genome.fa.s8087.2.7.7.80.10.50.1000.36.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  36  of  37  ( 4336 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)
7905668--7905776	53	2.1	51	77	19	116	48	1	0	48	1.18
7905739--7905818	22	3.5	23	78	6	74	51	0	0	48	1.00
7905712--7905793	32	2.5	33	84	11	107	50	0	1	48	1.08
7907832--7907872	10	4.2	10	90	3	57	14	12	9	63	1.52
7924323--7924400	31	2.5	31	82	0	84	23	5	41	30	1.76
7928830--7928854	2	12.5	2	100	0	50	52	0	0	48	1.00
7931558--7931612	27	2.0	27	100	0	110	32	10	14	41	1.81
7933310--7933435	65	1.9	67	88	6	186	50	18	7	23	1.71
7935321--7935357	16	2.5	14	87	12	56	0	27	0	72	0.84
7935404--7935450	24	2.0	24	86	0	67	34	36	0	29	1.58
7937047--7937138	31	3.0	32	82	9	111	39	17	18	25	1.92
7937903--7938036	45	3.0	46	80	11	143	29	17	25	28	1.97
7939488--7939528	20	2.0	20	95	0	73	26	29	19	24	1.98
7940713--7940794	23	3.6	23	70	17	73	26	24	25	23	2.00
7946256--7946303	18	2.7	18	93	3	80	56	4	16	22	1.58
7946332--7946385	22	2.5	22	90	0	81	16	20	9	53	1.70
7946336--7946395	22	2.8	22	87	2	77	13	20	8	58	1.60
7946681--7946746	26	2.5	26	100	0	132	28	22	24	24	1.99
7948776--7948826	20	2.5	20	96	0	93	27	9	17	45	1.80
7953607--7953668	26	2.4	26	100	0	124	22	3	33	40	1.70
7957407--7957435	3	9.7	3	100	0	58	68	0	0	31	0.89
7958280--7958306	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7962222--7962257	13	2.8	13	100	0	72	22	19	8	50	1.74
7962800--7962983	32	5.9	31	81	9	205	33	16	17	32	1.93
7962800--7962983	64	2.9	63	84	7	230	33	16	17	32	1.93
7964532--7964576	21	2.1	21	87	0	63	31	28	24	15	1.96
7965380--7965504	62	2.0	62	89	3	189	20	20	22	36	1.95
7965380--7965489	31	3.5	31	94	0	193	19	20	21	38	1.94
7965777--7965812	17	2.1	17	100	0	72	30	5	11	52	1.59
7974162--7974651	165	3.0	165	91	0	757	39	20	17	22	1.92
7995447--7995491	18	2.5	18	78	10	56	57	2	0	40	1.11
7998700--7998734	17	2.1	17	100	0	70	48	17	11	22	1.79
7999020--7999062	16	2.7	15	86	10	59	74	11	2	11	1.17
7999020--7999071	16	3.2	16	82	15	56	73	11	3	11	1.23
8008821--8008850	15	2.0	15	100	0	60	13	46	26	13	1.80
8010732--8010760	14	2.0	15	93	6	51	51	13	0	34	1.42
8015830--8015891	31	2.0	31	100	0	124	45	19	3	32	1.66
8016928--8016991	29	2.2	29	91	0	101	35	4	10	48	1.59
8019118--8019920	200	4.0	200	98	0	1525	22	16	16	45	1.86
8022850--8022883	2	17.0	2	100	0	68	50	0	0	50	1.00
8024659--8024683	6	4.2	6	100	0	50	0	68	0	32	0.90
8035543--8035587	24	1.9	23	86	4	63	33	11	4	51	1.58
8036705--8036748	22	2.1	21	87	8	63	45	0	2	52	1.13
8048038--8048082	20	2.3	20	80	3	56	46	4	2	46	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8053852--8053984	67	2.0	67	92	0	221	48	16	12	22	1.80
8065307--8065337	16	1.9	16	93	0	53	45	0	16	38	1.47
8068896--8068936	21	1.9	22	90	5	66	26	17	0	56	1.41
8069118--8069177	21	3.0	21	78	11	72	25	28	16	30	1.97
8074853--8074895	19	2.4	17	79	20	52	62	0	0	37	0.95
8084196--8084234	19	2.1	19	100	0	78	25	17	10	46	1.80
8098207--8098267	29	2.1	30	81	3	70	50	13	16	19	1.77
8118768--8118895	42	3.0	42	96	0	238	25	50	9	14	1.72
8118789--8118854	21	3.1	21	64	23	57	27	51	6	15	1.66
8118768--8118927	84	1.9	83	82	6	200	26	50	10	13	1.72
8124798--8124851	24	2.2	24	93	0	90	20	18	20	40	1.91
8127345--8127477	19	7.4	19	75	19	124	44	19	21	15	1.86
8127332--8127512	33	5.3	33	82	9	218	44	19	22	13	1.85
8127360--8127387	14	2.0	14	100	0	56	42	21	21	14	1.88
8127512--8127557	19	2.4	19	92	0	74	13	13	26	47	1.78
