	50	1.45
12589527--12589604	10	7.5	11	80	10	69	41	0	8	50	1.34
12595869--12595969	41	2.5	41	98	0	193	37	25	17	18	1.93
12595872--12595944	20	3.6	20	77	3	83	39	26	19	15	1.90
12595869--12595973	21	5.1	21	73	3	97	38	26	17	18	1.92
12597097--12597195	29	3.3	29	81	5	108	35	9	17	38	1.81
12599544--12599589	2	23.0	2	100	0	92	50	0	0	50	1.00
12619163--12619266	45	2.3	45	100	0	208	33	11	21	33	1.89
12620792--12621000	105	2.0	106	89	2	323	42	10	4	43	1.58
12620937--12620993	28	2.0	28	89	0	87	49	10	3	36	1.55
12625297--12625561	81	3.3	79	89	3	406	21	20	26	32	1.98
12628641--12628677	17	2.2	17	100	0	74	43	18	0	37	1.51
12630908--12630971	20	3.2	20	91	6	96	17	29	32	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12630908--12631012	43	2.6	40	76	14	90	19	27	31	21	1.97
12634800--12634839	21	1.9	21	85	10	55	35	10	2	52	1.48
12636166--12636555	193	2.0	197	96	3	736	35	23	12	29	1.91
12637642--12637749	35	3.2	35	68	7	105	39	12	16	31	1.85
12637632--12637801	67	2.6	66	85	4	191	37	12	18	30	1.89
12639641--12639691	23	2.4	21	75	12	50	56	15	11	15	1.66
12639640--12639695	21	2.7	21	76	15	62	53	16	12	17	1.73
12640931--12640980	3	16.7	3	100	0	100	34	0	0	66	0.92
12652972--12653014	20	2.2	20	82	0	50	41	0	9	48	1.35
12658844--12658887	21	2.1	21	83	8	54	29	18	22	29	1.97
12660356--12660399	21	2.0	22	86	4	63	52	9	2	36	1.46
12661656--12661711	24	2.4	23	76	5	58	44	0	8	46	1.34
12661998--12662037	20	2.0	20	95	0	71	52	2	0	45	1.14
12662229--12662276	23	2.1	23	92	0	78	37	6	8	47	1.59
12663079--12663121	15	3.0	14	83	12	52	74	0	11	13	1.07
12664890--12665466	105	5.5	105	96	0	1028	22	17	24	34	1.96
12676876--12676914	15	2.6	14	84	11	51	74	0	12	12	1.08
12684852--12684911	24	2.5	24	100	0	120	48	3	0	48	1.18
12685995--12686039	17	2.6	17	80	10	56	40	11	6	42	1.67
12686317--12686441	56	2.2	56	91	0	196	23	10	12	53	1.69
12686433--12686483	23	2.2	23	78	0	57	23	7	19	49	1.74
12690486--12690524	18	2.2	18	85	0	51	71	5	10	12	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12696029--12696080	20	2.6	20	84	0	77	28	19	21	30	1.97
12700028--12700168	31	4.5	31	89	0	210	39	21	17	21	1.92
12701042--12701101	20	2.9	21	90	7	95	18	26	25	30	1.98
12705084--12705239	31	5.0	30	88	3	204	37	22	18	21	1.94
12705097--12705239	62	2.3	62	92	0	232	38	22	18	20	1.93
12706125--12706184	20	2.9	21	85	7	86	18	26	23	31	1.97
12707079--12707121	17	2.6	16	78	7	50	39	25	0	34	1.56
12709053--12709101	2	25.0	2	89	4	73	51	2	0	46	1.12
12709930--12710054	31	4.0	31	92	2	198	37	22	19	20	1.94
12710942--12711001	20	2.9	21	85	7	86	18	26	23	31	1.97
12713292--12713343	20	2.6	20	84	0	77	28	19	21	30	1.97
12714221--12714345	31	4.0	31	77	6	135	28	18	20	32	1.96
12718619--12718930	155	2.0	157	98	1	610	29	26	14	30	1.95
12729400--12729489	35	2.6	35	78	7	110	18	14	24	42	1.88
12733924--12733977	28	1.9	28	85	7	74	53	12	1	31	1.50
12743809--12743847	5	7.4	5	83	11	51	0	41	5	53	1.23
12743800--12743847	22	2.1	24	92	7	82	0	39	6	54	1.26
12743805--12743850	12	3.9	12	86	13	69	0	41	6	52	1.27
12744273--12744339	23	2.9	23	90	0	89	32	23	23	19	1.97
12745897--12745954	20	2.6	22	84	10	66	27	20	18	32	1.97
12748257--12748300	19	2.4	19	92	3	72	36	15	6	40	1.74
12755407--12755452	6	7.7	6	77	18	51	78	0	0	21	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12755408--12755450	10	4.3	10	85	14	54	76	0	0	23	0.78
12755415--12755452	13	2.9	13	84	7	51	76	0	0	23	0.79
12755409--12755463	20	2.8	20	84	15	62	70	1	0	27	0.97
12755468--12755500	17	1.9	17	93	0	57	45	6	3	45	1.43
12755448--12755544	42	2.3	44	78	16	109	48	7	3	41	1.46
12755541--12755574	13	2.5	13	90	4	50	41	8	2	47	1.50
12755485--12755794	111	2.8	107	77	14	319	43	10	4	41	1.60
12755448--12755792	35	9.2	36	74	16	224	44	9	4	41	1.57
12755531--12755792	37	7.2	35	78	14	203	43	10	4	41	1.60
12755498--12755738	72	3.3	71	79	12	224	41	10	5	42	1.62

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