genome.fa.s8527.2.7.7.80.10.50.1000.24.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   32   
          33   34   35   36   37   

This is table  24  of  37  ( 4336 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)
5800723--5800778	29	1.9	29	92	0	94	10	21	42	25	1.85
5811314--5811367	19	2.9	18	83	5	56	12	20	38	27	1.89
5811323--5811367	19	2.4	19	88	0	72	15	17	37	28	1.91
5811439--5811470	3	10.7	3	100	0	64	65	0	0	34	0.93
5813728--5814279	266	2.1	254	83	10	675	27	12	19	40	1.88
5814430--5814460	4	7.8	4	100	0	62	51	22	0	25	1.48
5817456--5817917	112	4.1	112	90	1	703	45	12	14	27	1.81
5817865--5818202	162	2.1	164	91	3	549	43	11	16	28	1.83
5818658--5818705	23	2.1	23	88	0	69	39	18	6	35	1.76
5822142--5822354	103	2.1	103	97	0	399	25	14	23	36	1.93
5822371--5822433	23	2.7	23	95	0	108	17	30	26	25	1.97
5823687--5823771	23	3.7	23	83	0	116	55	12	2	29	1.50
5826918--5827002	23	3.7	24	80	12	90	35	24	22	17	1.95
5826912--5827050	46	3.0	48	79	14	141	35	25	22	16	1.95
5826959--5827068	23	4.8	23	86	2	132	37	25	22	14	1.92
5827154--5827196	15	2.8	16	83	13	54	44	18	4	32	1.71
5829033--5829110	23	3.3	23	80	1	84	32	21	20	25	1.98
5829117--5829334	103	2.1	103	95	0	391	37	22	12	26	1.91
5835927--5835962	18	2.0	18	88	0	54	30	16	0	52	1.44
5837235--5837289	8	6.5	8	81	12	58	25	27	32	14	1.95
5839600--5839635	18	2.0	18	88	0	54	30	16	0	52	1.44
5840908--5840945	8	4.5	8	93	6	58	21	28	36	13	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5843263--5843298	18	2.0	18	88	0	54	30	16	0	52	1.44
5844572--5844626	8	6.5	8	81	12	58	25	27	32	14	1.95
5844616--5844640	13	1.9	13	100	0	50	20	24	40	16	1.91
5846943--5846978	18	2.0	18	88	0	54	30	16	0	52	1.44
5848251--5848305	8	6.5	8	81	12	58	25	27	32	14	1.95
5848295--5848319	13	1.9	13	100	0	50	20	24	40	16	1.91
5850620--5850655	18	2.0	18	88	0	54	30	16	0	52	1.44
5851922--5851976	8	6.5	8	81	12	58	25	27	32	14	1.95
5851966--5851990	13	1.9	13	100	0	50	20	24	40	16	1.91
5854293--5854328	18	2.0	18	88	0	54	30	16	0	52	1.44
5855600--5855654	8	6.5	8	81	12	58	25	25	32	16	1.96
5855644--5855668	13	1.9	13	100	0	50	20	24	40	16	1.91
5857109--5857142	3	11.3	3	100	0	68	67	0	0	32	0.91
5860717--5860799	29	2.8	29	92	1	139	43	9	14	32	1.78
5865472--5865554	29	2.8	29	92	1	139	43	9	14	32	1.78
5868450--5868480	2	15.5	2	100	0	62	51	0	0	48	1.00
5872721--5872777	29	2.0	29	83	10	73	40	0	0	59	0.97
5872745--5872802	22	2.7	20	82	12	71	41	0	1	56	1.09
5872724--5872793	24	2.8	24	87	12	88	41	0	0	58	0.98
5872844--5872936	26	3.4	28	68	14	68	49	0	9	40	1.36
5872954--5873037	25	3.5	24	76	14	91	48	1	5	44	1.34
5872954--5873037	24	3.5	24	78	15	84	48	1	5	44	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5873311--5873373	30	2.1	30	85	5	83	61	3	1	33	1.21
5873344--5873511	85	1.9	88	83	5	218	54	5	8	31	1.53
5879148--5879181	18	1.9	18	88	5	52	14	26	32	26	1.95
5896908--5896987	35	2.3	35	85	8	101	42	22	1	33	1.62
5897164--5897454	148	2.0	146	91	2	476	36	7	9	46	1.65
5897934--5898028	35	2.7	34	87	4	127	32	1	25	41	1.63
5908673--5908728	22	2.5	22	78	21	64	50	7	1	41	1.40
5912000--5912037	17	2.2	17	86	9	51	21	2	5	71	1.19
5915349--5915388	18	2.2	18	86	8	55	37	0	0	62	0.95
5916709--5916772	3	21.0	3	96	3	119	67	0	0	32	0.91
5917044--5917598	113	4.9	113	96	0	977	28	19	15	36	1.92
5918006--5918060	22	2.5	22	87	0	83	38	14	10	36	1.81
5920750--5920969	114	1.9	114	93	0	377	30	21	14	33	1.93
5924995--5925060	14	4.9	14	70	10	57	54	9	12	24	1.66
5925107--5925136	8	3.9	8	95	4	53	53	13	20	13	1.72
