genome.fa.s8719.2.7.7.80.10.50.1000.14.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  14  of  18  ( 2140 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)
3659614--3659697	24	3.5	24	68	20	68	40	4	0	54	1.21
3659671--3659733	2	32.0	2	75	9	58	41	3	0	55	1.16
3659621--3659733	47	2.4	45	81	12	129	40	5	0	53	1.23
3665846--3665909	21	3.0	21	81	4	65	23	35	25	15	1.94
3665848--3665929	21	3.8	21	74	17	62	23	37	24	14	1.92
3670399--3670431	17	1.9	17	93	0	57	54	0	0	45	0.99
3670534--3670646	56	2.0	56	100	0	226	37	10	5	46	1.61
3677344--3677379	17	2.1	18	89	5	56	41	2	0	55	1.14
3679113--3679165	19	2.8	18	83	8	70	45	0	0	54	0.99
3679114--3679178	18	3.3	19	76	20	55	43	0	3	53	1.16
3679096--3679226	65	2.0	63	88	5	192	44	0	2	52	1.19
3679114--3679250	65	2.1	65	84	8	172	43	2	1	52	1.22
3679156--3679244	37	2.4	36	85	7	108	44	2	2	50	1.26
3679266--3679318	23	2.3	23	78	18	58	52	1	0	45	1.11
3679266--3679301	11	3.0	13	84	15	51	52	0	0	47	1.00
3681695--3681719	4	6.2	4	100	0	50	24	0	0	76	0.80
3681732--3681765	16	2.1	16	94	0	59	11	8	0	79	0.94
3681824--3682249	188	2.3	191	80	7	451	39	12	10	37	1.77
3683999--3684037	15	2.5	16	91	4	62	33	15	2	48	1.58
3695598--3695632	18	1.9	18	100	0	70	17	14	17	51	1.77
3696843--3697019	93	1.9	94	89	3	277	31	14	25	28	1.95
3699389--3699560	94	1.8	94	85	7	242	29	16	26	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3699969--3700154	78	2.4	79	88	1	284	35	11	23	29	1.90
3700136--3700458	90	3.6	90	81	3	364	39	9	21	30	1.84
3700136--3700447	135	2.3	135	86	1	439	38	9	21	30	1.85
3700173--3700458	45	6.4	45	86	2	360	40	8	19	31	1.82
3700995--3701047	20	2.7	20	96	0	97	35	3	35	24	1.74
3701132--3701224	44	2.1	46	84	8	120	47	6	22	23	1.74
3703005--3703033	2	14.5	2	100	0	58	51	0	0	48	1.00
3705238--3705308	22	3.4	21	75	17	69	32	14	26	26	1.94
3705668--3705871	78	2.6	79	92	1	338	34	11	24	29	1.91
3707000--3707080	41	2.0	41	82	4	101	27	24	22	25	2.00
3707843--3708318	135	3.5	135	87	0	650	29	21	17	31	1.96
3708526--3708625	3	33.3	3	97	0	191	32	0	1	67	0.98
3709871--3709954	27	3.2	25	78	14	71	19	2	13	65	1.37
3714727--3714895	31	5.5	31	93	2	281	21	10	18	49	1.76
3714920--3714975	14	4.0	14	88	0	67	57	19	16	7	1.62
3715164--3715212	24	2.0	24	88	0	71	57	16	12	14	1.66
3715255--3715334	40	1.9	41	85	7	108	38	13	8	38	1.76
3718265--3718317	22	2.4	21	84	9	79	32	7	3	56	1.45
3724371--3724410	21	1.9	21	94	0	71	30	15	7	47	1.72
3724405--3724503	33	3.0	33	94	1	164	32	7	15	45	1.73
3724489--3724543	13	4.2	13	75	13	58	34	3	12	49	1.59
3724739--3724795	21	2.7	21	91	0	96	19	26	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3724980--3725013	18	1.9	18	88	5	52	41	11	8	38	1.73
3725106--3725137	16	2.0	17	88	11	50	43	21	21	12	1.86
3725731--3725782	19	2.6	19	74	17	52	38	15	0	46	1.46
3725714--3725884	60	2.8	59	79	6	182	34	21	2	42	1.66
3728156--3728257	2	51.0	2	91	3	161	47	1	1	49	1.24
3730605--3730735	60	2.2	59	78	10	140	31	19	5	43	1.74
3730875--3731001	60	2.1	60	85	5	168	37	5	22	33	1.78
3736221--3736246	2	13.0	2	100	0	52	50	0	0	50	1.00
3743425--3743457	11	3.0	11	100	0	66	54	18	18	9	1.69
3745185--3745241	23	2.5	22	91	2	87	24	24	26	24	2.00
3746831--3746871	18	2.3	18	91	8	66	43	21	34	0	1.53
3751804--3751989	47	4.0	47	95	0	327	44	20	15	19	1.87
3767090--3767387	20	15.1	20	77	12	262	14	22	22	40	1.90
3767090--3767384	41	7.4	40	81	11	274	14	22	22	40	1.91
3767193--3767264	22	3.4	22	73	11	87	18	19	25	37	1.94
