genome.fa.s7984.2.7.7.80.10.50.1000.14.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  14  of  65  ( 7696 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)
2714944--2714976	15	2.2	15	94	0	57	63	3	0	33	1.10
2715349--2715395	21	2.2	22	92	3	78	44	19	4	31	1.70
2715433--2715509	30	2.5	31	87	2	120	22	10	15	51	1.73
2715443--2715485	15	2.9	15	75	10	52	23	13	11	51	1.74
2716827--2716936	31	3.5	31	86	0	148	52	13	11	21	1.72
2717428--2717483	22	2.6	22	86	5	71	55	1	0	42	1.10
2717409--2717468	28	2.2	26	85	11	77	51	0	0	48	1.00
2724500--2724544	22	2.0	22	87	8	65	51	28	4	15	1.63
2726255--2726307	23	2.3	23	90	3	81	45	5	9	39	1.60
2726255--2726318	23	2.8	23	79	9	60	46	4	7	40	1.53
2728168--2728192	2	12.5	2	100	0	50	52	0	48	0	1.00
2728516--2728542	13	2.1	13	100	0	54	37	7	0	55	1.28
2730261--2730305	19	2.4	19	85	10	58	46	4	0	48	1.22
2735432--2735588	4	37.2	4	74	17	106	70	3	0	24	1.08
2735430--2735585	30	5.0	31	74	14	126	69	4	0	25	1.11
2735432--2735588	17	8.8	17	77	12	122	70	3	0	24	1.08
2735478--2735588	29	3.8	29	80	10	118	72	2	0	24	1.04
2765538--2765656	53	2.2	53	93	0	202	26	20	19	33	1.96
2773520--2773581	21	3.0	21	90	4	92	25	19	24	30	1.98
2776053--2776262	75	2.8	75	83	2	242	24	30	23	21	1.99
2784533--2784738	74	2.7	75	83	3	245	24	30	23	21	1.99
2787889--2787930	22	1.9	23	90	9	70	21	2	0	76	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2787900--2787932	17	1.9	17	88	11	50	24	3	0	72	0.98
2787979--2788023	22	2.1	22	83	4	56	60	8	2	28	1.39
2788098--2788186	39	2.3	39	81	11	103	47	1	15	35	1.53
2794792--2794856	22	3.0	22	75	13	62	70	0	23	6	1.09
2794792--2794857	28	2.3	29	89	2	98	71	0	22	6	1.08
2794792--2794876	29	3.0	29	81	8	86	69	0	22	8	1.15
2799627--2799768	60	2.4	60	90	0	221	35	12	14	37	1.85
2801905--2801933	2	14.5	2	100	0	58	51	0	48	0	1.00
2807515--2807563	2	24.5	2	95	0	89	48	2	0	48	1.12
2814410--2814485	20	3.6	20	76	11	64	17	28	27	26	1.97
2821233--2821277	22	2.1	22	87	4	65	24	28	26	20	1.99
2821837--2821922	23	3.7	23	71	21	72	30	26	24	18	1.98
2836579--2836662	42	2.0	42	100	0	168	19	21	21	38	1.94
2845407--2845492	31	2.8	30	81	10	93	40	0	4	54	1.21
2845436--2845494	10	5.6	10	78	15	57	40	0	1	57	1.09
2845924--2845953	15	2.0	15	93	0	51	16	0	3	80	0.85
2846217--2846302	31	2.7	31	81	10	95	54	4	0	40	1.21
2847735--2847779	10	4.8	10	78	15	51	26	2	6	64	1.30
2847746--2847779	17	1.9	18	88	5	52	23	0	5	70	1.09
2847989--2848061	31	2.4	30	77	9	76	57	5	1	35	1.30
2850353--2850404	21	2.3	22	83	9	61	57	0	1	40	1.10
2850961--2850995	18	1.9	18	88	0	52	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2854540--2854571	15	2.1	15	94	0	55	78	0	9	12	0.97
2854576--2854687	29	3.7	29	78	17	95	58	0	1	38	1.14
2854576--2854688	31	3.7	30	76	16	90	58	0	1	38	1.15
2854471--2854683	14	14.4	14	71	17	67	64	2	3	29	1.23
2854620--2854688	2	36.0	2	85	8	81	56	0	1	42	1.08
2854695--2854725	9	3.4	9	95	0	53	74	0	3	22	0.96
2868018--2868083	16	4.1	16	74	20	57	63	0	1	34	1.04
2868018--2868051	9	3.8	9	85	14	52	67	0	0	32	0.91
2868029--2868083	20	2.8	19	78	13	58	61	0	1	36	1.06
2868167--2868195	2	14.5	2	100	0	58	51	0	0	48	1.00
2872469--2872502	10	3.3	10	88	8	50	47	8	20	23	1.78
2875110--2875182	27	2.7	27	82	2	74	21	15	20	42	1.89
2878695--2878825	32	4.1	32	77	14	101	30	25	25	18	1.98
2880543--2880578	2	18.0	2	100	0	72	50	0	0	50	1.00
2891616--2891641	8	3.2	8	100	0	52	61	23	15	0	1.33
