genome.fa.s8209.2.7.7.80.10.50.1000.14.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  14  of  30  ( 3569 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)
3253677--3253731	23	2.3	24	81	9	60	61	0	1	36	1.06
3254630--3254660	11	2.8	11	95	0	53	12	29	3	54	1.53
3258052--3258107	24	2.3	24	100	0	112	12	21	33	32	1.91
3258479--3259618	570	2.0	569	99	0	2253	25	21	21	31	1.98
3263599--3263640	23	1.9	21	90	9	66	64	0	19	16	1.30
3272453--3272509	21	2.8	20	78	2	60	28	17	19	35	1.94
3273991--3274043	12	4.5	11	75	11	52	64	0	18	16	1.30
3277235--3277281	11	4.1	11	76	17	51	48	0	0	51	1.00
3277242--3277281	9	4.6	9	84	6	55	50	0	0	50	1.00
3277910--3277938	14	2.1	14	100	0	58	27	13	6	51	1.66
3278262--3278289	14	2.0	14	100	0	56	50	7	0	42	1.30
3278781--3279066	139	2.0	140	97	1	547	38	19	6	35	1.78
3280642--3280696	21	2.6	21	94	0	92	43	7	14	34	1.73
3297506--3297543	3	13.0	3	88	5	60	65	0	2	31	1.06
3303990--3304052	21	3.0	21	77	6	74	23	41	23	11	1.87
3308980--3309020	20	2.2	20	86	8	59	34	4	0	60	1.18
3309359--3309407	25	2.0	24	96	4	89	61	0	6	32	1.21
3311609--3311644	13	3.0	13	80	19	51	63	5	0	30	1.17
3314253--3314398	70	2.0	74	92	6	246	32	10	9	47	1.70
3314713--3314745	12	2.8	12	86	13	50	57	0	0	42	0.98
3315723--3315747	2	12.5	2	100	0	50	48	0	0	52	1.00
3319351--3319380	14	2.1	14	93	0	51	60	23	13	3	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3319348--3319435	23	3.8	23	80	5	90	62	20	7	9	1.50
3319348--3319457	23	4.8	23	78	5	80	61	20	6	11	1.51
3319734--3319834	40	2.4	41	77	11	107	36	16	12	33	1.87
3321101--3321141	18	2.4	18	88	8	59	51	0	0	48	1.00
3322611--3322692	20	4.2	20	69	25	68	58	12	13	15	1.63
3322658--3322696	10	3.9	10	82	0	51	61	5	12	20	1.50
3322875--3322904	14	2.1	14	93	0	51	56	16	13	13	1.67
3333492--3333576	25	3.4	26	72	19	74	54	0	3	42	1.17
3333515--3333568	21	2.3	23	84	12	67	53	0	3	42	1.18
3333543--3333591	25	1.9	26	87	4	73	57	0	0	42	0.99
3349214--3349314	48	2.1	48	94	0	175	33	16	21	27	1.95
3349226--3349326	48	2.1	48	88	0	148	33	17	21	26	1.96
3349509--3349558	16	3.1	16	97	0	91	30	16	16	38	1.90
3349509--3349578	32	2.2	32	84	0	86	30	17	14	38	1.89
3350228--3350379	2	76.0	2	74	17	102	41	6	2	49	1.43
3350561--3350675	2	58.5	2	82	3	144	46	2	1	49	1.26
3352439--3352713	116	2.4	117	87	2	383	36	10	22	31	1.87
3352430--3352786	59	6.1	60	73	11	235	35	11	22	30	1.89
3353956--3353994	20	2.0	20	84	0	51	46	0	2	51	1.14
3354147--3354195	23	2.2	22	88	3	71	38	6	22	32	1.79
3357294--3358053	199	3.8	198	89	3	1130	27	14	16	41	1.87
3357294--3358053	399	1.9	400	90	2	1215	27	14	16	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3357894--3358213	160	2.0	160	95	1	579	25	15	17	42	1.88
3358657--3358701	19	2.4	19	88	3	65	57	8	2	31	1.41
3360168--3360206	18	2.2	18	95	0	69	5	41	0	53	1.23
3361868--3361906	18	2.2	18	86	9	53	41	7	5	46	1.55
3362164--3362212	19	2.6	20	87	12	77	38	18	0	42	1.50
3362592--3363919	177	7.6	179	80	9	1383	27	14	13	44	1.83
3364893--3364936	22	2.0	22	95	0	79	18	34	13	34	1.90
3368687--3368846	84	1.9	87	87	8	240	28	17	23	30	1.97
3369654--3369694	22	1.9	21	90	5	64	70	4	0	24	1.06
3370557--3370643	26	3.3	26	78	12	77	54	0	6	39	1.28
3370567--3370644	26	2.9	26	88	3	111	52	0	7	39	1.30
3370570--3370663	26	3.5	25	84	10	107	54	0	5	40	1.23
3370715--3370801	2	46.0	2	70	15	51	55	2	0	42	1.12
3374572--3374702	69	1.9	68	89	6	201	19	27	28	24	1.99
3376092--3376158	33	2.0	33	88	5	100	49	4	34	11	1.60
3381922--3382026	46	2.3	46	98	0	201	34	10	7	47	1.66
