genome.fa.s851.2.7.7.80.10.50.1000.13.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  13  of  31  ( 3618 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)
3336674--3336726	19	2.8	19	88	0	79	16	16	15	50	1.78
3336731--3336775	20	2.2	20	92	0	72	17	20	26	35	1.95
3338680--3338720	20	2.0	20	95	0	73	58	19	12	9	1.61
3338687--3338759	20	3.7	20	72	15	53	45	23	15	16	1.85
3339187--3339237	22	2.3	22	93	0	84	19	13	45	21	1.85
3339199--3339244	22	2.1	22	95	0	83	17	15	47	19	1.82
3339412--3339493	20	4.1	20	80	9	103	25	18	26	29	1.98
3340002--3340105	45	2.3	45	93	0	172	34	12	25	27	1.92
3340391--3340444	16	3.4	16	76	0	54	25	27	12	33	1.93
3340476--3340516	16	2.6	15	88	7	55	29	17	7	46	1.74
3340650--3340706	23	2.5	22	83	13	62	59	0	3	36	1.14
3340891--3340928	20	1.9	20	88	0	58	26	15	13	44	1.83
3341508--3341565	14	4.2	14	84	4	82	18	0	34	46	1.50
3340649--3342084	508	2.7	528	86	9	1950	36	9	12	41	1.75
3341010--3342079	529	2.0	529	87	8	1534	36	9	12	42	1.75
3341649--3341697	21	2.3	21	89	6	73	42	2	6	48	1.39
3341661--3341713	20	2.7	20	82	5	63	37	7	9	45	1.65
3341990--3342014	13	1.9	13	100	0	50	44	32	8	16	1.76
3342168--3342213	2	23.0	2	86	0	56	43	0	6	50	1.28
3342159--3342209	16	3.4	15	84	7	59	41	0	7	50	1.31
3341117--3342179	559	1.9	539	86	8	1476	36	9	12	42	1.74
3342348--3342496	2	76.0	2	78	13	150	45	4	0	49	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3342837--3342879	14	3.1	14	83	6	52	55	2	0	41	1.12
3343298--3343325	2	14.0	2	100	0	56	50	0	0	50	1.00
3343514--3343543	2	15.5	2	93	6	53	53	0	0	46	1.00
3343531--3343581	23	2.3	22	79	3	57	39	5	3	50	1.45
3343541--3343601	24	2.6	22	78	12	59	36	6	6	50	1.54
3343623--3343675	18	2.9	18	86	8	72	45	1	5	47	1.37
3343624--3343675	17	3.1	17	88	5	70	46	1	5	46	1.38
3345650--3345793	60	2.4	60	77	4	148	48	1	13	36	1.51
3350086--3350164	37	2.1	37	90	0	122	34	24	7	34	1.84
3350903--3350946	3	14.7	3	82	17	56	34	0	0	65	0.93
3350896--3350945	12	4.4	12	78	21	63	32	0	0	68	0.90
3350894--3350939	9	5.3	9	80	15	53	32	0	0	67	0.91
3350896--3350942	21	2.2	21	92	7	78	31	0	0	68	0.90
3352740--3352787	25	2.0	24	83	4	60	25	4	8	62	1.41
3356533--3356571	11	3.7	10	83	10	51	79	7	7	5	1.05
3356537--3356588	22	2.4	22	81	12	63	80	5	7	5	1.01
3357253--3357295	23	2.0	23	86	9	63	39	9	27	23	1.85
3357406--3358495	4	273.0	4	98	0	2040	48	25	1	24	1.59
3358822--3358965	38	3.9	37	84	7	177	33	15	13	38	1.86
3358822--3358965	35	3.9	36	83	9	166	33	15	13	38	1.86
3359556--3359620	33	2.0	33	84	0	85	26	21	15	36	1.93
3359678--3359839	63	2.5	63	81	6	166	30	14	12	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3359789--3359869	30	2.7	30	82	0	90	29	19	12	38	1.89
3360447--3360524	28	2.6	31	76	17	85	28	14	14	43	1.83
3360545--3360644	40	2.5	40	80	6	112	26	33	19	22	1.97
3360577--3360750	94	1.9	93	87	1	258	26	30	18	24	1.98
3360669--3360980	135	2.3	134	89	3	484	24	32	18	25	1.97
3361174--3361214	9	4.6	9	80	20	50	31	0	0	68	0.90
3361181--3361211	12	2.6	12	100	0	62	32	0	0	67	0.91
3362998--3363045	25	2.0	24	83	4	60	27	4	6	62	1.38
3366654--3366687	17	2.0	17	88	0	50	35	0	17	47	1.48
3368273--3368325	23	2.2	24	80	13	63	52	1	1	43	1.23
3368281--3368325	23	2.0	23	86	8	65	48	2	2	46	1.26
3368388--3368430	19	2.3	19	92	8	70	62	2	0	34	1.08
3370766--3370813	19	2.5	20	86	3	62	47	6	14	31	1.69
3372161--3372254	40	2.3	40	90	0	143	31	22	12	32	1.92
3372388--3372428	20	2.0	21	90	4	66	36	21	17	24	1.94
3373288--3373353	30	2.4	27	76	16	71	57	0	3	39	1.14
