genome.fa.s7721.2.7.7.80.10.50.1000.13.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: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3738426

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  13  of  16  ( 1904 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)
2786191--2786227	8	4.6	8	90	9	58	21	0	0	78	0.75
2786192--2786234	9	4.9	9	88	11	63	23	0	0	76	0.78
2786192--2786227	17	2.2	16	95	5	63	19	0	0	80	0.71
2786192--2786249	18	3.3	16	83	11	62	22	1	0	75	0.89
2790956--2791024	14	4.7	15	81	15	81	78	7	14	0	0.96
2790969--2791038	19	3.6	19	78	7	61	80	7	11	1	0.97
2790972--2791034	16	4.1	14	82	17	65	79	7	11	1	1.00
2791641--2791695	22	2.5	22	93	0	101	36	25	12	25	1.91
2792653--2795610	106	27.9	106	91	0	4450	34	24	18	22	1.96
2796359--2796462	37	2.8	37	86	0	136	41	13	13	31	1.83
2796884--2796930	18	2.7	18	84	15	55	29	0	0	70	0.88
2796884--2796921	10	4.1	9	86	13	51	34	0	0	65	0.93
2796963--2797001	2	19.5	2	100	0	78	48	0	0	51	1.00
2797026--2797051	13	2.0	13	100	0	52	23	7	0	69	1.14
2797198--2797261	29	2.2	29	86	5	85	20	3	1	75	1.03
2799075--2799161	17	5.1	17	77	0	93	36	8	14	40	1.76
2799072--2799161	34	2.6	34	98	0	171	36	7	15	40	1.76
2801661--2801694	6	5.5	6	89	3	50	0	47	2	50	1.16
2803336--2803377	19	2.2	19	100	0	84	42	19	21	16	1.89
2812863--2812906	6	7.3	6	100	0	88	34	0	0	65	0.93
2817773--2817813	2	20.5	2	100	0	82	51	0	0	48	1.00
2818396--2818436	19	2.2	19	86	0	55	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2826447--2826483	2	18.5	2	100	0	74	51	0	0	48	1.00
2833048--2833084	20	2.0	20	89	10	60	54	2	21	21	1.58
2843115--2843166	19	2.7	20	84	6	70	36	5	21	36	1.77
2843158--2843214	30	1.9	30	85	0	78	43	12	14	29	1.81
2843238--2843282	20	2.2	20	92	0	72	31	17	17	33	1.94
2848067--2848351	138	2.1	137	85	3	376	40	17	13	28	1.87
2848510--2848549	20	2.0	21	90	5	64	55	10	2	32	1.47
2848987--2849036	21	2.5	20	87	9	66	32	24	14	30	1.94
2854884--2854916	3	11.0	3	100	0	66	33	0	0	66	0.92
2859838--2859902	32	2.0	32	93	0	112	30	29	7	32	1.85
2860826--2861019	84	2.3	85	79	7	216	34	15	16	33	1.91
2862864--2862896	16	2.1	16	94	5	59	36	3	0	60	1.12
2868537--2868603	32	2.1	32	97	0	125	34	14	20	29	1.93
2873178--2873219	20	2.2	19	83	12	50	23	4	0	71	1.05
2883398--2883465	4	17.0	4	96	0	127	25	0	23	51	1.48
2884331--2884359	6	4.8	6	100	0	58	51	0	0	48	1.00
2884973--2885032	31	1.9	31	100	0	120	28	23	15	33	1.94
2885054--2885099	19	2.4	19	100	0	92	15	19	15	50	1.79
2897751--2897788	20	1.9	20	88	0	58	47	23	0	28	1.52
2898591--2898623	14	2.3	15	89	5	50	27	39	0	33	1.57
2900638--2900728	30	3.1	30	80	1	121	61	6	14	17	1.53
2902311--2902365	3	18.0	3	78	10	58	65	5	0	29	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2903025--2903073	17	3.1	16	74	11	55	38	12	16	32	1.86
2902950--2903082	61	2.2	59	81	6	169	41	15	15	27	1.87
2906853--2906914	31	2.0	31	84	6	81	66	11	11	11	1.46
2908640--2908724	30	2.8	30	82	7	118	61	3	14	21	1.48
2910260--2910290	3	10.3	3	92	0	53	67	0	0	32	0.91
2911413--2911477	27	2.5	26	73	11	62	36	0	3	60	1.13
2912310--2912354	20	2.2	21	84	4	56	71	4	2	22	1.15
2912309--2912354	21	2.3	19	85	7	56	69	4	2	23	1.17
2921959--2922000	18	2.3	18	84	8	50	40	19	16	23	1.91
2922930--2923058	55	2.4	53	76	5	134	31	13	14	40	1.85
2923032--2923271	90	2.7	90	94	0	399	26	17	20	35	1.95
2923261--2923346	42	2.1	41	86	6	120	27	19	20	31	1.97
2923370--2923707	136	2.5	134	88	2	477	35	16	22	26	1.95
2923654--2923930	105	2.6	108	85	6	368	40	14	19	24	1.90