3385677--3385705	15	1.9	15	100	0	58	6	27	0	65	1.18
3400893--3400945	26	2.1	25	82	10	63	45	0	1	52	1.11
3408213--3408255	2	21.5	2	100	0	86	48	0	0	51	1.00
3411167--3411225	6	9.5	6	75	14	57	1	13	1	83	0.81
3411171--3411224	15	3.7	14	80	14	65	1	12	1	83	0.81
3411167--3411225	20	3.0	20	87	5	93	1	13	1	83	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3411169--3411226	19	3.0	19	84	2	80	1	13	3	81	0.91
3413036--3413066	16	1.9	16	93	0	53	48	0	0	51	1.00
3414429--3414467	17	2.4	16	82	4	51	33	0	0	66	0.92
3415821--3415912	39	2.4	39	85	5	132	41	7	11	39	1.71
3420288--3420376	45	2.0	46	93	2	153	26	19	26	26	1.99
3425715--3426118	220	1.9	215	91	2	664	26	11	25	36	1.90
3426732--3426774	14	2.9	15	89	10	70	34	23	0	41	1.55
3429912--3429998	28	3.1	27	70	8	77	32	21	3	42	1.70
3430984--3431019	2	18.0	2	100	0	72	50	0	0	50	1.00
3433819--3433845	2	13.5	2	100	0	54	48	0	0	51	1.00
3435663--3435761	12	8.2	12	70	4	74	23	11	34	31	1.90
3435663--3435746	36	2.3	36	85	4	107	23	10	33	32	1.89
3438311--3438366	27	2.1	27	96	0	103	37	16	14	32	1.88
3442222--3442259	20	1.9	20	94	0	67	36	7	21	34	1.82
3442411--3442458	20	2.4	21	82	6	64	29	25	18	27	1.98
3443282--3443344	27	2.3	27	94	0	108	28	20	19	31	1.97
3445013--3445049	20	1.9	18	89	10	56	40	18	13	27	1.88
3444928--3445265	168	2.0	170	98	1	662	35	17	19	28	1.94
3445181--3445218	20	1.9	19	89	5	58	42	18	13	26	1.87
3444995--3445258	86	3.1	86	66	17	253	36	17	17	28	1.93
3447406--3447439	16	2.1	16	94	0	59	41	8	26	23	1.83
3448364--3448527	32	5.1	31	83	8	186	38	12	16	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3448364--3448527	64	2.6	64	87	1	222	38	12	16	32	1.86
3453295--3453398	52	2.0	52	98	0	199	30	22	22	25	1.99
3456815--3456956	39	3.8	39	85	7	177	31	28	18	21	1.97
3464514--3464805	143	2.0	144	98	2	561	30	20	20	28	1.97
3472101--3472133	17	2.0	16	94	5	57	60	21	6	12	1.53
3480438--3480470	17	2.0	16	94	5	57	60	21	6	12	1.53
3483564--3483596	15	2.1	17	88	11	52	15	9	0	75	1.03
3491432--3491702	135	2.0	135	99	0	533	30	21	10	37	1.87
3494984--3495307	163	2.0	160	98	1	621	41	11	11	35	1.77
3509622--3509663	22	2.0	22	90	4	68	54	4	2	38	1.34
3509798--3509886	44	2.0	44	86	4	126	29	15	30	24	1.96
3513970--3514098	43	3.0	43	97	0	240	43	10	10	35	1.73
3516209--3516247	12	3.2	12	82	17	53	41	0	0	58	0.98
3516754--3516806	3	18.0	3	81	11	65	37	0	0	62	0.96
3516910--3516964	20	2.8	20	76	15	60	36	30	14	18	1.91
3516948--3517042	21	4.6	21	70	16	72	36	21	21	21	1.95
3517013--3517222	20	10.5	20	80	2	161	40	19	18	21	1.92
3517013--3517222	40	5.2	40	83	2	233	40	19	18	21	1.92
3517013--3517225	60	3.6	59	75	3	194	40	19	18	21	1.92
3518077--3518123	24	2.0	24	95	0	85	27	21	17	34	1.95
3518082--3518128	24	1.9	24	91	4	76	25	21	17	36	1.94
3520673--3520766	33	2.8	33	96	0	170	44	19	23	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520673--3520770	19	5.7	19	68	22	81	44	19	23	12	1.84
3520776--3520820	14	3.2	14	96	0	81	6	13	31	48	1.68
3520811--3520869	19	3.4	18	68	22	54	15	20	18	45	1.85
3520797--3520869	33	2.2	33	92	0	119	13	19	20	46	1.83
3520976--3521012	14	2.6	14	82	0	56	45	18	2	32	1.64
3522363--3522429	21	3.2	21	68	4	55	19	20	35	23	1.95
3524445--3524562	19	6.1	19	87	3	164	46	17	22	12	1.82
3524608--3524679	20	3.5	20	84	5	92	12	16	19	51	1.76
3525241--3525412	20	8.5	20	78	5	193	19	18	25	37	1.94
3525242--3525412	40	4.2	41	90	1	265	19	18	24	37	1.94

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