genome.fa.s9582.2.7.7.80.10.50.1000.15.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  15  of  24  ( 2799 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)
2963606--2963695	14	5.7	14	72	23	72	7	26	23	42	1.81
2963589--2963703	33	3.5	33	92	0	203	8	25	20	45	1.80
2965250--2965715	232	2.0	234	98	0	909	26	15	17	40	1.89
2965600--2966067	92	5.1	93	95	3	858	22	12	18	46	1.83
2966111--2966239	19	7.3	19	75	17	125	45	28	17	8	1.77
2966147--2966239	33	2.8	32	91	4	150	46	27	18	7	1.76
2966111--2966239	52	2.5	52	74	14	140	45	28	17	8	1.77
2966235--2966369	19	7.6	19	75	16	128	11	19	23	45	1.82
2966257--2966313	14	3.7	14	77	20	60	10	21	22	45	1.82
2966240--2966332	33	2.8	33	95	0	168	10	20	21	47	1.80
2968183--2968214	14	2.3	14	94	0	55	34	0	21	43	1.53
2968320--2968420	19	5.6	19	84	15	151	44	17	22	14	1.86
2968427--2968580	33	4.5	34	84	10	197	14	20	18	46	1.84
2968449--2968580	19	7.4	19	75	20	133	13	20	18	46	1.83
2970198--2970335	68	2.0	67	98	1	267	26	21	17	35	1.95
2970846--2970870	12	2.1	12	100	0	50	0	28	0	72	0.86
2971769--2972137	20	18.5	20	86	5	451	20	18	26	34	1.96
2972695--2972741	17	2.8	17	83	0	58	68	2	0	29	1.02
2975709--2975767	29	2.0	29	93	0	100	35	3	10	50	1.53
2977342--2977397	28	1.9	29	82	7	69	21	16	0	62	1.32
2977383--2977435	20	2.8	19	75	8	54	33	13	3	49	1.60
2977378--2977464	19	4.6	19	75	4	68	32	16	3	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2977378--2977464	39	2.3	37	78	5	93	32	16	3	48	1.63
2979016--2979070	23	2.3	24	84	3	67	30	1	7	60	1.35
2986624--2986659	3	12.3	3	88	5	56	66	0	30	2	1.06
2995437--2995466	15	2.1	15	93	6	53	20	3	6	70	1.25
2995623--2995653	2	15.5	2	100	0	62	0	0	48	51	1.00
2998060--2998172	46	2.4	47	82	5	131	41	7	18	31	1.79
2998060--2998180	48	2.6	46	79	8	136	41	7	19	31	1.79
2998958--2998997	16	2.6	15	85	14	55	25	2	0	72	0.97
2999052--2999100	3	16.3	3	100	0	98	32	0	0	67	0.91
2999180--2999250	6	11.8	6	98	0	133	18	16	14	50	1.78
3002541--3002602	23	2.7	23	82	2	79	30	0	9	59	1.29
3004026--3004064	20	2.0	20	89	0	60	46	20	0	33	1.51
3006133--3006396	30	8.4	30	73	11	190	36	9	1	52	1.44
3006148--3006396	132	1.9	130	85	4	338	36	9	2	52	1.45
3006243--3006325	42	2.0	43	90	2	132	40	8	0	50	1.33
3006212--3006349	72	1.9	73	83	1	179	40	9	0	49	1.40
3006185--3006372	102	1.8	103	84	1	261	37	9	0	52	1.38
3006484--3006532	25	2.0	25	88	4	73	48	0	2	48	1.12
3006505--3006574	27	2.5	27	79	9	70	55	1	4	38	1.28
3006719--3006748	10	2.8	11	90	10	53	63	0	0	36	0.95
3007836--3007905	34	2.1	32	86	5	95	31	14	31	22	1.94
3010766--3010824	19	3.0	20	82	5	84	20	33	28	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3010803--3010857	18	3.2	17	69	25	53	18	36	27	18	1.94
3010770--3010857	19	4.9	18	71	21	69	20	32	28	18	1.96
3010817--3010872	15	3.5	15	71	21	51	19	35	25	19	1.95
3010766--3010873	33	3.1	34	89	8	146	20	34	27	17	1.95
3011057--3011096	20	1.9	21	85	10	55	37	37	10	15	1.80
3012081--3012113	13	2.5	13	95	5	57	60	0	0	39	0.97
3012759--3012805	18	2.5	19	82	6	51	21	6	2	70	1.20
3016568--3016814	95	2.7	91	88	7	346	30	18	19	30	1.96
3017965--3018875	84	11.0	84	81	6	959	34	22	18	24	1.96
3017973--3018959	330	3.0	331	79	8	1042	34	22	18	24	1.96
3019528--3019840	36	8.5	37	84	9	356	45	2	7	44	1.46
3019486--3019840	73	4.8	73	83	10	393	45	2	7	44	1.46
3019851--3019885	4	8.8	4	93	0	61	22	2	0	74	0.95
3021183--3021246	18	3.6	18	81	12	78	20	7	1	70	1.21
3021191--3021281	4	21.8	4	70	22	55	21	5	2	70	1.19
