genome.fa.s9175.2.7.7.80.10.50.1000.15.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  15  of  51  ( 6037 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)
2948208--2948244	19	1.9	19	94	0	65	10	21	10	56	1.64
2951099--2951237	42	3.3	41	81	8	156	25	20	17	35	1.94
2951099--2951255	83	1.9	84	81	4	192	26	20	16	36	1.94
2952558--2952595	14	2.7	14	95	0	67	26	10	21	42	1.85
2954592--2954618	2	13.5	2	100	0	54	51	0	0	48	1.00
2955062--2955130	23	3.0	23	84	0	93	28	24	26	20	1.99
2961858--2961903	23	2.0	23	91	0	74	28	26	26	19	1.99
2965754--2965839	23	3.7	23	88	0	127	23	17	26	32	1.96
2965753--2965842	46	2.0	46	93	0	153	24	18	25	31	1.98
2973750--2973814	32	2.0	32	100	0	130	41	12	9	36	1.75
2977137--2977183	18	2.7	17	83	6	58	29	23	6	40	1.79
2981243--2981287	3	15.0	3	95	0	81	35	0	0	64	0.94
2982343--2982436	36	2.6	34	79	14	91	52	1	2	44	1.20
2985463--2985941	119	3.9	124	90	7	752	22	24	19	32	1.97
2986611--2986711	32	3.2	30	83	12	130	36	3	4	54	1.41
2987215--2987306	21	4.5	21	84	9	118	19	29	32	18	1.96
2989064--2989136	32	2.3	32	82	15	91	64	4	0	31	1.12
2990111--2990140	2	15.0	2	92	0	51	46	0	0	53	1.00
2990127--2990316	94	2.0	92	87	4	274	28	17	16	36	1.93
2990611--2990656	6	7.8	6	90	4	76	47	2	0	50	1.13
2996202--2996320	44	2.7	44	89	0	184	33	26	13	26	1.93
2996559--2996590	3	10.7	3	93	0	55	62	0	3	34	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2997550--2997583	2	17.0	2	100	0	68	50	0	0	50	1.00
2997947--2997989	22	2.0	21	82	13	52	48	2	0	48	1.14
2997952--2997989	6	6.8	6	82	17	55	50	0	0	50	1.00
2997947--2997989	10	4.0	10	82	14	50	48	2	0	48	1.14
2999980--3000044	5	13.4	5	95	3	98	3	41	38	16	1.64
3000042--3000167	6	21.2	6	91	6	204	0	16	49	34	1.46
3005152--3005182	14	2.2	14	94	0	53	64	0	0	35	0.94
3005218--3005265	25	1.9	25	91	0	78	41	2	0	56	1.11
3011539--3012099	22	25.5	22	87	2	786	40	0	10	48	1.40
3012123--3012181	31	1.9	31	85	0	82	45	6	3	44	1.47
3015095--3015127	17	1.9	17	100	0	66	24	18	3	54	1.57
3016413--3016503	39	2.4	36	89	5	128	27	8	23	40	1.84
3016489--3016719	36	6.6	36	77	13	212	38	12	20	27	1.89
3016523--3016709	102	1.8	102	84	6	254	39	12	20	28	1.88
3016786--3016974	37	5.4	36	70	15	137	41	12	17	28	1.86
3016759--3016998	102	2.4	102	92	0	399	38	11	17	32	1.86
3016927--3017034	51	2.1	51	81	3	119	36	12	17	34	1.87
3016950--3017049	51	2.0	50	92	2	164	34	9	19	38	1.83
3016861--3017154	153	1.9	153	82	4	369	38	11	18	32	1.86
3017302--3017621	106	3.0	106	88	0	442	21	19	23	34	1.96
3018217--3018311	32	2.9	32	82	4	120	38	21	10	29	1.86
3018212--3018318	32	3.3	32	76	11	103	38	22	12	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3019242--3019379	69	2.0	69	89	0	213	25	13	21	39	1.90
3019452--3019501	20	2.5	20	76	3	55	2	16	2	80	0.91
3019462--3019503	15	3.0	14	83	10	59	2	14	0	83	0.75
3023740--3023797	23	2.5	23	85	0	80	20	12	8	58	1.59
3026050--3026415	146	2.4	151	80	9	372	18	27	18	36	1.94
3026328--3026353	7	3.7	7	100	0	52	15	61	11	11	1.57
3026666--3026754	3	29.3	3	93	2	151	62	0	1	35	1.02
3027352--3028189	133	6.3	133	86	2	1058	29	20	20	29	1.97
3027581--3028170	44	13.4	44	66	10	143	30	20	19	29	1.97
3028098--3028296	107	1.9	107	92	2	337	28	20	21	29	1.98
3027965--3028446	240	2.0	243	91	1	790	29	20	20	29	1.98
3028205--3028460	133	1.9	133	95	0	467	28	20	20	30	1.98
3028926--3029043	36	3.2	37	91	3	186	33	12	24	28	1.92
3028963--3029026	15	3.9	15	72	21	56	32	9	28	29	1.88
3028975--3029043	21	3.6	19	70	23	56	37	11	23	27	1.89
