genome.fa.s8724.2.7.7.80.10.50.1000.15.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  15  of  23  ( 2733 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)
3423297--3423358	30	2.1	30	87	0	88	35	16	22	25	1.94
3434196--3434456	138	1.9	138	87	0	387	42	16	17	23	1.88
3434734--3434771	19	1.9	19	89	5	58	52	0	0	47	1.00
3438063--3438113	22	2.4	22	84	15	72	50	0	0	49	1.00
3438078--3438175	41	2.4	39	78	18	94	53	2	3	41	1.28
3438163--3438192	15	1.9	16	93	6	53	43	0	3	53	1.17
3443403--3443587	2	91.0	2	65	18	71	45	3	3	46	1.39
3443403--3443736	20	16.8	20	68	17	153	44	5	4	46	1.46
3443425--3443492	33	2.1	33	91	5	113	48	4	4	42	1.43
3443446--3443569	13	9.3	13	72	16	60	46	4	4	45	1.40
3443403--3443707	11	28.5	11	64	18	90	43	4	4	47	1.43
3443410--3443718	22	14.4	22	67	16	130	43	4	4	46	1.45
3443611--3443822	117	1.8	113	82	6	264	42	6	5	44	1.54
3443774--3443813	17	2.4	17	86	0	53	45	0	2	52	1.14
3443817--3443864	22	2.2	22	92	0	78	45	2	4	47	1.33
3443812--3443866	22	2.4	24	81	12	69	45	1	5	47	1.36
3443916--3444033	20	5.7	21	72	4	80	47	11	4	37	1.58
3443951--3444034	22	3.9	22	75	4	82	48	9	3	38	1.53
3444108--3444187	20	4.2	20	69	24	66	47	5	2	45	1.38
3444157--3444187	14	2.1	15	94	5	55	54	0	0	45	0.99
3447877--3447904	12	2.3	12	100	0	56	35	14	7	42	1.73
3454666--3454710	21	2.1	21	95	0	81	28	22	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3467943--3468129	59	3.2	59	86	1	259	28	15	24	31	1.96
3475150--3475174	9	2.8	9	100	0	50	44	0	8	48	1.32
3476201--3476293	45	2.1	45	89	4	143	30	24	10	34	1.90
3479035--3479403	20	18.5	20	85	5	460	34	26	18	20	1.96
3480086--3480132	24	2.0	24	87	8	69	25	14	21	38	1.92
3480307--3480331	12	2.1	12	100	0	50	72	0	28	0	0.86
3482615--3482907	19	16.4	19	82	14	365	46	18	19	15	1.84
3482643--3482929	52	5.4	55	88	8	329	46	17	20	15	1.84
3482615--3482929	128	2.6	128	86	7	435	46	18	20	15	1.84
3482936--3483037	19	5.6	19	85	12	151	14	23	17	44	1.86
3483144--3483180	14	2.6	14	91	0	65	45	21	0	32	1.52
3484181--3484237	14	3.7	14	77	20	60	45	22	21	10	1.82
3484162--3484254	33	2.8	33	95	0	168	47	21	20	10	1.80
3484125--3484259	19	7.6	19	75	16	119	45	22	19	11	1.83
3484255--3484383	19	7.3	19	75	17	125	8	17	28	45	1.77
3484255--3484346	33	2.8	33	93	3	150	7	18	28	45	1.76
3484427--3484898	93	5.1	93	98	1	912	46	18	12	22	1.83
3484427--3484898	185	2.6	185	99	0	926	46	18	12	22	1.83
3486605--3486694	14	5.7	14	74	23	81	42	23	25	8	1.83
3486597--3486711	33	3.5	33	95	0	212	45	20	24	9	1.81
3486604--3486716	19	6.8	18	72	23	88	43	22	24	9	1.83
3486728--3486782	14	3.6	14	73	21	56	9	25	23	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3486712--3486782	33	2.2	33	94	0	124	8	22	25	43	1.81
3486723--3486804	33	2.5	33	89	2	119	9	25	21	42	1.84
3486735--3486823	20	4.8	20	72	19	75	12	24	19	43	1.85
3486903--3486973	33	2.2	33	92	0	115	47	18	22	11	1.80
3487155--3487209	22	2.5	22	81	0	74	20	16	40	23	1.91
3487355--3487547	20	9.6	20	82	5	219	19	19	25	35	1.95
3487355--3487547	60	3.2	60	83	0	251	19	19	25	35	1.95
3487603--3487654	20	2.6	20	96	0	95	21	13	26	38	1.90
3494102--3494149	23	2.1	22	85	11	62	52	2	0	45	1.12
3494198--3494233	18	2.0	19	89	10	58	30	0	25	44	1.54
3494323--3494365	21	2.0	21	82	8	52	18	11	0	69	1.17
3495180--3495219	20	2.0	21	90	5	64	15	15	32	37	1.88
3503085--3503118	9	3.8	9	88	11	52	76	0	2	20	0.92
3503084--3503118	13	2.6	13	90	4	52	77	0	2	20	0.90
3503452--3503485	9	3.8	9	92	7	52	20	2	0	76	0.92