3374777--3374828	20	2.6	20	96	0	95	38	26	13	21	1.90
3374884--3375077	20	9.6	20	76	8	76	35	25	19	19	1.95
3374880--3375077	40	5.0	39	81	4	200	35	26	19	19	1.95
3374884--3375076	60	3.2	60	83	0	251	35	25	19	19	1.95
3375455--3375525	33	2.2	33	92	0	115	11	22	18	47	1.80
3375646--3375700	14	3.6	14	73	21	56	41	23	25	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3375646--3375716	33	2.2	33	94	0	124	43	25	22	8	1.81
3375712--3375809	19	5.7	19	70	22	81	10	24	22	42	1.84
3375734--3375823	14	5.7	14	74	23	81	8	25	23	42	1.83
3375717--3375831	33	3.5	33	95	0	212	9	24	20	45	1.81
3377514--3378075	184	3.0	185	97	1	1067	22	12	18	46	1.82
3377514--3378075	93	6.1	92	97	1	1056	22	12	18	46	1.82
3377514--3378077	276	2.0	277	97	1	1078	22	12	18	46	1.82
3378119--3378214	19	5.3	19	78	13	103	45	28	16	9	1.78
3378210--3378344	19	7.6	19	75	16	128	11	19	23	45	1.82
3378232--3378288	14	3.7	14	77	20	60	10	21	22	45	1.82
3378215--3378307	33	2.8	33	95	0	168	10	20	21	47	1.80
3380247--3380282	14	2.6	14	95	0	63	33	0	22	44	1.53
3380389--3380490	19	5.6	19	84	13	151	44	17	23	14	1.86
3380519--3380811	19	16.4	19	82	14	383	14	20	17	47	1.83
3380497--3380811	52	5.9	52	86	9	321	14	20	17	46	1.84
3383094--3383118	12	2.1	12	100	0	50	0	28	0	72	0.86
3383293--3383339	24	2.0	24	87	8	69	38	21	14	25	1.92
3384022--3384390	20	18.5	20	85	5	442	20	18	25	34	1.96
3384748--3384790	21	2.0	20	82	8	50	72	2	0	25	0.97
3385912--3385939	5	5.6	5	100	0	56	78	0	0	21	0.75
3400205--3400235	11	2.8	11	100	0	62	0	35	0	64	0.94
3400210--3400270	19	3.2	19	75	9	61	4	32	0	62	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3410909--3410998	45	2.0	45	91	0	144	32	12	30	25	1.92
3428199--3428278	40	2.0	40	87	0	115	26	25	27	21	1.99
3430947--3430990	20	2.2	20	83	0	52	34	9	27	29	1.87
3432026--3432076	20	2.6	19	78	9	57	29	11	33	25	1.91
3432542--3432569	12	2.3	12	100	0	56	25	14	17	42	1.87
3435249--3435393	77	1.9	77	81	7	177	42	5	12	40	1.66
3436077--3436108	11	2.9	11	95	0	55	59	0	9	31	1.29
3436771--3436816	18	2.6	18	85	0	56	50	6	0	43	1.28
3436816--3436850	17	2.0	18	88	5	54	42	0	0	57	0.99
3436832--3437068	30	7.9	29	75	13	205	37	7	2	53	1.42
3436832--3436966	59	2.4	53	80	14	144	39	8	0	51	1.37
3437025--3437109	44	1.9	44	85	4	118	30	5	1	62	1.26
3441548--3441580	16	2.1	16	100	0	66	24	6	39	30	1.79
3442070--3442119	4	12.8	4	79	12	59	70	0	2	28	0.99
3442182--3442228	23	1.9	26	83	12	64	74	0	14	10	1.07
3443920--3444071	65	2.4	64	85	6	184	21	18	26	33	1.96
3443949--3444079	65	2.0	66	91	4	212	19	18	27	35	1.95
3443983--3444185	106	1.9	107	85	6	286	19	18	26	36	1.94
3444091--3444313	64	3.5	64	89	3	299	20	18	26	34	1.96
3444145--3444313	65	2.6	64	95	0	293	19	20	25	34	1.96
3445647--3445695	22	2.2	22	92	0	80	28	14	24	32	1.94
3445659--3445702	22	2.0	22	86	0	61	31	13	22	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3446336--3446409	23	3.2	22	72	14	60	1	13	8	77	1.06
3446356--3446424	8	9.0	7	76	20	59	0	15	7	76	0.99
3446350--3446404	16	3.4	17	78	7	53	0	16	9	74	1.06
3448447--3448519	36	2.0	35	84	10	94	23	35	10	30	1.89
3449436--3449485	4	12.8	4	79	12	59	70	0	2	28	0.99
3449574--3449612	16	2.4	17	82	4	53	76	0	5	17	0.96
3454800--3454847	25	1.9	25	95	0	87	22	22	14	39	1.91
3454797--3454852	25	2.2	25	83	0	85	23	19	14	42	1.88
3460623--3460651	12	2.3	13	94	5	51	44	13	0	41	1.44
3460865--3460924	5	11.2	5	78	19	52	76	1	1	20	0.96

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