3029048--3029169	63	1.9	63	90	3	192	38	14	18	27	1.90
3029115--3029204	36	2.4	38	87	5	121	35	15	22	26	1.94
3030752--3030823	10	7.1	9	80	20	72	4	15	0	80	0.86
3030753--3030831	17	4.6	17	73	20	67	3	16	0	79	0.87
3030763--3030808	24	1.9	24	86	8	67	6	17	0	76	1.00
3030754--3030831	34	2.3	33	82	8	95	3	16	0	79	0.87
3030753--3030831	24	3.3	23	73	15	63	3	16	0	79	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3034255--3034578	146	2.2	145	84	3	402	20	26	20	32	1.97
3034857--3034931	3	25.3	3	94	2	134	65	1	0	33	1.01
3038534--3038604	18	4.0	18	72	1	54	26	25	19	28	1.99
3039809--3039844	2	18.0	2	88	0	54	44	0	2	52	1.15
3051733--3051768	17	2.1	17	89	0	54	47	0	0	52	1.00
3052847--3053502	43	15.5	42	76	9	527	26	19	6	46	1.74
3052848--3053488	85	7.6	85	77	9	525	27	19	6	46	1.74
3052863--3053488	170	3.7	167	79	7	594	26	19	6	47	1.73
3054361--3054452	46	2.0	46	97	0	175	28	8	14	48	1.73
3055885--3055911	6	4.5	6	100	0	54	29	0	0	70	0.88
3057106--3057232	39	3.4	37	77	9	105	47	3	5	44	1.42
3057187--3057421	66	3.6	66	83	13	308	45	0	6	47	1.31
3057186--3057420	31	7.2	32	81	11	257	45	0	6	47	1.31
3057150--3057451	129	2.3	128	79	13	321	45	1	6	46	1.40
3057454--3057500	12	3.8	12	83	10	58	46	6	4	42	1.48
3060013--3060070	26	2.1	28	90	6	93	36	1	13	48	1.53
3060104--3060183	23	3.5	23	86	1	99	32	20	16	31	1.94
3077172--3077221	20	2.4	23	71	21	56	38	22	14	26	1.91
3077365--3077403	20	2.0	20	94	0	69	41	15	12	30	1.85
3077238--3077420	77	2.4	74	78	11	206	28	15	20	34	1.93
3077400--3077440	20	2.0	20	95	0	73	24	14	19	41	1.89
3077288--3077480	97	2.0	97	93	0	332	31	15	18	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3078258--3078300	13	3.3	13	86	0	68	18	46	18	16	1.84
3079137--3079182	21	2.2	20	85	11	58	39	15	13	32	1.85
3082027--3082082	20	2.8	21	83	5	62	21	14	25	39	1.91
3082076--3082145	20	3.5	20	92	0	113	21	17	20	41	1.90
3085750--3085848	41	2.4	41	98	0	189	31	21	25	22	1.98
3085750--3085860	41	2.7	41	90	5	179	29	23	26	20	1.99
3086147--3086226	32	2.5	32	100	0	160	23	20	37	18	1.94
3086557--3086593	19	1.9	19	88	0	56	29	29	16	24	1.96
3086619--3086704	20	4.2	20	72	11	68	34	26	17	20	1.95
3086621--3086699	41	1.9	41	94	0	140	36	25	17	20	1.94
3086690--3086738	18	2.9	17	91	8	82	48	18	6	26	1.71
3087148--3087238	19	4.4	20	73	17	87	30	26	5	37	1.79
3088088--3088180	40	2.4	38	75	16	93	40	1	2	55	1.19
3090179--3090223	19	2.4	19	85	7	56	44	0	0	55	0.99
3090312--3090345	14	2.3	15	90	5	52	41	2	2	52	1.31
3090312--3090379	15	4.9	14	71	21	54	41	1	2	54	1.24
3090340--3090395	29	1.9	28	86	13	78	42	0	1	55	1.10
3090338--3090406	30	2.3	29	76	11	77	42	0	1	56	1.08
3090354--3090452	35	2.8	38	77	16	113	46	1	0	52	1.07
3090342--3090428	35	2.7	31	74	22	81	44	0	1	54	1.07
3092417--3092497	40	2.0	40	100	0	162	35	19	19	24	1.95
3097341--3097485	77	1.9	79	84	5	197	24	11	15	49	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3098027--3098123	45	2.1	46	92	5	162	30	9	18	41	1.82
3107597--3107672	8	10.4	8	78	17	60	76	0	11	11	1.03
3107612--3107671	22	2.8	21	82	9	77	76	0	11	11	1.02
3107622--3107707	39	2.2	40	79	6	95	72	1	15	11	1.19
3107590--3107675	14	5.9	14	74	18	79	74	0	13	11	1.07
3107663--3107705	23	1.9	22	85	4	59	72	2	18	6	1.19
3107722--3107775	27	2.0	27	82	7	65	70	1	22	5	1.18
3109014--3109081	37	1.9	36	88	8	104	35	20	22	22	1.96
3109084--3109394	51	5.9	52	76	15	252	30	15	23	30	1.95
3109213--3109392	53	3.4	53	81	11	165	30	15	23	31	1.95

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