genome.fa.s8280.2.7.7.80.10.50.1000.14.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  14  of  17  ( 1944 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)
2899076--2899122	24	2.0	24	87	8	69	51	4	10	34	1.56
2904964--2905030	33	2.0	33	97	0	125	26	17	25	29	1.98
2912246--2912312	33	2.0	33	94	0	116	25	14	26	32	1.95
2912391--2912486	44	2.2	40	80	12	102	37	7	22	32	1.82
2912636--2912671	18	2.0	18	94	0	63	16	8	25	50	1.73
2922695--2922727	16	2.1	16	100	0	66	12	45	6	36	1.66
2922815--2922849	17	2.0	18	88	5	54	25	28	2	42	1.69
2925534--2925577	23	1.9	23	86	9	63	40	6	4	47	1.50
2925828--2926065	7	33.7	7	65	24	83	26	0	27	44	1.60
2925963--2926101	57	2.4	57	90	3	208	28	1	23	46	1.61
2926070--2926114	15	2.9	15	90	3	63	26	0	24	48	1.51
2928024--2928111	11	7.8	10	70	20	50	29	23	21	25	1.99
2928035--2928099	12	5.6	12	78	7	71	30	26	21	21	1.98
2928024--2928110	23	3.8	23	92	3	131	29	24	21	24	1.99
2932350--2932384	17	2.0	18	88	5	54	25	28	2	42	1.69
2941306--2941557	131	1.9	131	95	0	459	25	7	13	53	1.66
2942279--2942324	23	2.0	23	84	12	60	69	8	15	6	1.34
2946677--2946737	32	1.9	32	86	6	88	40	3	13	42	1.60
2947311--2947370	20	3.0	20	80	11	68	50	3	1	45	1.28
2947381--2947470	28	3.3	28	72	7	78	50	1	1	47	1.15
2947410--2947478	30	2.3	31	82	9	81	49	0	1	49	1.09
2948100--2948138	21	1.9	20	89	5	60	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2948097--2948165	26	2.7	25	80	8	77	52	0	1	46	1.09
2948097--2948166	27	2.8	25	77	14	72	52	0	1	45	1.09
2948158--2948225	14	5.1	14	72	24	58	39	1	1	57	1.17
2948155--2948200	23	2.0	23	100	0	92	39	0	0	60	0.97
2948204--2948293	28	3.3	28	72	7	78	50	1	1	47	1.15
2948233--2948301	30	2.3	31	82	9	81	49	0	1	49	1.09
2948247--2948338	40	2.2	42	81	14	104	46	1	1	51	1.15
2948651--2948681	16	1.9	16	100	0	62	67	19	0	12	1.22
2949024--2949109	30	2.8	31	80	16	83	51	1	0	47	1.08
2949041--2949109	30	2.3	32	83	14	85	50	0	0	49	1.00
2946850--2949264	789	3.0	792	86	8	3340	45	7	8	38	1.63
2949210--2949697	197	2.5	196	84	5	599	40	13	15	30	1.86
2949702--2949922	64	3.5	64	94	0	379	32	14	9	43	1.77
2949893--2949954	23	2.7	23	87	0	88	37	14	6	41	1.72
2949829--2950067	87	2.8	86	87	1	334	35	11	8	43	1.72
2953608--2953647	19	2.1	19	95	0	71	22	27	10	40	1.86
2955954--2956022	34	2.0	34	100	0	138	28	11	5	53	1.60
2966145--2966177	4	8.2	4	93	0	57	51	3	0	45	1.16
2970935--2970966	3	10.7	3	100	0	64	65	0	0	34	0.93
2973131--2973160	11	2.7	11	94	0	51	20	20	13	46	1.83
2976296--2976352	19	3.1	19	82	9	73	80	3	15	0	0.84
2976301--2976353	12	4.4	12	76	23	58	83	1	15	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2976306--2976370	24	2.6	25	83	11	71	76	1	18	3	0.99
2978757--2978930	64	2.7	66	84	3	244	28	20	14	36	1.92
2979467--2979721	135	1.9	135	83	4	336	34	25	14	25	1.94
2979762--2980000	102	2.3	104	83	2	293	35	23	15	26	1.94
2979873--2980111	126	1.9	126	83	6	315	37	23	13	25	1.92
2981554--2981683	51	2.5	51	86	2	181	20	11	11	56	1.66
2982836--2982866	16	1.9	16	93	0	53	58	16	12	12	1.64
2982945--2982984	14	2.9	14	85	3	55	57	27	12	2	1.48
2983248--2983291	10	4.2	10	77	11	52	54	20	9	15	1.68
2986503--2986541	19	2.1	19	95	0	69	38	0	0	61	0.96
2986756--2986806	5	10.2	5	100	0	102	60	0	0	39	0.97
2992105--2992402	20	14.6	20	74	7	152	39	18	22	19	1.92
2992209--2992389	40	4.4	40	84	6	236	35	16	24	22	1.94
2992209--2992392	83	2.2	83	96	0	332	36	16	25	22	1.94
2992389--2992430	20	2.0	20	86	4	57	54	14	16	14	1.71