3767214--3767282	19	3.5	19	73	11	75	18	20	21	39	1.93
3768063--3768097	6	5.8	6	100	0	70	0	14	51	34	1.42
3768174--3768230	22	2.6	22	88	0	96	36	28	15	19	1.92
3768257--3768327	27	2.6	27	95	0	124	29	23	21	25	1.99
3768315--3768366	20	2.6	20	93	0	86	44	21	23	11	1.84
3768717--3768793	40	1.9	39	82	7	93	44	2	7	45	1.46
3771842--3771876	2	18.0	2	88	5	54	51	2	0	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3772867--3773022	82	1.9	81	81	1	186	36	10	12	41	1.76
3780489--3780523	15	2.4	15	90	4	54	25	2	0	71	1.00
3781380--3781428	20	2.4	21	79	3	55	44	6	0	48	1.27
3782190--3782330	60	2.3	60	84	7	171	36	19	4	39	1.72
3782219--3782362	60	2.4	59	80	10	150	34	22	4	38	1.74
3782481--3782657	60	3.0	58	75	8	151	39	6	20	33	1.78
3783215--3783259	20	2.2	20	92	0	72	33	13	24	28	1.93
3783958--3784005	2	24.0	2	100	0	96	50	0	0	50	1.00
3784420--3784470	2	26.5	2	92	7	88	50	0	0	49	1.00
3784843--3784925	30	2.8	29	80	12	80	37	14	4	43	1.67
3785105--3785294	60	3.2	60	87	3	240	41	17	12	29	1.85
3787956--3787986	16	1.9	16	93	0	53	38	0	0	61	0.96
3789842--3789893	2	26.0	2	100	0	104	50	0	0	50	1.00
3790079--3790151	21	3.4	20	74	20	67	36	28	16	17	1.92
3790069--3790173	44	2.4	44	85	6	149	35	27	18	19	1.94
3790092--3790164	23	3.2	24	73	23	77	34	27	21	16	1.95
3791140--3791196	20	2.8	20	91	2	96	31	17	22	28	1.97
3791287--3791340	20	2.6	21	88	5	83	20	20	31	27	1.97
3791686--3791733	21	2.3	21	81	0	60	41	6	25	27	1.79
3798768--3798836	3	23.7	3	94	5	124	65	0	0	34	0.93
3799075--3799557	55	8.8	55	93	0	795	32	26	14	26	1.95
3799196--3800373	55	22.1	54	80	10	627	26	26	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3799534--3800369	54	15.9	53	80	8	806	24	25	17	31	1.97
3799563--3800369	104	7.7	104	82	5	855	24	26	17	31	1.97
3800289--3800445	76	2.1	76	87	2	226	24	27	15	33	1.95
3800201--3800552	182	2.0	176	88	5	519	23	26	17	32	1.97
3800379--3801989	51	30.9	51	82	6	1686	23	26	18	31	1.97
3800379--3801992	156	10.3	158	86	5	1819	23	26	18	31	1.97
3803272--3803331	16	3.6	16	80	8	57	5	8	5	81	0.97
3804767--3804936	88	2.0	82	93	6	286	23	20	15	40	1.91
3806906--3806947	2	21.0	2	95	0	75	50	2	0	47	1.14
3808102--3808151	21	2.4	21	100	0	100	22	28	24	26	1.99
3809998--3811262	631	2.0	632	97	1	2387	34	20	15	29	1.93
3811968--3812009	3	14.7	3	90	9	70	64	0	0	35	0.94
3816107--3816161	20	2.7	20	85	2	74	32	18	20	29	1.96
3816813--3816903	23	4.2	22	76	17	91	24	18	26	30	1.98
3833557--3833603	20	2.3	20	96	0	85	55	2	19	23	1.54
3838119--3838165	17	2.5	19	76	10	53	76	4	2	17	1.04
3838940--3838983	2	22.0	2	100	0	88	50	0	0	50	1.00
3842420--3842446	4	6.8	4	100	0	54	77	0	0	22	0.76
3842534--3842574	5	7.8	5	84	10	55	82	2	0	14	0.76
3842539--3842582	17	2.5	17	88	3	70	81	2	2	13	0.88
3842534--3842595	25	2.4	27	89	5	92	79	3	3	14	0.99
3842505--3842609	25	4.3	25	77	12	76	76	2	11	9	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3843846--3844000	64	2.4	63	88	4	222	49	5	2	41	1.40
3843865--3844209	37	9.7	34	77	14	220	46	6	2	43	1.45
3843900--3843960	27	2.4	25	86	5	77	47	4	3	44	1.41
3843900--3843960	25	2.3	27	83	10	74	47	4	3	44	1.41
3843922--3844247	37	8.8	37	80	10	269	46	6	3	43	1.48
3843922--3844209	37	7.7	39	85	8	284	46	6	3	43	1.46
3844234--3844305	2	36.0	2	100	0	144	50	0	0	50	1.00
3845103--3845148	22	2.1	22	95	0	83	26	26	26	21	2.00
3845359--3845417	30	2.0	30	93	0	100	33	23	3	38	1.72
3845784--3845936	68	2.2	69	88	2	220	17	27	27	27	1.98

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