genome.fa.s8620.2.7.7.80.10.50.1000.42.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  42  of  64  ( 7674 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)
8343518--8343555	20	1.9	20	88	0	58	50	21	15	13	1.78
8343819--8343862	22	2.0	22	95	0	79	18	15	45	20	1.85
8344050--8344102	20	2.7	20	93	0	88	24	18	28	28	1.98
8344030--8344141	20	5.5	20	77	5	82	23	17	23	35	1.95
8344070--8344147	41	1.9	41	83	0	102	23	16	20	39	1.92
8344133--8344208	21	3.7	21	78	3	91	17	25	17	40	1.90
8344133--8344228	41	2.3	41	92	1	129	18	22	16	41	1.90
8344152--8344225	20	3.7	20	78	3	85	17	21	18	41	1.90
8348023--8348059	13	2.8	13	91	0	56	8	21	8	62	1.49
8348164--8348188	13	1.9	13	100	0	50	8	20	8	64	1.46
8348205--8348437	117	2.0	116	96	0	430	47	6	17	28	1.73
8353029--8353063	2	17.5	2	100	0	70	51	0	0	48	1.00
8354164--8354230	28	2.4	28	97	2	127	43	35	8	11	1.73
8356947--8356975	6	4.8	6	100	0	58	51	0	0	48	1.00
8357567--8357612	24	1.9	24	100	0	92	34	15	0	50	1.44
8362432--8362494	33	1.9	33	83	6	83	46	7	17	28	1.76
8370225--8370255	16	1.9	16	93	0	53	25	0	12	61	1.32
8375548--8375679	5	24.8	5	72	14	61	21	6	1	70	1.19
8375548--8375622	11	6.8	11	82	7	82	16	6	1	76	1.07
8375579--8375623	6	7.7	6	85	14	67	15	2	0	82	0.77
8375727--8375826	52	1.9	52	80	11	116	52	14	14	20	1.75
8376338--8376454	58	2.0	58	100	0	234	34	13	15	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8377485--8377514	12	2.5	12	100	0	60	23	16	36	23	1.94
8377653--8377797	76	1.9	76	88	2	220	26	1	15	56	1.47
8383964--8384037	23	3.3	22	85	7	87	33	27	16	22	1.95
8384673--8384723	20	2.5	20	83	0	66	25	23	13	37	1.92
8387050--8387348	149	2.0	149	100	0	598	31	18	19	30	1.96
8389403--8389448	24	1.9	24	86	0	65	26	30	23	19	1.98
8390058--8390184	63	2.0	65	90	4	206	16	26	25	30	1.97
8396203--8396261	22	2.6	23	91	5	102	23	30	27	18	1.98
8396265--8396639	187	2.0	186	95	3	682	33	23	13	29	1.93
8397056--8397185	65	2.0	66	89	4	201	17	25	26	30	1.97
8398249--8398303	25	2.2	25	80	6	67	61	0	0	38	0.96
8398237--8398321	34	2.5	34	98	0	161	60	0	0	40	0.97
8399157--8399345	41	4.6	41	81	0	216	25	21	17	35	1.95
8399157--8399345	82	2.3	82	83	0	243	25	21	17	35	1.95
8405502--8405598	46	2.1	45	81	10	117	30	9	16	43	1.79
8405815--8405840	12	2.2	12	100	0	52	19	0	15	65	1.27
8408971--8409021	16	3.2	16	97	0	93	37	19	27	15	1.92
8409545--8409590	21	2.1	22	88	4	67	34	10	4	50	1.57
8411838--8411888	25	2.0	25	100	0	102	39	23	11	25	1.89
8417411--8417488	3	26.3	3	92	7	133	32	1	0	66	1.00
8418447--8418702	108	2.3	110	84	2	336	18	16	20	45	1.86
8425792--8425857	33	2.0	33	87	0	96	31	28	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8431693--8431745	3	17.7	3	100	0	106	67	0	0	32	0.91
8431896--8432259	133	2.8	132	84	1	453	27	16	25	31	1.96
8434913--8435025	21	5.3	20	64	19	50	23	17	24	33	1.96
8441838--8441909	21	3.3	21	75	19	67	25	16	26	31	1.96
8441775--8441904	44	3.0	44	86	0	179	24	17	26	31	1.97
8442948--8443001	25	2.2	25	93	3	92	14	22	5	57	1.58
8453940--8454014	18	4.8	15	74	19	57	80	0	14	5	0.89
8453949--8453977	8	3.6	8	100	0	58	79	0	10	10	0.94
8453938--8454029	10	9.8	9	76	17	64	79	0	13	7	0.93
8453915--8454014	19	5.3	18	74	22	73	76	0	16	8	1.02
8453947--8453996	8	5.8	9	88	9	52	78	0	16	6	0.95
8453992--8454019	12	2.3	12	100	0	56	85	0	7	7	0.73
8455677--8455715	3	13.3	3	94	5	71	33	0	0	66	0.92
8456863--8457112	107	2.3	106	79	5	261	19	17	18	44	1.88
8458937--8458975	2	19.5	2	100	0	78	48	0	0	51	1.00