3021210--3021266	17	3.4	17	86	11	57	22	5	1	70	1.17
3021200--3021270	10	7.1	10	70	20	51	22	4	2	70	1.18
3021392--3021420	12	2.3	13	94	5	51	27	0	3	68	1.05
3022404--3022450	16	2.7	17	80	12	60	65	6	0	27	1.16
3022439--3022505	21	3.3	21	78	16	79	58	2	0	38	1.14
3022441--3022503	20	3.2	21	75	20	64	58	3	0	38	1.14
3023190--3023246	26	2.2	26	100	0	114	56	10	3	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023497--3023573	6	12.5	6	95	4	136	0	16	15	67	1.23
3028021--3028053	14	2.3	15	89	5	50	33	18	0	48	1.48
3035285--3035337	20	2.7	20	74	11	63	28	33	15	22	1.94
3035326--3035372	20	2.3	20	96	0	85	36	23	19	21	1.95
3035366--3035492	20	6.3	21	83	10	160	42	25	14	17	1.87
3035325--3035492	60	2.8	60	87	7	227	41	23	16	19	1.90
3035366--3035492	40	3.2	41	86	8	181	42	25	14	17	1.87
3035480--3035550	19	3.7	19	81	7	81	35	22	11	30	1.89
3035524--3035570	18	2.5	19	82	6	60	29	23	14	31	1.95
3035713--3035743	16	1.9	16	93	0	53	25	3	3	67	1.20
3036495--3036549	24	2.3	24	87	0	74	27	18	18	36	1.94
3038781--3038816	18	2.0	18	94	0	63	55	25	2	16	1.55
3039153--3039191	14	2.9	14	82	17	55	41	30	20	7	1.80
3039269--3039444	66	2.6	65	87	8	248	53	17	1	27	1.53
3040792--3040890	42	2.4	42	81	6	128	21	19	35	24	1.96
3040792--3040890	21	4.7	21	77	8	103	21	19	35	24	1.96
3043076--3043114	14	2.8	14	96	0	69	10	7	30	51	1.64
3043096--3043134	20	2.0	20	89	0	60	15	10	20	53	1.70
3043481--3043529	22	2.2	22	88	0	71	20	18	38	22	1.93
3043643--3043736	20	4.7	20	90	0	134	17	13	25	43	1.85
3043643--3043771	40	3.2	40	81	7	104	19	14	22	43	1.87
3043643--3043789	60	2.5	60	79	8	149	20	15	23	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3043748--3043786	20	2.0	20	89	0	60	28	20	15	35	1.93
3056286--3056461	65	2.7	64	79	11	189	29	15	23	30	1.96
3056352--3056391	19	2.1	19	85	0	53	27	15	27	30	1.96
3056306--3056461	65	2.4	65	88	3	226	30	16	22	31	1.95
3063875--3063910	3	12.3	3	88	5	56	72	0	0	27	0.85
3067186--3067262	37	2.1	38	87	4	113	46	1	5	46	1.33
3073486--3073538	26	2.0	28	88	7	83	16	1	18	62	1.42
3074123--3074215	21	4.5	21	74	5	64	34	25	17	22	1.96
3074128--3074207	41	2.0	41	82	5	99	36	25	16	22	1.94
3083715--3084115	43	9.3	43	86	2	518	21	17	20	39	1.92
3083688--3084112	87	4.9	87	86	2	529	22	19	20	38	1.94
3083715--3084111	130	3.1	130	91	2	613	22	18	20	39	1.93
3086548--3086749	101	2.0	102	97	2	381	35	20	17	27	1.95
3088653--3088710	3	19.7	3	89	3	91	31	34	3	31	1.74
3088921--3088966	12	3.8	13	75	16	53	30	0	0	69	0.89
3089150--3089185	16	2.2	17	90	5	56	50	2	0	47	1.15
3093683--3093709	3	9.0	3	100	0	54	0	33	0	66	0.92
3094685--3094723	15	2.5	15	87	4	51	35	2	12	48	1.55
3095073--3095141	17	3.9	18	90	5	115	14	23	31	30	1.94
3095329--3095476	73	2.0	74	93	6	257	35	1	22	40	1.63
3097092--3097124	14	2.3	15	89	5	50	72	0	0	27	0.85
3097116--3097152	2	19.5	2	83	10	51	54	0	2	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3098690--3098729	20	2.0	20	95	0	71	40	17	15	27	1.89
3099362--3099401	21	1.9	22	90	10	66	12	10	40	37	1.77
3099502--3099596	21	4.7	20	87	5	127	33	24	25	16	1.96
3099631--3099673	22	1.9	23	90	4	70	20	20	32	25	1.97
3099617--3099715	21	4.8	20	82	13	119	22	20	35	22	1.96
3099794--3099853	29	2.0	29	90	6	93	43	15	6	35	1.72
3101345--3101401	28	2.0	30	93	6	100	45	17	5	31	1.71
3105222--3105246	13	1.9	13	100	0	50	36	0	24	40	1.55
3106477--3106536	28	2.1	28	87	6	86	50	0	1	48	1.11
3106942--3107006	33	2.0	33	90	6	105	44	18	15	21	1.86

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