3503452--3503486	13	2.6	14	90	4	54	20	2	0	77	0.90
3503462--3503517	18	3.1	17	76	19	51	16	10	1	71	1.22
3507420--3507768	182	1.9	183	94	0	619	28	20	20	30	1.98
3509056--3509125	36	1.9	36	85	0	95	27	21	12	38	1.90
3509071--3509142	36	2.0	36	83	0	90	26	23	12	37	1.90
3509084--3509242	67	2.4	67	86	4	214	32	22	11	33	1.89
3509195--3509297	55	1.9	53	82	4	125	36	19	8	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3510076--3511148	105	10.3	104	89	4	1540	33	26	18	22	1.96
3510076--3511148	205	5.2	205	92	2	1610	33	26	18	22	1.96
3510076--3511148	310	3.4	312	90	4	1569	33	26	18	22	1.96
3512124--3512162	14	2.8	13	88	11	51	23	2	2	71	1.10
3512122--3512164	18	2.5	17	81	7	52	25	2	2	69	1.12
3512162--3512198	2	18.5	2	94	0	65	45	0	2	51	1.15
3512660--3512693	9	3.8	9	92	7	52	20	2	0	76	0.92
3512660--3512694	13	2.6	14	90	4	54	20	2	0	77	0.90
3512670--3512725	18	3.1	17	76	19	51	16	10	1	71	1.22
3512679--3512730	27	1.9	27	84	7	70	15	11	3	69	1.32
3513659--3513749	3	29.7	3	78	4	92	41	1	0	57	1.06
3513659--3513749	12	7.7	12	80	13	109	41	1	0	57	1.06
3522585--3522925	114	3.0	114	92	0	556	33	15	20	30	1.94
3525044--3525249	54	3.9	54	80	10	228	38	15	21	24	1.92
3525616--3525670	22	2.5	22	87	0	83	36	10	14	38	1.81
3526070--3526726	116	5.7	116	92	2	1008	37	14	20	28	1.91
3526861--3526951	3	29.7	3	81	4	92	41	1	0	57	1.06
3526859--3526945	19	4.9	19	78	13	78	43	1	0	55	1.07
3534977--3535007	3	10.3	3	92	0	53	67	0	29	3	1.06
3537219--3537260	22	1.9	22	90	9	68	33	0	9	57	1.31
3538471--3538631	41	3.7	45	84	11	235	19	3	7	69	1.28
3538471--3538631	45	3.6	45	86	9	176	19	3	7	69	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3538471--3538631	86	1.9	86	90	5	263	19	3	7	69	1.28
3539773--3539805	12	2.6	13	85	9	50	42	6	9	42	1.61
3542538--3542579	15	2.8	15	92	0	66	38	11	16	33	1.86
3552376--3552436	26	2.3	26	100	0	122	24	32	16	26	1.96
3553022--3553058	9	3.9	9	86	13	56	54	0	0	45	1.00
3553938--3554002	32	2.0	32	85	5	87	49	18	9	23	1.76
3554725--3554841	60	1.9	61	82	5	148	27	19	18	34	1.96
3554730--3554854	60	2.1	60	81	3	144	29	17	19	33	1.95
3554753--3554867	60	1.9	60	80	7	135	29	20	17	33	1.95
3557035--3557133	31	3.2	31	91	0	171	29	9	11	50	1.68
3557553--3557627	39	1.9	39	88	0	114	38	16	2	42	1.62
3557773--3557833	2	30.5	2	100	0	122	49	0	0	50	1.00
3557926--3557956	15	2.0	16	93	6	55	51	0	0	48	1.00
3557967--3558033	25	2.6	25	83	6	82	41	2	0	55	1.15
3557989--3558021	17	2.0	17	88	5	50	36	3	0	60	1.12
3566100--3566168	29	2.3	31	82	5	88	42	8	20	28	1.82
3568445--3568562	32	3.8	32	80	15	156	33	18	15	33	1.92
3568428--3568581	63	2.4	63	95	2	274	33	18	16	31	1.93
3568428--3568612	31	5.9	31	77	10	153	31	20	17	31	1.95
3568602--3568673	30	2.4	30	90	0	108	25	20	23	30	1.99
3569647--3569684	20	1.9	20	94	0	67	39	39	5	15	1.70
3570107--3570227	60	2.0	61	86	1	172	28	26	11	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3571037--3571068	12	2.7	12	100	0	64	34	0	40	25	1.56
3571473--3571515	20	2.2	20	83	8	52	53	2	16	27	1.55
3576954--3577030	25	2.8	29	71	18	83	50	0	3	45	1.20
3576954--3577025	26	2.8	24	79	14	63	51	0	2	45	1.15
3585423--3585475	21	2.5	21	71	0	52	22	5	1	69	1.19
3590088--3590135	22	2.2	22	92	0	78	20	20	14	43	1.87
3596212--3596317	44	2.5	44	87	4	155	41	5	19	33	1.75
3597273--3597331	28	2.1	28	96	0	109	44	6	8	40	1.61
3597416--3597484	35	2.0	35	82	5	86	39	10	10	40	1.73
3597584--3597613	14	2.1	14	93	0	51	26	13	10	50	1.73

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23