genome.fa.s8364.2.7.7.80.10.50.1000.25.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  25  of  27  ( 3136 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)
5563122--5563594	181	2.6	182	91	0	741	42	14	16	26	1.87
5563515--5563561	20	2.4	19	82	10	67	53	10	17	19	1.72
5563526--5563566	20	2.2	19	83	12	50	51	14	17	17	1.77
5565973--5566021	19	2.6	19	90	0	80	32	4	10	53	1.54
5566255--5567217	200	4.8	200	94	0	1638	36	14	18	30	1.91
5568718--5568751	12	2.8	12	86	0	50	41	8	32	17	1.80
5570047--5570293	120	2.1	120	93	0	422	32	14	15	37	1.88
5569981--5570761	303	2.6	303	97	0	1472	33	14	16	34	1.90
5570350--5570596	120	2.1	120	95	0	440	31	14	15	38	1.88
5573486--5573558	23	3.2	23	92	0	119	34	5	21	38	1.77
5573976--5574048	23	3.2	23	90	0	110	35	5	20	38	1.76
5573300--5574934	490	3.4	489	96	0	2987	41	7	11	39	1.70
5574466--5574538	23	3.2	23	90	0	110	34	4	23	38	1.74
5575008--5575066	23	2.6	23	100	0	118	38	18	10	32	1.84
5575631--5576358	5	145.8	5	99	0	1440	20	0	19	60	1.37
5577689--5577722	16	2.1	16	88	0	50	50	0	2	47	1.16
5577763--5577796	16	2.0	18	88	11	54	26	2	5	64	1.30
5578266--5578513	130	1.9	130	93	0	424	35	13	14	35	1.86
5578900--5578975	35	2.2	35	90	4	118	36	1	22	39	1.63
5580014--5580077	22	2.9	22	92	0	101	43	0	0	56	0.99
5580339--5580378	20	1.9	22	85	10	57	42	5	0	52	1.23
5580672--5580736	20	3.2	20	77	0	76	26	29	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5580703--5580767	27	2.4	27	84	5	87	32	27	12	27	1.92
5581292--5581343	20	2.6	20	90	0	86	21	17	34	26	1.95
5581419--5581469	19	2.6	19	84	3	57	27	9	29	33	1.89
5584713--5584832	64	1.9	64	87	3	179	36	22	16	24	1.94
5584713--5584873	64	2.5	64	81	7	175	34	21	18	25	1.96
5591458--5591503	20	2.3	20	84	0	65	34	17	32	15	1.91
5592193--5592236	22	2.0	23	81	4	54	43	2	0	54	1.12
5592220--5592269	17	3.1	17	77	11	52	44	4	2	50	1.32
5592434--5592478	23	2.0	23	86	0	63	44	4	2	48	1.35
5592473--5592515	22	2.0	22	85	0	59	51	6	0	41	1.29
5594591--5594680	47	1.9	47	88	0	135	53	10	30	6	1.60
5597461--5597518	16	3.7	16	86	2	82	44	36	17	1	1.59
5599975--5600097	40	3.1	40	84	2	158	31	17	33	17	1.93
5607721--5607763	21	2.0	22	81	4	52	74	2	2	20	1.04
5608616--5608643	6	4.7	6	100	0	56	50	0	17	32	1.47
5608611--5608655	18	2.5	20	75	20	53	46	6	20	26	1.75
5617233--5617278	22	2.0	23	87	4	67	34	0	4	60	1.16
5618214--5618357	72	2.0	72	97	0	270	29	12	22	35	1.91
5618259--5618312	27	2.0	27	100	0	108	29	11	22	37	1.89
5618289--5618407	45	2.6	45	94	1	211	27	11	21	38	1.89
5624527--5624554	8	3.5	8	100	0	56	39	0	10	50	1.37
5626348--5626749	198	2.0	202	98	1	776	31	14	23	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5628211--5628384	12	14.8	12	69	21	68	77	0	13	9	0.99
5628223--5628396	14	12.0	14	68	20	76	77	0	13	9	0.99
5628221--5628390	7	23.6	7	71	18	68	77	0	13	8	0.98
5628260--5628329	10	6.6	10	83	9	86	75	0	12	11	1.04
5628237--5628337	35	2.8	34	79	13	89	76	0	12	10	1.03
5628260--5628395	21	7.2	20	71	17	87	77	0	11	11	0.98
5628210--5628380	25	7.4	21	70	23	96	77	0	13	9	1.00
5629750--5630187	55	8.1	55	82	3	424	29	16	23	30	1.96
5629765--5630161	164	2.4	164	82	6	446	29	16	22	30	1.96
5636752--5636872	61	2.0	61	95	0	215	37	14	19	28	1.91
5638150--5638180	3	10.3	3	100	0	62	0	32	0	67	0.91
5639454--5639478	12	2.1	12	100	0	50	20	16	24	40	1.91
5647970--5647994	13	1.9	13	100	0	50	84	0	0	16	0.63
5648266--5648290	1	25.0	1	100	0	50	0	0	0	100	0.00
5656727--5656779	21	2.5	21	78	6	54	43	18	11	26	1.84
