genome.fa.s8428.2.7.7.80.10.50.1000.25.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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  25  of  30  ( 3508 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)
5809833--5809973	29	5.1	29	66	11	71	41	16	4	36	1.70
5809970--5809999	7	4.1	7	95	4	51	26	26	30	16	1.97
5810004--5810057	18	3.0	18	91	0	72	14	22	44	18	1.86
5817210--5817284	25	2.8	26	84	8	80	48	9	2	40	1.50
5817239--5817294	25	2.2	26	80	6	60	46	14	3	35	1.62
5817140--5817295	29	5.7	27	70	16	90	43	14	5	36	1.68
5817140--5817345	110	1.9	111	87	3	308	43	15	5	35	1.70
5817178--5817346	29	6.0	29	69	12	86	42	16	4	36	1.68
5819968--5820013	18	2.6	18	92	0	74	17	50	19	13	1.78
5819990--5820019	13	2.3	13	94	0	51	16	43	23	16	1.87
5822488--5822546	24	2.4	25	76	15	70	22	11	16	49	1.78
5826621--5826645	2	12.5	2	100	0	50	52	0	0	48	1.00
5828620--5828768	29	5.5	26	69	15	95	45	13	5	35	1.66
5828690--5828765	27	2.8	27	86	6	91	47	9	2	40	1.49
5828719--5828775	26	2.1	27	80	3	62	45	14	3	36	1.61
5828620--5828826	111	1.9	111	88	2	317	42	15	5	36	1.70
5828658--5828827	29	6.0	29	68	13	79	42	16	4	37	1.67
5828852--5828910	18	3.3	18	83	4	75	16	20	42	20	1.89
5836001--5836052	26	2.0	25	85	3	68	46	13	7	32	1.72
5836088--5836146	29	2.0	29	86	3	82	54	6	1	37	1.37
5838831--5838860	13	2.3	13	100	0	60	16	46	23	13	1.82
5841328--5841386	24	2.4	25	76	15	70	22	11	16	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5841546--5841570	2	12.5	2	100	0	50	48	0	0	52	1.00
5844467--5844507	2	20.5	2	100	0	82	51	0	0	48	1.00
5846487--5846515	2	14.5	2	100	0	58	48	0	0	51	1.00
5856530--5856603	2	37.0	2	100	0	148	50	0	0	50	1.00
5866239--5866263	2	12.5	2	100	0	50	52	0	0	48	1.00
5870133--5870163	2	15.5	2	100	0	62	51	0	0	48	1.00
5885028--5885052	2	12.5	2	100	0	50	52	0	0	48	1.00
5889286--5889395	27	4.3	24	79	13	112	40	20	17	22	1.92
5889307--5889387	27	3.0	27	90	0	135	40	19	13	25	1.89
5890101--5890257	29	5.6	29	81	7	180	47	15	0	35	1.51
5890070--5890226	83	1.9	85	89	4	246	45	15	0	38	1.51
5896470--5896561	24	3.7	24	81	8	103	41	19	15	23	1.89
5896500--5896553	27	2.0	27	96	0	99	42	20	11	25	1.85
5897276--5897458	29	6.3	30	75	10	139	46	16	1	34	1.57
5897466--5897492	13	2.1	13	100	0	54	14	22	48	14	1.81
5906298--5906530	28	8.4	28	92	2	389	42	15	3	37	1.65
5906298--5906530	55	4.2	56	93	3	407	42	15	3	37	1.65
5906522--5906615	28	3.3	28	85	2	125	42	15	3	38	1.64
5910654--5910847	86	2.3	85	87	3	264	44	14	4	37	1.64
5910680--5910859	29	6.4	28	89	3	263	43	15	4	37	1.66
5910680--5910859	57	3.2	56	90	3	263	43	15	4	37	1.66
5910680--5910859	86	2.1	84	90	2	279	43	15	4	37	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5910851--5910946	29	3.3	29	85	0	102	39	14	4	41	1.65
5915842--5915874	2	16.5	2	93	0	57	51	3	0	45	1.16
5934275--5934302	2	14.0	2	100	0	56	50	0	0	50	1.00
5938096--5938158	2	31.5	2	100	0	126	50	0	0	49	1.00
5939660--5939695	6	6.2	6	87	6	56	2	13	0	83	0.76
5939653--5939695	11	4.0	11	85	11	54	2	13	0	83	0.74
5941109--5941160	21	2.5	21	83	0	59	42	13	13	30	1.83
5951609--5951723	47	2.4	48	89	4	171	24	16	20	39	1.92
5951609--5951723	24	4.8	24	89	6	171	24	16	20	39	1.92
5957249--5957358	14	7.6	14	80	5	96	25	22	30	21	1.99
5957247--5957374	28	4.4	28	84	5	132	24	22	31	21	1.98
5957274--5957372	15	6.7	15	84	1	112	23	25	29	22	1.99
5961498--5961543	22	2.0	22	83	12	56	52	13	2	32	1.52
5965292--5965319	2	14.0	2	100	0	56	50	0	0	50	1.00
5973168--5973250	23	3.6	23	81	0	94	31	24	24	20	1.98