2992510--2992563	6	9.0	6	95	0	99	31	51	16	0	1.45
2996046--2996072	14	1.9	14	100	0	54	51	0	0	48	1.00
2996064--2996126	24	2.6	24	89	2	90	55	1	1	41	1.19
2997669--2997779	56	2.0	56	98	0	213	27	15	17	40	1.89
3005667--3005766	50	2.0	51	98	2	193	31	12	19	38	1.88
3008315--3008366	20	2.6	21	76	11	56	46	0	1	51	1.12
3011622--3011675	18	3.1	18	94	2	92	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)
3011632--3011680	18	2.5	20	90	6	75	44	0	0	55	0.99
3016568--3016618	23	2.2	23	89	0	75	50	1	1	45	1.24
3017120--3017163	15	3.0	15	90	3	63	29	15	6	47	1.72
3017437--3017493	26	2.2	26	100	0	114	43	8	12	35	1.73
3019865--3020155	108	2.6	108	86	4	330	35	32	14	17	1.90
3021044--3021074	13	2.4	13	94	0	53	19	19	45	16	1.86
3027149--3027432	117	2.4	117	89	1	444	33	33	14	18	1.91
3034453--3034590	54	2.6	54	85	2	188	23	26	21	28	1.99
3036152--3036260	29	3.7	28	74	19	89	35	22	2	38	1.69
3036154--3036324	60	2.8	59	84	4	191	33	24	5	36	1.78
3036184--3036324	60	2.3	60	86	3	194	32	26	5	34	1.80
3036472--3036623	60	2.5	60	78	7	148	43	7	19	29	1.78
3038763--3038809	21	2.3	21	92	7	80	68	4	6	21	1.30
3040607--3041208	105	5.7	105	95	0	1033	22	18	25	33	1.97
3041968--3042062	47	2.0	49	85	4	131	13	27	14	44	1.83
3053206--3053252	21	2.3	21	92	7	80	68	4	6	21	1.30
3055890--3055937	2	24.0	2	82	0	60	0	58	0	41	0.98
3062452--3062513	31	2.0	31	87	6	90	29	8	20	41	1.81
3068948--3069066	61	2.0	60	85	5	159	47	7	10	34	1.65
3069383--3069412	2	15.0	2	100	0	60	50	0	0	50	1.00
3077139--3077252	60	1.9	59	84	8	151	31	25	5	37	1.78
3077370--3077530	60	2.7	60	85	1	207	38	6	24	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3079525--3079569	22	2.0	22	86	0	63	44	6	24	24	1.77
3082486--3082532	19	2.6	18	75	18	53	53	6	2	38	1.39
3083243--3083325	42	2.0	42	85	0	112	25	13	21	39	1.90
3085135--3085186	3	17.3	3	91	0	86	30	1	1	65	1.14
3088788--3088849	32	2.0	32	96	3	117	14	14	9	61	1.57
3091735--3091781	18	2.6	17	75	21	51	68	14	12	4	1.36
3091765--3091802	11	3.4	11	89	7	58	71	10	13	5	1.30
3092985--3093022	4	10.0	4	86	11	53	50	28	0	21	1.49
3092981--3093022	22	1.9	22	95	0	75	50	28	0	21	1.49
3093481--3093719	105	2.3	102	83	7	288	30	19	12	37	1.89
3093665--3093783	36	3.4	33	78	11	105	30	20	13	36	1.91
3093683--3093784	36	2.9	36	82	4	129	33	19	11	35	1.88
3094026--3094162	29	4.9	28	76	12	131	29	9	15	45	1.77
3094018--3094162	56	2.6	56	85	4	177	29	9	15	44	1.79
3094173--3094276	52	2.0	53	90	3	165	31	13	17	37	1.88
3094264--3094327	30	2.1	31	88	5	96	37	10	14	37	1.81
3094256--3094332	30	2.6	30	80	15	90	33	9	15	41	1.79
3094685--3094835	66	2.3	66	91	1	241	30	19	11	38	1.88
3095580--3095813	46	5.4	44	71	13	157	24	29	18	26	1.98
3095619--3095819	40	4.8	40	71	12	134	24	30	18	26	1.98
3095564--3095731	40	3.9	43	72	14	132	25	30	19	25	1.98
3095564--3095819	129	2.0	129	94	0	449	25	29	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096017--3096071	3	18.3	3	92	0	92	30	1	1	65	1.13
3100210--3100239	8	3.6	8	91	8	51	86	0	0	13	0.57
3100727--3100764	20	1.9	20	88	0	58	23	28	0	47	1.52
3100782--3100846	25	2.6	26	76	18	66	27	1	1	69	1.07
3100794--3100847	25	2.3	23	83	6	72	27	1	1	68	1.10
3102421--3102451	12	2.6	12	100	0	62	51	0	6	41	1.27
3103508--3103552	15	3.0	15	86	0	72	33	33	20	13	1.91
3103641--3103717	29	2.7	29	97	2	147	18	22	15	44	1.87
3103729--3103776	12	4.0	12	86	7	71	37	25	6	31	1.81
3104124--3104244	64	1.9	64	87	0	179	25	20	19	33	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17