genome.fa.s9585.2.7.7.80.10.50.1000.26.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  26  of  35  ( 4106 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)
5957279--5957514	98	2.4	99	80	12	256	44	2	9	43	1.50
5957279--5957647	125	3.0	124	92	4	615	43	2	9	44	1.50
5957647--5957687	13	3.2	13	96	3	75	46	0	7	46	1.30
5957586--5957687	22	4.5	22	73	10	71	43	0	7	48	1.38
5957651--5957688	12	3.1	12	96	3	67	50	0	7	42	1.31
5957784--5957816	17	1.9	17	93	0	57	36	6	12	45	1.66
5959961--5959991	15	2.1	14	94	5	53	54	6	0	38	1.26
5960168--5960300	45	3.0	44	80	14	134	47	12	0	40	1.41
5960454--5960519	4	16.5	4	75	9	55	1	34	0	63	1.04
5960462--5960520	21	2.9	21	94	2	102	1	35	0	62	1.05
5960523--5960568	23	2.0	23	100	0	92	8	39	4	47	1.54
5960673--5960707	18	1.9	18	100	0	70	28	25	17	28	1.97
5960712--5960785	37	2.0	37	97	2	141	24	13	45	16	1.83
5960836--5960944	29	3.8	29	98	0	209	22	32	32	13	1.93
5960958--5961150	61	3.1	61	90	4	298	10	33	22	33	1.89
5961005--5961213	93	2.3	92	92	3	348	11	33	21	33	1.89
5961227--5961261	13	2.8	13	95	4	63	14	37	17	31	1.89
5966875--5966907	2	16.5	2	100	0	66	48	0	0	51	1.00
5967676--5967700	6	4.2	6	100	0	50	32	0	68	0	0.90
5972339--5972412	36	2.1	36	82	5	87	22	22	20	33	1.97
5979012--5979073	14	4.7	14	69	15	51	58	12	12	16	1.64
5979027--5979081	24	2.3	24	83	0	65	58	14	14	12	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5980289--5980406	20	5.8	20	78	8	94	38	22	19	20	1.94
5980354--5980602	20	12.4	20	86	3	250	37	25	18	19	1.94
5981287--5981332	24	2.0	23	87	12	67	26	15	21	36	1.93
5983804--5984014	33	6.2	34	79	13	213	45	18	22	13	1.84
5983818--5984020	19	11.7	19	72	22	187	44	18	22	14	1.86
5983818--5983982	52	3.2	53	94	3	282	46	18	21	13	1.84
5983942--5983996	14	3.6	14	73	21	56	45	20	23	10	1.82
5984010--5984126	53	2.2	53	98	1	227	13	23	17	44	1.85
5984029--5984126	19	5.4	19	84	13	143	14	22	17	45	1.84
5984233--5984269	14	2.6	14	91	0	65	45	21	0	32	1.52
5992533--5992604	36	2.0	36	100	0	144	27	8	19	44	1.79
5994142--5994200	29	2.1	29	96	3	111	50	13	10	25	1.72
5998983--5999234	126	2.0	126	96	3	463	25	24	15	34	1.94
6002324--6002399	31	2.4	32	82	4	91	22	11	27	38	1.89
6002394--6002462	27	2.4	29	83	9	97	17	11	26	44	1.82
6017341--6017373	13	2.5	13	100	0	66	9	24	21	45	1.80
6018047--6018121	20	3.8	20	89	0	114	29	26	5	38	1.78
6023060--6023214	35	4.6	33	70	20	108	39	3	7	50	1.46
6023241--6023322	34	2.4	35	82	13	100	41	7	6	45	1.57
6023058--6023313	68	3.9	67	77	15	246	39	4	8	47	1.54
6023673--6024134	231	2.0	231	100	0	924	29	16	15	39	1.89
6028362--6028405	5	8.8	5	87	0	52	0	43	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6028363--6028400	20	1.9	20	88	0	58	0	47	0	52	1.00
6034171--6034335	59	2.8	59	81	10	167	33	21	6	38	1.80
6034372--6034415	21	2.0	22	86	4	63	52	2	0	45	1.13
6034387--6034479	21	4.2	20	78	15	78	44	2	1	52	1.20
6034565--6034604	20	2.1	18	86	9	53	52	0	0	47	1.00
6035444--6035477	9	3.9	9	84	7	52	67	2	0	29	1.05
6035436--6035477	8	5.2	8	83	11	50	69	2	0	28	1.01
6037484--6037613	66	2.0	66	100	0	260	45	2	3	49	1.30
6041382--6041406	2	12.5	2	100	0	50	48	0	0	52	1.00
6041828--6041853	2	13.0	2	100	0	52	50	0	0	50	1.00
6044926--6044973	18	2.7	18	80	9	62	41	0	4	54	1.20
6046227--6046256	3	10.0	3	100	0	60	66	33	0	0	0.92
6047838--6047893	28	2.0	28	92	0	94	17	35	12	33	1.88
6049114--6049237	64	1.9	64	82	9	155	37	17	16	28	1.92
6049612--6049691	29	2.8	29	86	3	108	47	15	18	18	1.83