8127512--8127573	19	3.3	19	86	4	63	14	14	24	46	1.82
8127680--8127716	14	2.6	14	91	0	65	45	21	0	32	1.52
8129066--8129132	21	3.2	21	65	4	55	19	19	35	25	1.95
8129645--8129798	75	2.1	75	96	1	283	48	19	14	17	1.81
8131405--8131450	2	23.0	2	95	0	83	50	2	0	47	1.13
8131723--8131911	30	6.3	30	96	0	335	30	24	22	22	1.99
8133090--8133134	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8134379--8134426	20	2.4	21	79	10	64	41	22	22	12	1.88
8134366--8134464	19	5.1	19	80	4	99	45	19	21	14	1.85
8134490--8134526	19	1.9	19	94	0	65	13	21	16	48	1.80
8134487--8134566	41	2.0	41	85	2	108	13	20	16	50	1.78
8134491--8134581	20	4.6	20	82	9	105	14	17	17	50	1.78
8135139--8135352	20	10.6	20	75	8	200	20	18	23	36	1.95
8135141--8135413	81	3.4	81	86	5	331	20	17	23	38	1.93
8135361--8135413	20	2.7	20	82	5	63	15	16	22	45	1.85
8136621--8136665	21	2.1	21	87	0	63	31	28	24	15	1.96
8138351--8138417	22	3.0	22	95	2	116	19	26	28	25	1.99
8141552--8141596	21	2.1	21	84	8	56	33	28	22	15	1.95
8142656--8142699	15	2.8	17	70	22	51	36	6	15	40	1.74
8143287--8143353	22	3.0	22	95	2	116	19	26	28	25	1.99
8150709--8150771	21	3.0	21	79	9	65	55	1	1	41	1.19
8151648--8151674	14	1.9	14	100	0	54	40	0	0	59	0.98
8151909--8151960	24	2.2	24	89	0	77	26	28	23	21	1.99
8152300--8152363	33	1.9	33	100	0	128	48	4	9	37	1.56
8153737--8153765	14	2.1	14	93	6	51	55	13	6	24	1.63
8154074--8154104	3	10.0	3	93	6	53	32	3	0	64	1.09
8155281--8155309	2	14.5	2	100	0	58	51	0	0	48	1.00
8161390--8161523	57	2.3	59	83	10	175	36	3	26	33	1.74
8161339--8161507	57	2.9	57	77	11	180	39	4	24	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8173250--8173326	37	2.1	37	82	4	93	46	2	5	45	1.39
8173263--8173347	36	2.3	35	74	9	80	50	3	3	42	1.36
8193647--8193676	14	2.1	14	100	0	60	53	30	10	6	1.60
8201104--8201151	18	2.6	18	80	9	53	20	4	10	64	1.41
8201330--8201518	100	1.9	100	95	0	342	34	19	20	25	1.96
8216526--8216594	35	2.0	35	97	0	129	20	31	27	20	1.97
8216532--8216595	20	3.5	20	66	27	59	17	34	26	21	1.95
8222800--8222872	36	2.0	37	89	2	112	19	28	30	21	1.98
8223316--8223354	20	2.0	20	85	10	53	20	30	30	17	1.96
8223938--8223973	15	2.4	15	90	0	54	13	16	33	36	1.89
8224662--8224719	19	2.8	21	84	10	66	22	34	25	17	1.96
8224683--8224725	19	2.3	19	84	8	52	20	32	32	13	1.92
8229879--8230044	85	2.0	85	83	4	210	31	16	19	32	1.94
8230022--8230067	13	3.5	13	84	0	65	34	21	17	26	1.95
8230249--8230320	32	2.2	32	87	4	101	41	2	11	44	1.54
8232926--8232958	3	11.0	3	87	12	50	63	0	0	36	0.95
8242060--8242112	22	2.3	23	78	12	65	45	1	7	45	1.42
8251557--8251613	20	2.8	20	97	0	105	54	5	15	24	1.62
8252104--8252137	17	2.0	17	94	0	59	29	20	11	38	1.88
8254475--8254522	24	2.0	24	83	0	60	10	14	27	47	1.76
8254485--8254533	24	2.0	24	96	0	89	10	12	24	53	1.69
8254491--8254546	24	2.3	24	87	0	76	14	8	19	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8255608--8255650	16	2.7	16	92	0	68	9	9	20	60	1.55
8259161--8259211	19	2.6	20	90	6	86	37	27	13	21	1.91
8259265--8259352	18	4.7	19	83	10	69	36	28	19	15	1.93
8259283--8259453	20	8.6	20	80	8	183	33	26	19	19	1.96
8259829--8259899	33	2.2	33	92	0	115	11	22	18	47	1.80
8260105--8260191	14	5.7	14	73	23	70	9	25	24	41	1.84
8260117--8260192	14	4.6	18	75	25	71	9	25	23	42	1.83
8260088--8260197	33	3.4	32	91	6	179	10	23	21	44	1.82
8261863--8262233	92	4.1	93	93	6	647	22	12	19	45	1.84
8262277--8262403	19	7.3	19	73	18	105	45	28	17	8	1.78

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