5925093--5925136	15	2.9	15	83	9	54	54	13	18	13	1.71
5926646--5926699	28	1.9	27	85	7	72	66	1	1	29	1.12
5927480--5927519	18	2.2	18	86	8	55	37	0	0	62	0.95
5928822--5928868	3	15.0	3	86	8	58	72	0	0	27	0.85
5928822--5928868	16	3.0	16	82	14	62	72	0	0	27	0.85
5928829--5928878	16	3.1	16	75	16	50	76	0	0	24	0.80
5928823--5928878	19	3.0	19	92	2	87	75	0	0	25	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5946754--5946796	23	2.0	21	86	9	59	39	11	2	46	1.53
5946905--5946937	11	3.2	11	91	8	52	51	0	0	48	1.00
5947084--5947117	18	1.9	18	88	5	52	41	2	5	50	1.42
5953478--5953544	32	2.1	32	88	0	98	25	32	10	31	1.89
5960206--5960234	12	2.3	13	94	5	51	82	0	3	13	0.79
5961427--5961571	41	3.6	41	80	4	141	32	17	18	31	1.94
5963887--5963917	2	15.5	2	100	0	62	48	0	0	51	1.00
5964845--5964883	20	2.0	19	90	5	60	35	5	2	56	1.35
5967994--5968076	38	2.2	38	82	6	107	55	8	9	26	1.61
5974116--5974172	30	1.9	29	82	10	71	35	3	1	59	1.25
5985811--5985851	2	20.5	2	100	0	82	51	0	0	48	1.00
5997165--5997194	10	2.9	10	95	5	51	56	0	0	43	0.99
6006057--6006083	2	13.5	2	100	0	54	51	0	48	0	1.00
6007662--6007741	30	2.6	32	79	13	89	35	13	10	41	1.78
6010961--6010995	18	1.9	18	100	0	70	34	37	0	28	1.58
6019755--6019787	17	1.9	17	93	0	57	42	9	6	42	1.61
6022458--6022920	232	2.1	219	88	5	665	28	12	19	39	1.89
6024634--6024658	11	2.3	11	100	0	50	92	0	8	0	0.40
6028804--6028842	18	2.0	20	85	9	55	23	17	7	51	1.71
6036431--6036511	33	2.5	33	97	0	153	14	17	24	43	1.87
6038968--6039011	23	2.0	22	86	13	63	29	6	0	63	1.20
6042634--6042779	57	2.6	57	82	2	159	23	22	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6049202--6049286	31	2.7	31	78	5	82	28	31	27	12	1.93
6054503--6054535	16	2.1	16	88	11	50	42	3	6	48	1.43
6054807--6054860	23	2.4	22	75	6	63	62	0	0	37	0.95
6056927--6056964	20	1.9	20	84	10	51	57	2	2	36	1.26
6060508--6060563	23	2.4	23	84	0	76	50	16	8	25	1.74
6064238--6064265	14	2.0	14	100	0	56	42	21	21	14	1.88
6066759--6066821	2	32.0	2	80	15	69	46	1	4	47	1.33
6068700--6068774	35	2.1	35	85	0	96	33	28	28	10	1.90
6068844--6068966	24	5.1	24	85	3	149	39	20	15	24	1.91
6080349--6080383	17	2.1	17	100	0	70	34	5	22	37	1.78
6080386--6080746	183	2.0	183	94	2	636	27	10	22	39	1.87
6080992--6081035	23	1.9	23	86	9	63	31	6	2	59	1.36
6087876--6087990	20	5.7	20	80	6	106	33	25	17	24	1.96
6087855--6088004	61	2.5	61	80	6	153	35	24	18	22	1.96
6088175--6088217	22	2.0	22	95	0	77	20	44	16	18	1.87
6088469--6088527	20	3.0	20	87	0	73	16	18	22	42	1.89
6088665--6088719	25	2.2	24	78	15	58	20	9	18	52	1.71
6089820--6089864	18	2.5	18	85	0	63	26	42	15	15	1.87
6090345--6090390	20	2.3	20	88	0	65	36	26	21	15	1.93
6090399--6090455	14	3.8	14	78	17	69	47	24	17	10	1.79
6090384--6090470	32	2.8	31	94	3	156	44	22	19	12	1.84
6090487--6090544	14	3.9	14	79	16	71	10	17	24	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6090482--6090560	32	2.4	33	95	2	142	11	18	22	46	1.81
6090545--6090588	20	2.2	20	88	4	63	18	25	20	36	1.95
6090554--6090600	20	2.3	20	85	0	58	17	21	23	38	1.93
6092575--6092612	20	1.9	20	94	0	67	50	26	10	13	1.73
6092618--6092682	19	3.7	19	84	15	95	46	18	21	13	1.84
6092706--6092755	20	2.5	20	96	3	93	16	24	28	32	1.96
6093741--6093794	24	2.2	24	90	0	81	22	16	20	40	1.91
6093969--6093993	12	2.1	12	100	0	50	72	0	28	0	0.86
6096250--6096306	19	2.9	20	76	5	62	36	22	21	19	1.95
6096320--6096375	14	3.6	14	74	21	58	8	23	23	44	1.81

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   32   
          33   34   35   36   37