8472757--8472789	16	2.1	16	94	0	57	45	15	0	39	1.46
8475055--8475115	20	2.9	21	85	7	70	18	27	32	21	1.96
8482268--8482328	31	1.9	32	90	3	97	32	14	0	52	1.42
8484046--8484079	17	2.0	17	100	0	68	47	11	0	41	1.40
8484281--8484329	3	16.3	3	87	8	73	34	0	0	65	0.93
8484285--8484329	19	2.3	19	92	3	72	35	0	0	64	0.94
8484944--8484976	10	3.4	10	87	4	50	21	3	24	51	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8488161--8488190	6	5.0	6	95	0	51	20	16	13	50	1.78
8491669--8491693	11	2.3	11	100	0	50	44	8	20	28	1.79
8493978--8494082	42	2.5	42	92	0	165	23	21	21	32	1.98
8494247--8494361	42	2.7	42	93	0	194	27	20	18	33	1.96
8494363--8494477	47	2.4	48	86	2	153	29	26	13	31	1.93
8494702--8494773	3	24.3	3	90	8	112	34	0	0	65	0.93
8494701--8494773	20	3.7	20	94	1	130	35	0	0	64	0.94
8494705--8494773	17	3.9	17	92	3	111	34	0	0	65	0.93
8496679--8496707	14	2.1	14	100	0	58	34	13	20	31	1.92
8498393--8498451	2	29.5	2	100	0	118	49	0	0	50	1.00
8506127--8506157	2	15.5	2	100	0	62	51	0	0	48	1.00
8515021--8515071	23	2.2	23	82	6	59	49	15	11	23	1.78
8516319--8516362	19	2.3	18	85	14	54	34	4	0	61	1.16
8516580--8516625	23	2.0	23	100	0	92	30	30	13	26	1.93
8527183--8527234	21	2.5	21	90	3	79	17	28	1	51	1.56
8533715--8533740	7	3.7	7	100	0	52	42	0	0	57	0.98
8536948--8537034	45	2.0	44	88	2	129	33	24	19	22	1.97
8539461--8539495	7	5.0	7	92	0	52	14	20	28	37	1.91
8541033--8541094	32	1.9	32	90	0	97	45	19	6	29	1.75
8550264--8550308	18	2.4	18	88	3	63	33	4	44	17	1.69
8559751--8559824	31	2.4	31	81	2	94	27	31	25	16	1.96
8560515--8560567	19	2.8	19	97	0	97	33	28	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8560533--8560676	65	2.2	64	84	8	186	30	24	18	27	1.97
8561914--8561939	6	4.3	6	100	0	52	53	0	46	0	1.00
8565725--8565775	22	2.4	22	80	3	68	35	0	41	23	1.55
8566161--8566202	18	2.3	18	95	0	75	30	19	14	35	1.91
8566179--8566335	64	2.5	64	84	8	187	31	21	17	29	1.96
8566323--8566372	19	2.6	19	96	0	91	22	30	22	26	1.99
8566237--8566357	64	1.9	64	84	8	165	27	24	19	28	1.98
8587068--8587116	19	2.7	17	84	9	53	26	18	30	24	1.98
8587068--8587247	64	2.8	63	73	15	165	27	16	26	30	1.96
8587194--8587244	19	2.7	19	85	8	70	29	15	31	23	1.95
8589845--8589924	24	3.5	22	77	14	83	30	22	26	21	1.99
8595718--8595766	19	2.7	17	84	9	53	26	18	30	24	1.98
8595836--8595874	19	2.1	19	90	0	60	33	15	30	20	1.94
8597910--8597967	20	2.9	20	80	10	73	24	27	20	27	1.99
8603333--8603377	18	2.4	18	88	3	63	35	4	44	15	1.67
8603480--8603542	30	2.1	30	82	11	76	19	26	9	44	1.81
8606466--8606534	32	2.1	33	89	2	104	44	17	7	30	1.75
8607750--8608135	195	2.0	195	95	1	693	26	21	22	29	1.99
8615884--8616027	64	2.2	65	81	4	159	28	19	22	29	1.98
8618359--8618427	32	2.1	33	91	2	113	44	17	8	28	1.78
8622388--8622453	3	21.7	3	81	3	78	34	0	1	63	1.04
8623701--8623961	138	1.9	137	81	11	324	38	6	8	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8625223--8625269	23	2.0	23	100	0	94	63	0	12	23	1.28
8629613--8629682	23	3.0	23	68	0	59	45	14	12	27	1.81
8670846--8671658	46	17.7	46	88	0	1189	21	21	12	44	1.86
8670970--8671054	26	3.5	25	67	23	65	17	21	16	44	1.86
8671093--8671211	20	5.3	20	67	24	69	19	23	15	42	1.89
8671042--8671249	20	9.3	19	67	23	65	20	24	13	41	1.89
8674994--8675026	16	2.1	16	94	0	57	45	6	21	27	1.75
8675780--8676000	64	3.5	64	81	4	207	35	19	17	27	1.95
8676476--8676508	15	2.2	15	100	0	66	15	18	33	33	1.92
8686737--8686779	21	2.0	21	86	0	59	23	16	20	39	1.92

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64