6055712--6055866	64	2.4	64	77	8	163	34	19	18	27	1.95
6056247--6056356	29	3.8	29	95	2	195	45	16	20	17	1.85
6056427--6056460	15	2.3	15	94	0	59	32	8	29	29	1.87
6056456--6056489	15	2.3	15	89	0	50	14	17	32	35	1.91
6072395--6072424	2	15.5	2	93	6	53	50	0	0	50	1.00
6073276--6073338	21	3.1	20	90	9	101	30	26	19	23	1.98
6073276--6073360	40	2.1	41	86	6	120	30	24	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6073377--6073446	21	3.3	21	73	15	81	21	18	20	40	1.92
6073355--6073450	42	2.3	43	96	1	176	20	18	22	37	1.94
6073388--6073459	19	3.6	19	73	14	72	25	20	19	34	1.96
6073558--6073588	5	6.4	5	96	3	55	35	22	41	0	1.54
6074055--6074095	6	7.0	6	91	2	66	0	17	48	34	1.47
6074412--6074455	22	2.0	20	87	12	61	38	0	0	61	0.96
6081479--6081513	12	2.9	12	86	0	52	42	0	8	48	1.33
6081842--6081919	33	2.4	33	78	4	86	17	28	30	23	1.97
6083166--6083208	19	2.2	20	87	4	61	46	0	2	51	1.13
6094713--6095109	198	2.0	198	100	0	794	30	17	18	33	1.94
6106912--6106955	20	2.3	19	84	7	54	45	6	25	22	1.77
6112729--6112772	22	2.0	22	81	0	52	52	15	4	27	1.63
6114554--6114611	29	2.0	29	100	0	116	10	13	31	44	1.78
6114983--6115057	3	24.3	3	83	5	96	62	1	4	32	1.22
6114985--6115045	32	1.9	32	86	0	86	62	1	4	31	1.26
6115271--6115581	129	2.4	129	95	0	550	24	19	30	25	1.98
6115271--6115584	40	7.4	41	71	10	215	24	19	30	25	1.98
6115761--6115822	30	2.1	28	82	5	70	33	14	17	33	1.90
6116314--6116441	64	2.0	64	89	1	195	42	10	14	32	1.80
6116339--6116562	120	1.9	119	81	8	276	42	12	14	30	1.83
6116663--6116893	67	3.5	66	85	5	297	45	12	11	31	1.77
6116609--6116882	67	4.2	65	84	5	288	44	12	11	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6116867--6117060	29	6.8	29	93	2	288	44	15	10	29	1.80
6117299--6117396	36	2.8	35	80	6	110	32	13	19	34	1.90
6117300--6117418	36	3.4	36	77	6	102	35	13	21	30	1.91
6117370--6117602	105	2.3	101	83	9	276	36	12	19	31	1.88
6119155--6119190	12	2.9	12	87	4	54	5	11	11	72	1.28
6119152--6119212	25	2.5	24	76	10	61	3	19	8	68	1.29
6119815--6119885	20	3.0	24	69	22	78	40	11	23	23	1.87
6119802--6119876	20	3.5	20	70	20	62	37	10	25	26	1.89
6119812--6119891	26	3.3	26	68	20	82	42	10	23	23	1.84
6119800--6119893	46	2.1	45	91	2	152	38	9	25	26	1.87
6121295--6121356	32	2.0	32	96	3	117	61	9	14	14	1.57
6122871--6122914	22	2.0	22	81	0	52	52	15	4	27	1.63
6124696--6124753	29	2.0	29	100	0	116	10	13	31	44	1.78
6125125--6125196	3	23.3	3	83	5	90	62	1	4	31	1.23
6132824--6132863	20	2.0	20	85	0	53	60	17	20	2	1.48
6138230--6138317	45	2.0	45	88	4	133	26	26	18	29	1.98
6140135--6140197	31	2.0	31	100	0	126	42	22	15	19	1.88
6143831--6143873	20	2.2	20	87	8	61	46	4	0	48	1.22
6144114--6144202	34	2.8	32	72	21	78	49	1	1	48	1.16
6144125--6144202	34	2.4	31	81	10	86	50	1	1	47	1.17
6144190--6144257	23	3.0	24	82	6	79	54	0	1	44	1.09
6144201--6144267	23	2.9	23	82	12	68	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6145449--6145499	4	12.8	4	83	8	68	70	0	1	27	0.98
6145642--6145708	3	23.0	3	72	22	54	67	1	2	28	1.14
6145658--6145710	22	2.5	21	79	17	56	66	0	5	28	1.15
6147323--6147408	23	3.7	23	74	13	86	26	25	27	19	1.99
6152234--6152278	22	2.1	22	87	4	65	24	28	26	20	1.99
6152697--6152783	23	3.7	23	72	15	72	27	25	25	21	2.00
6154420--6154449	3	9.7	3	92	7	51	66	3	0	30	1.07
6154529--6154630	32	3.2	32	80	2	125	51	3	0	43	1.26
6154653--6154711	25	2.3	26	86	13	88	47	6	3	42	1.46
6154615--6154737	62	2.0	63	87	7	180	47	3	3	45	1.35

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