genome.fa.s7819.2.7.7.80.10.50.1000.14.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: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3855360

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

This is table  14  of  17  ( 2007 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)
2931896--2931934	3	13.0	3	100	0	78	66	0	0	33	0.92
2932308--2932399	46	2.0	47	95	4	170	28	10	6	54	1.60
2934617--2934685	35	2.0	35	97	2	131	23	21	26	28	1.99
2939553--2940017	228	2.0	228	98	0	905	40	16	16	27	1.89
2943156--2943210	27	2.0	28	92	3	94	41	34	7	16	1.76
2943372--2943447	37	2.0	38	89	2	118	42	34	10	13	1.78
2943089--2943632	250	2.2	242	84	8	724	36	26	11	25	1.90
2947626--2947660	2	18.0	2	94	5	63	51	0	0	48	1.00
2947625--2947659	17	2.1	17	100	0	70	54	0	0	45	0.99
2947628--2947657	15	2.0	15	100	0	60	53	0	0	46	1.00
2950460--2950525	25	2.6	26	86	11	84	40	0	0	59	0.98
2950446--2950521	24	3.1	24	77	9	82	39	0	0	60	0.97
2950451--2950522	25	3.0	23	80	8	81	41	0	0	58	0.98
2955230--2955345	39	3.0	39	81	6	128	31	24	21	22	1.98
2955255--2955363	39	2.8	39	83	5	123	31	23	23	21	1.98
2955293--2955380	39	2.3	38	84	5	108	28	22	26	22	1.99
2958583--2959183	55	11.0	55	88	3	808	30	25	17	27	1.97
2960550--2960697	16	9.5	16	69	21	82	7	17	0	75	1.03
2960535--2960714	24	7.6	24	73	19	121	7	17	0	75	1.03
2960615--2960692	29	2.6	30	76	10	79	6	16	0	76	0.98
2960558--2960711	77	2.0	78	82	14	194	7	17	0	74	1.04
2966199--2966318	48	2.5	48	98	1	231	38	4	15	41	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2968562--2968876	162	1.9	162	85	0	432	26	21	21	29	1.99
2973722--2973756	2	17.5	2	93	0	61	45	0	2	51	1.16
2973922--2973949	4	7.0	4	100	0	56	25	0	25	50	1.50
2983307--2983336	2	15.0	2	100	0	60	50	0	0	50	1.00
2993415--2993451	6	6.5	6	87	12	60	51	13	0	35	1.41
2993412--2993458	10	4.5	10	84	10	67	48	12	0	38	1.41
2993412--2993457	16	2.9	16	90	0	74	50	13	0	36	1.41
2996496--2996557	32	1.9	32	93	0	106	50	17	9	22	1.75
3003542--3003566	2	12.5	2	100	0	50	0	52	0	48	1.00
3003879--3003926	17	2.8	16	79	17	51	31	0	4	64	1.12
3003881--3003919	18	2.1	19	90	4	62	28	0	2	69	1.02
3004218--3004259	2	20.5	2	95	4	75	47	0	2	50	1.14
3004387--3004420	2	17.0	2	100	0	68	50	0	0	50	1.00
3005416--3005475	29	2.1	29	90	3	95	36	11	10	41	1.75
3008262--3008291	14	2.1	14	93	0	51	10	10	0	80	0.92
3010822--3010876	28	2.0	29	85	7	78	25	1	10	61	1.39
3012461--3012500	14	2.9	14	84	0	53	7	15	20	57	1.61
3026721--3026849	65	2.0	65	96	1	242	30	26	17	25	1.98
3027442--3027516	29	2.6	30	87	6	109	32	14	12	41	1.83
3029600--3029635	4	9.0	4	93	0	63	47	0	2	50	1.15
3035031--3035217	90	2.1	89	95	3	338	25	26	14	33	1.95
3036287--3036322	17	2.1	17	89	0	54	19	22	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3039644--3039700	29	2.0	29	100	0	114	14	35	31	19	1.91
3039740--3039795	29	1.9	29	92	7	96	12	35	30	21	1.90
3039806--3039878	33	2.2	33	80	0	83	13	36	26	23	1.92
3041435--3041634	87	2.3	86	83	3	242	44	16	8	31	1.76
3045619--3045665	24	1.9	24	86	4	67	10	6	12	70	1.33
3051744--3051780	2	18.5	2	94	0	65	48	0	2	48	1.15
3055664--3055708	23	2.0	23	86	0	63	26	28	24	20	1.99
3055687--3055990	149	2.0	149	98	0	590	35	20	16	27	1.94
3056075--3056143	30	2.3	30	85	5	95	31	23	5	39	1.78
3056158--3056229	29	2.5	29	93	0	117	38	12	9	38	1.76
3056532--3056701	66	2.6	67	85	6	213	17	25	27	29	1.98
3059322--3060834	106	14.4	105	80	10	1537	23	17	25	33	1.96
3059322--3060834	334	4.8	316	79	11	1577	23	17	25	33	1.96
3060315--3060365	24	2.1	25	96	3	95	15	23	25	35	1.94