5976632--5976694	24	2.6	24	97	0	117	11	9	25	53	1.66
5977418--5977476	10	5.7	10	73	15	57	10	11	20	57	1.63
5977424--5977480	16	3.7	16	88	4	82	10	10	19	59	1.59
5977543--5977575	16	2.1	16	100	0	66	6	12	24	57	1.57
5978119--5978159	20	2.0	20	85	4	55	48	2	2	46	1.28
5979604--5980189	108	5.1	116	85	7	684	18	33	18	28	1.95
5980260--5980329	30	2.3	30	97	0	131	20	54	2	22	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5980260--5980378	30	4.0	30	81	4	123	21	52	5	20	1.66
5982405--5982444	6	6.7	6	85	0	53	22	7	35	35	1.82
5982405--5982446	12	3.5	12	100	0	84	23	9	33	33	1.87
5988067--5988100	15	2.3	15	89	0	50	44	0	2	52	1.16
5988094--5988156	19	3.3	19	97	0	117	39	0	0	60	0.97
5989856--5989881	5	5.2	5	100	0	52	0	19	57	23	1.40
5990146--5990411	2	137.0	2	69	22	160	51	5	2	41	1.37
5990151--5990336	19	9.3	19	69	19	85	52	5	1	40	1.33
5990203--5990379	55	3.0	58	72	20	152	49	4	2	43	1.37
5990147--5990410	33	8.2	31	70	19	125	51	5	2	41	1.37
5990457--5990496	21	1.9	21	90	10	64	55	0	2	42	1.13
5995828--5995857	11	2.6	12	89	10	53	13	10	10	66	1.44
5998544--5998584	18	2.3	18	100	0	82	43	0	29	26	1.55
5999309--5999347	20	1.9	20	89	5	60	15	25	38	20	1.92
6003177--6003210	17	2.1	16	88	5	50	76	0	8	14	1.01
6013436--6013470	18	2.0	17	88	5	52	77	0	8	14	0.99
6017541--6017581	21	2.0	21	85	0	55	48	12	17	21	1.79
6019414--6019452	13	2.9	14	84	7	62	38	12	0	48	1.42
6020746--6020810	34	1.9	34	96	0	121	46	12	9	32	1.73
6029107--6029243	68	2.0	68	97	0	256	29	10	15	43	1.81
6039285--6039965	54	12.5	54	87	2	898	36	16	15	31	1.90
6039230--6039965	109	6.8	108	85	3	906	36	17	15	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6039285--6039965	163	4.2	163	89	1	1033	36	16	15	31	1.90
6040375--6040426	20	2.6	21	78	9	63	25	28	13	32	1.93
6041707--6041789	32	2.6	32	82	3	87	31	16	16	34	1.92
6045873--6045911	2	19.5	2	100	0	78	51	0	0	48	1.00
6046083--6046129	12	3.9	12	82	0	67	51	19	14	14	1.77
6046085--6046143	24	2.5	24	86	5	75	47	18	18	15	1.83
6048611--6048653	18	2.4	18	96	0	77	11	23	48	16	1.78
6048605--6048634	13	2.3	13	94	0	51	16	23	43	16	1.87
6053306--6053375	12	5.8	12	76	6	70	15	15	17	51	1.77
6053269--6053377	24	4.5	24	77	6	105	19	16	16	47	1.83
6054378--6054406	12	2.4	12	100	0	58	51	0	6	41	1.28
6076109--6076161	2	27.0	2	96	3	99	49	0	0	50	1.00
6076814--6076860	21	2.3	21	82	17	55	31	14	10	42	1.80
6080137--6080388	45	5.3	45	78	14	247	16	27	28	26	1.97
6080208--6080426	102	2.1	102	89	1	341	16	27	28	27	1.97
6080906--6080950	23	2.0	23	86	0	63	40	6	15	37	1.74
6080867--6081028	87	1.9	87	92	2	272	40	10	13	35	1.79
6081046--6082157	199	5.5	203	79	8	1159	31	16	13	39	1.87
6081046--6082157	404	2.8	404	90	3	1633	31	16	13	39	1.87
6084621--6084654	17	2.0	17	88	0	50	47	23	0	29	1.52
6084674--6084711	20	1.9	20	100	0	76	50	26	0	23	1.50
6086367--6087110	200	3.9	184	85	7	874	31	16	13	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6086200--6087110	379	2.3	383	87	5	1289	32	16	13	37	1.88
6086532--6087124	200	3.0	201	88	2	881	31	16	13	38	1.88
6090024--6090992	201	4.8	201	88	2	1430	32	15	14	37	1.88
6090024--6090992	402	2.4	401	93	1	1647	32	15	14	37	1.88
6091174--6091222	19	2.6	19	93	0	80	55	12	2	30	1.48
6092785--6092841	18	3.2	18	94	0	96	5	38	0	56	1.22
6093091--6093127	15	2.4	15	90	4	56	13	35	2	48	1.57
6093140--6093204	21	3.1	21	86	0	94	15	32	7	44	1.75
6095585--6095807	112	2.0	112	89	0	338	21	16	16	45	1.85
6097037--6097075	21	1.9	20	89	5	60	56	2	0	41	1.13

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