2898537--2898581	13	3.5	13	78	6	56	20	44	17	17	1.87
2903725--2903765	8	5.7	7	83	16	57	82	2	14	0	0.76
2903715--2903759	8	5.6	8	81	7	56	82	2	15	0	0.77
2903716--2903759	15	2.8	15	83	10	61	81	2	15	0	0.78
2906818--2906899	27	3.1	26	79	10	69	29	2	2	65	1.18
2906908--2906963	27	2.1	27	86	6	78	17	10	0	71	1.14
2906916--2906957	18	2.3	18	87	0	57	19	7	0	73	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2907050--2907093	16	2.8	17	83	16	51	9	11	2	77	1.08
2907048--2907104	22	2.6	23	75	13	57	8	12	1	77	1.07
2907025--2907161	9	14.7	9	68	22	52	13	10	2	72	1.21
2907105--2907161	19	3.0	19	82	14	73	14	10	5	70	1.32
2908325--2908359	2	17.5	2	100	0	70	48	0	0	51	1.00
2908782--2908848	3	22.3	3	96	0	125	67	1	0	31	1.00
2909063--2909107	23	2.0	22	82	4	54	53	0	2	44	1.13
2909933--2909987	28	2.0	29	85	7	78	41	7	3	47	1.49
2917369--2917477	29	3.8	29	71	19	86	48	0	0	49	1.13
2917451--2917502	23	2.4	22	75	12	54	48	0	0	51	1.00
2917378--2917502	29	4.4	28	72	8	83	50	0	0	48	1.12
2920275--2920521	22	11.0	22	78	12	245	48	0	5	45	1.29
2920275--2920523	70	3.7	70	89	3	359	48	0	5	45	1.29
2920578--2920633	26	2.1	27	87	9	80	44	0	7	48	1.30
2920595--2920641	19	2.3	20	85	7	60	46	2	2	48	1.25
2920653--2920707	21	2.6	21	88	0	83	14	3	0	81	0.82
2920645--2920693	6	7.8	6	82	17	64	14	2	0	83	0.73
2920645--2920707	15	4.1	15	87	4	81	14	3	0	82	0.79
2923511--2923558	20	2.5	20	83	10	55	31	12	6	50	1.65
2924845--2924900	21	2.7	21	85	0	76	26	19	17	35	1.94
2928798--2928824	14	1.9	14	100	0	54	55	0	37	7	1.28
2929002--2929036	17	1.9	19	88	11	56	31	8	34	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2941608--2941680	32	2.3	32	97	0	137	34	6	10	47	1.65
2944477--2944503	13	2.1	13	100	0	54	29	25	14	29	1.95
2953426--2953484	30	2.0	30	90	6	93	64	6	11	16	1.47
2954767--2954821	20	2.7	20	88	2	83	23	0	27	49	1.51
2955004--2955068	3	21.7	3	79	6	69	56	1	3	38	1.24
2957414--2957456	13	3.2	13	86	6	59	53	20	6	18	1.67
2957522--2957580	18	3.3	18	85	0	73	57	18	5	18	1.58
2959370--2959419	21	2.5	20	87	9	66	30	12	26	32	1.92
2960175--2960247	24	3.0	24	81	0	92	24	24	20	30	1.99
2960491--2960527	13	2.8	14	84	12	51	32	8	8	51	1.61
2978589--2978663	24	3.2	23	81	7	62	25	20	22	32	1.98
2985930--2985978	25	1.9	25	83	4	62	46	0	2	51	1.12
2992009--2992042	18	1.9	18	88	5	52	44	23	5	26	1.76
2998041--2998097	20	2.8	19	84	10	62	40	14	12	33	1.83
2998060--2998113	20	2.8	20	85	2	56	38	12	16	31	1.87
2999055--2999192	74	1.9	73	80	3	161	44	7	4	43	1.51
2999046--2999205	36	4.3	38	75	8	143	45	6	5	43	1.51
3001312--3001355	21	2.0	22	82	4	54	34	11	20	34	1.88
3006671--3006706	17	2.1	18	89	5	56	61	30	0	8	1.26
3010864--3010913	21	2.4	20	83	6	64	26	18	26	30	1.98
3017845--3017875	2	15.5	2	100	0	62	48	0	0	51	1.00
3018338--3018407	30	2.3	30	80	0	86	27	34	22	15	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3019302--3019368	34	1.9	34	82	14	84	46	17	13	22	1.83
3025264--3025288	2	12.5	2	100	0	50	48	0	0	52	1.00
3026779--3026883	23	4.5	23	86	2	147	10	12	19	58	1.62
3026779--3026886	47	2.3	46	87	1	153	10	12	19	58	1.62
3027346--3027429	39	2.2	39	97	0	159	32	7	20	40	1.79
3031649--3031677	2	14.5	2	100	0	58	0	48	0	51	1.00
3041723--3041793	23	3.1	22	80	9	72	45	2	1	50	1.25
3042812--3042843	11	2.8	11	95	4	55	81	0	0	18	0.70
3042973--3043090	39	3.1	37	74	22	95	68	2	5	23	1.22
3043067--3043157	39	2.3	39	84	3	112	67	1	4	27	1.17

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