3059905--3060783	440	2.0	438	88	4	1301	23	17	25	34	1.96
3060339--3060838	213	2.4	207	84	5	657	23	17	24	34	1.95
3078784--3078821	14	2.7	15	92	8	62	42	0	0	57	0.98
3078793--3078866	23	3.2	23	74	0	76	41	1	1	55	1.17
3086563--3086598	2	18.0	2	94	0	63	47	0	0	52	1.00
3087150--3087217	33	2.1	33	88	5	102	41	13	19	26	1.88
3087244--3087427	36	5.3	36	73	13	161	38	13	19	28	1.89
3087358--3087427	21	3.6	21	69	21	71	42	15	20	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3087127--3087428	101	3.0	102	79	7	314	41	11	18	28	1.85
3087799--3088380	217	2.7	217	89	2	873	22	18	24	33	1.97
3087799--3088389	106	5.5	106	84	5	736	22	18	25	33	1.97
3089703--3089882	95	1.9	95	89	1	279	28	19	18	32	1.96
3094368--3094451	45	1.9	43	90	4	132	30	26	13	29	1.93
3095899--3095965	33	2.0	33	91	0	107	44	14	7	32	1.74
3095961--3096001	21	2.0	21	100	0	82	48	7	14	29	1.71
3098919--3099028	35	3.0	37	89	6	170	43	20	5	30	1.74
3098960--3099020	21	3.2	21	63	29	55	40	21	6	31	1.78
3102323--3102354	15	2.1	15	94	0	55	6	25	15	53	1.65
3103553--3103659	33	3.0	36	90	8	166	45	19	5	28	1.73
3103546--3103678	33	3.8	34	83	8	151	42	20	7	30	1.79
3106419--3106463	22	2.1	22	84	8	58	53	4	6	35	1.47
3107559--3107914	41	8.6	41	81	5	367	28	19	18	33	1.96
3107592--3107873	125	2.3	124	84	6	374	28	19	17	34	1.95
3107596--3107914	167	1.9	165	90	1	512	27	19	17	34	1.95
3111403--3111688	43	6.7	43	78	7	253	22	22	20	34	1.96
3111403--3111668	85	3.1	85	83	6	313	22	21	21	34	1.96
3112093--3112135	2	21.5	2	100	0	86	48	0	0	51	1.00
3114298--3114350	19	2.7	19	82	2	70	43	11	11	33	1.76
3116577--3116620	22	2.0	22	86	0	61	45	6	9	38	1.63
3118515--3118544	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3119667--3119731	27	2.4	27	90	7	98	60	4	1	33	1.27
3119914--3119943	2	15.0	2	100	0	60	50	0	0	50	1.00
3119960--3120529	190	3.0	190	96	1	1043	31	12	10	44	1.76
3120687--3120719	2	16.5	2	100	0	66	48	0	0	51	1.00
3125541--3125732	94	2.0	98	85	6	268	40	6	10	43	1.64
3128206--3128962	22	34.6	22	91	1	1171	40	0	11	47	1.42
3133597--3133673	37	2.1	37	85	4	102	48	1	3	46	1.28
3133811--3133892	20	4.2	19	87	9	112	21	20	8	48	1.76
3134711--3134759	25	2.0	25	100	0	98	32	12	18	36	1.88
3137008--3137247	118	2.0	118	86	1	329	27	17	17	37	1.92
3137221--3137279	22	2.7	22	86	2	75	32	10	27	30	1.89
3137292--3137403	20	5.7	20	72	16	72	25	15	25	34	1.94
3141629--3141845	61	3.6	59	82	5	233	42	12	11	32	1.80
3141840--3141985	61	2.4	61	82	2	186	46	5	7	40	1.55
3141738--3141954	109	2.0	107	81	3	256	46	9	8	35	1.67
3142938--3142981	21	2.1	21	87	8	63	40	0	0	59	0.98
3145296--3145361	30	2.2	30	91	0	105	48	9	12	30	1.71
3155292--3155324	16	2.1	16	94	0	57	60	3	30	6	1.36
3155884--3155941	21	2.8	21	84	5	82	12	32	36	18	1.88
3165386--3165436	22	2.4	22	83	3	68	43	0	1	54	1.11
3165386--3165445	21	3.0	21	77	20	65	48	0	1	50	1.11
3165396--3165448	20	2.8	18	78	15	63	50	0	1	47	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3170503--3170885	160	2.4	159	85	3	520	49	7	17	26	1.72
3187846--3188019	87	2.0	88	91	1	287	45	6	16	31	1.73
3189986--3190017	12	2.7	12	95	0	55	31	21	6	40	1.78
3190819--3190863	5	8.8	5	92	2	54	0	33	0	66	0.92
3191836--3191871	17	2.1	17	100	0	72	50	8	0	41	1.33
3193533--3193654	60	2.0	60	84	9	160	24	10	11	53	1.68
3193495--3193696	110	1.8	111	85	5	284	27	12	12	47	1.77
3196890--3196927	12	3.2	12	92	0	58	39	26	10	23	1.87
3198997--3199131	21	6.4	21	73	13	107	23	17	18	40	1.91
3199018--3199138	42	2.9	42	83	0	170	24	19	19	37	1.94

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