5659073--5659256	45	4.1	45	95	0	314	21	26	18	33	1.96
5661810--5661895	45	1.9	45	90	0	136	15	27	16	40	1.88
5661910--5662043	45	3.0	45	94	0	241	16	35	11	35	1.86
5664212--5664245	10	3.4	10	87	0	50	8	32	0	58	1.29
5664641--5664693	23	2.4	22	84	9	63	50	0	9	39	1.35
5665418--5665467	23	2.2	23	79	13	59	36	6	0	58	1.23
5667621--5667688	31	2.2	31	83	0	91	33	7	10	48	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5668071--5668176	39	2.7	39	77	13	119	37	17	1	42	1.61
5668411--5668486	23	3.1	24	82	14	86	39	5	1	53	1.32
5668445--5668519	25	2.9	26	78	7	64	41	4	0	54	1.19
5673906--5673931	2	13.0	2	100	0	52	50	0	0	50	1.00
5682571--5682732	29	5.6	29	87	1	200	35	22	6	35	1.80
5682565--5682732	87	2.0	85	84	7	223	36	22	5	35	1.79
5690055--5690215	29	5.6	29	88	4	229	36	22	6	34	1.80
5690055--5690215	57	2.8	57	87	3	225	36	22	6	34	1.80
5690211--5690257	23	2.1	22	84	4	58	4	21	53	21	1.63
5693196--5693241	18	2.6	18	89	3	67	39	6	28	26	1.81
5695679--5695785	21	5.2	21	68	4	83	18	18	25	37	1.94
5695683--5695824	41	3.5	41	92	0	221	21	20	23	34	1.97
5695709--5695777	20	3.4	20	76	4	84	14	23	24	37	1.92
5695697--5695858	82	2.0	81	80	7	184	20	19	22	36	1.95
5695943--5695980	6	6.5	6	96	3	69	31	52	15	0	1.43
5696463--5696499	5	7.6	5	96	3	67	0	40	21	37	1.54
5696638--5696711	21	3.6	21	77	3	78	32	25	18	22	1.97
5697878--5697905	2	14.0	2	100	0	56	50	0	0	50	1.00
5699109--5699168	14	3.7	16	72	17	52	35	0	1	63	1.05
5699167--5699210	23	1.9	23	90	0	70	40	2	2	54	1.25
5700358--5700387	14	2.1	14	100	0	60	66	0	0	33	0.92
5700737--5700779	2	21.5	2	100	0	86	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)
5710571--5710607	7	5.3	7	100	0	74	27	16	27	29	1.97
5712307--5712404	11	9.7	11	65	34	53	50	2	2	45	1.24
5712307--5712452	13	11.1	13	70	17	70	50	3	2	43	1.33
5712351--5712402	18	2.8	19	82	8	63	46	1	1	50	1.23
5712306--5712479	13	14.0	13	70	17	58	50	2	2	44	1.29
5712554--5712641	46	2.0	44	90	4	140	46	0	26	27	1.53
5712593--5712661	20	3.6	19	75	14	79	44	0	27	27	1.54
5712844--5713063	4	55.5	4	76	12	107	43	2	8	45	1.47
5713218--5713282	2	32.0	2	80	9	69	46	1	4	47	1.32
5715501--5715606	51	2.1	51	84	10	137	27	25	27	19	1.99
5715939--5715975	19	1.9	19	88	0	56	32	27	16	24	1.96
5716930--5716983	24	2.2	24	93	0	90	20	18	20	40	1.91
5719231--5719265	18	1.9	18	94	0	61	54	25	2	17	1.57
5719323--5719605	140	2.0	140	97	0	539	28	13	14	43	1.83
5719576--5719726	20	7.8	20	80	8	179	33	23	18	24	1.97
5719624--5719738	34	3.2	33	78	15	122	37	24	17	20	1.94
5719584--5719738	74	2.1	74	89	2	231	35	23	18	21	1.96
5719584--5719775	74	2.6	73	83	7	210	34	24	18	22	1.96
5719765--5719842	20	3.9	20	89	0	111	12	17	25	43	1.85
5719944--5719980	14	2.6	14	100	0	74	48	21	0	29	1.50
5721964--5722027	20	3.2	20	84	8	69	43	25	17	14	1.86
5721993--5722035	20	2.2	20	95	0	77	34	27	20	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5722190--5722246	20	2.8	20	89	5	80	19	19	24	36	1.94
5724153--5724267	20	5.8	20	82	2	115	46	22	15	14	1.82
5724176--5724278	20	5.2	19	69	21	61	42	24	15	17	1.88
5726690--5726807	47	2.6	44	83	7	155	38	7	22	31	1.82
5727545--5727591	22	2.1	22	84	0	58	23	12	38	25	1.90
5727558--5727600	22	2.0	22	81	9	52	23	9	41	25	1.84
5728659--5728731	23	3.2	23	94	0	119	39	21	4	34	1.73
5729315--5729412	41	2.4	41	100	0	196	18	20	24	36	1.94
5729340--5729432	20	4.6	20	83	2	132	13	22	23	39	1.90
5729477--5729587	19	5.4	21	77	7	86	21	18	21	38	1.93

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