2930202--2930251	25	2.0	25	88	0	73	54	6	8	32	1.54
2930245--2930274	2	15.0	2	100	0	60	50	0	0	50	1.00
2938962--2938994	10	3.3	10	91	0	57	21	9	9	60	1.54
2939273--2939354	23	3.5	23	83	3	119	10	8	18	62	1.53
2944622--2944739	57	2.1	57	90	0	182	29	14	27	28	1.95
2946723--2946784	23	2.7	23	92	0	97	24	14	35	25	1.93
2959377--2959430	28	2.0	28	82	10	67	24	7	7	61	1.49
2959859--2959950	44	2.1	44	97	0	175	22	29	16	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2961227--2961256	14	2.1	14	93	0	51	26	3	13	56	1.52
2964964--2965021	21	2.8	20	76	7	62	18	8	1	70	1.21
2965002--2965035	15	2.3	15	90	10	52	26	0	0	73	0.83
2968055--2968107	22	2.5	22	90	3	81	26	15	30	28	1.96
2968567--2968606	21	1.9	21	90	10	64	20	7	5	67	1.34
2975625--2975666	21	2.0	22	85	4	59	80	4	11	2	0.95
2975706--2975752	16	3.0	15	87	9	67	80	2	17	0	0.80
2979897--2979946	21	2.5	20	76	3	55	20	10	0	70	1.16
2979928--2979960	15	2.2	15	89	10	50	27	0	0	72	0.85
2980069--2980115	20	2.4	19	80	13	51	27	2	4	65	1.22
2981901--2981943	2	21.5	2	100	0	86	51	0	0	48	1.00
2991451--2991506	23	2.5	23	94	2	96	21	35	23	19	1.96
2992396--2992429	13	2.6	13	95	0	59	32	5	14	47	1.69
2993773--2993798	12	2.2	12	100	0	52	57	0	19	23	1.40
3004389--3004460	8	8.6	8	85	13	92	83	0	5	11	0.80
3004389--3004486	17	5.7	17	77	17	78	80	0	9	10	0.90
3004396--3004468	8	8.2	10	83	14	58	82	0	5	12	0.83
3004397--3004486	16	5.3	17	79	14	55	81	0	8	10	0.89
3004441--3004497	29	1.9	30	86	10	82	73	3	14	8	1.20
3005690--3005805	37	3.2	36	84	4	128	37	16	25	21	1.94
3005738--3005807	35	2.0	36	94	2	124	35	15	22	25	1.94
3005824--3006120	55	5.4	55	86	3	409	30	16	22	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3007350--3007382	2	16.5	2	100	0	66	51	0	0	48	1.00
3008550--3008591	19	2.2	20	86	4	59	26	9	2	61	1.39
3009132--3009226	48	2.0	48	87	0	136	46	13	5	34	1.66
3010172--3010224	18	3.0	17	76	17	54	39	0	11	49	1.39
3010262--3010313	12	4.5	12	83	4	63	51	3	3	40	1.38
3016177--3016724	54	10.2	54	83	2	507	32	18	17	31	1.94
3016191--3016724	108	5.0	108	83	3	603	32	18	17	32	1.94
3016238--3016724	162	3.0	160	85	2	618	32	18	17	32	1.94
3017055--3017111	20	2.8	20	75	5	60	22	24	15	36	1.94
3017162--3017214	19	2.8	18	79	20	63	24	26	15	33	1.95
3024929--3024957	15	1.9	15	100	0	58	31	13	27	27	1.94
3026335--3026376	14	3.0	14	80	13	50	66	9	7	16	1.42
3026913--3026951	11	3.8	10	84	15	53	30	0	0	69	0.89
3027097--3027155	29	2.0	30	90	3	93	32	5	10	52	1.57
3027442--3027468	12	2.2	12	100	0	54	55	0	7	37	1.28
3027593--3027662	27	2.6	26	76	10	70	75	2	4	17	1.08
3027608--3027651	13	3.4	13	87	6	63	75	4	4	15	1.14
3027632--3027667	19	1.9	18	88	5	54	77	2	5	13	1.05
3028032--3028069	17	2.2	17	95	0	67	7	57	21	13	1.60
3028956--3029292	36	9.4	35	76	11	240	43	6	2	47	1.43
3029017--3029296	71	3.8	70	76	15	180	42	6	3	47	1.46
3029212--3029276	13	5.1	13	71	15	55	44	4	1	49	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3029060--3029323	36	7.1	37	79	10	240	42	6	3	47	1.45
3033820--3033955	59	2.3	59	88	5	202	33	25	14	26	1.95
3043560--3043622	33	1.9	33	93	0	108	55	12	6	25	1.60
3053772--3053805	15	2.3	15	95	5	61	41	0	17	41	1.50
3059886--3059943	31	1.9	30	82	10	73	41	6	22	29	1.80
3067983--3068063	21	4.0	20	74	22	71	24	0	6	69	1.11
3068405--3068443	19	2.1	19	90	0	60	35	2	5	56	1.35
3069739--3069790	20	2.6	20	93	0	95	28	17	26	26	1.97
3069834--3069908	20	3.8	20	83	3	89	33	18	22	25	1.97
3073009--3073038	2	15.0	2	100	0	60	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16