genome.fa.s851.2.7.7.80.10.50.1000.27.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  27  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)
6301322--6301379	31	1.9	29	86	13	82	58	10	15	15	1.62
6302424--6302474	16	3.1	16	94	2	84	43	5	5	45	1.52
6302424--6302474	17	3.1	17	94	5	86	43	5	5	45	1.52
6303211--6303269	28	2.1	28	83	0	73	61	10	15	13	1.57
6305081--6305142	3	20.7	3	74	12	56	62	3	1	32	1.20
6314098--6314240	64	2.2	65	86	6	193	26	17	23	32	1.96
6314205--6314253	20	2.5	20	96	0	89	18	16	32	32	1.93
6316879--6316927	20	2.5	20	100	0	98	22	16	28	32	1.95
6316815--6316907	40	2.2	42	83	14	113	24	19	25	30	1.98
6322359--6322838	241	2.0	239	96	2	892	38	9	12	38	1.76
6323205--6323358	47	3.3	47	71	14	115	44	1	2	50	1.26
6323369--6323417	24	2.1	24	84	3	64	53	0	2	44	1.12
6323536--6323593	24	2.4	23	80	8	62	43	1	1	53	1.21
6328922--6328977	28	1.9	29	85	7	78	44	16	19	19	1.87
6330169--6330206	19	2.1	19	85	14	53	63	5	0	31	1.17
6330796--6330882	30	2.8	31	83	10	99	29	33	25	11	1.91
6338585--6338770	85	2.2	85	87	5	270	31	18	19	30	1.96
6339693--6339753	22	2.8	21	82	9	77	27	31	22	18	1.97
6341017--6341078	2	32.0	2	90	6	101	48	1	0	50	1.10
6346226--6346267	20	2.2	19	91	4	66	45	9	23	21	1.81
6356502--6356596	33	2.9	33	95	3	165	29	25	16	28	1.97
6356727--6356778	14	3.4	14	73	19	50	42	15	19	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6359938--6359966	14	2.1	14	100	0	58	13	37	13	34	1.85
6360008--6360059	14	3.4	14	73	19	50	42	15	19	23	1.89
6360994--6361025	12	2.7	12	95	0	55	28	0	6	65	1.16
6362652--6362707	19	2.9	19	83	0	76	46	7	0	46	1.30
6362702--6362740	8	4.9	8	87	0	51	41	12	7	38	1.72
6362651--6362716	19	3.5	19	77	8	71	43	7	1	46	1.41
6367247--6367296	2	25.0	2	100	0	100	50	0	0	50	1.00
6370039--6370095	3	19.0	3	100	0	114	66	0	0	33	0.92
6375071--6375106	14	2.5	15	91	8	58	11	2	5	80	0.98
6381448--6381668	55	4.1	51	71	13	165	30	9	17	42	1.81
6381412--6381670	110	2.3	109	83	5	306	30	10	18	40	1.85
6381877--6382470	39	15.4	39	91	1	912	32	17	16	34	1.92
6381877--6382470	77	7.7	78	90	3	882	32	17	16	34	1.92
6383184--6383208	13	1.9	13	100	0	50	0	0	16	84	0.63
6384687--6384761	28	2.6	29	74	19	75	45	0	4	50	1.20
6389455--6389526	30	2.8	24	74	22	72	25	0	12	62	1.30
6389472--6389520	15	3.3	15	72	11	55	24	0	10	65	1.23
6389466--6389526	30	2.0	30	100	0	122	26	0	13	60	1.33
6391511--6391611	48	2.1	48	96	0	184	27	18	10	42	1.84
6396115--6396155	19	2.0	21	81	13	59	34	12	21	31	1.91
6399265--6399337	36	2.0	36	86	5	103	46	4	1	47	1.30
6401457--6401496	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6403996--6404025	2	15.0	2	100	0	60	50	0	0	50	1.00
6404146--6404174	13	2.2	13	100	0	58	13	31	0	55	1.39
6410592--6410714	35	3.5	35	80	2	138	42	17	22	17	1.89
6419572--6419644	36	2.0	36	91	0	119	46	15	9	28	1.77
6419677--6419709	2	16.5	2	100	0	66	51	0	0	48	1.00
6422806--6422846	21	1.9	22	85	5	57	26	4	65	2	1.25
6424315--6424367	21	2.5	22	90	6	83	47	20	1	30	1.61
6424885--6424943	30	2.0	30	83	6	75	20	8	1	69	1.23
6426937--6426988	22	2.4	22	96	0	95	40	17	9	32	1.82
6428454--6428510	29	1.9	30	85	3	80	45	31	3	19	1.67
6434441--6434524	13	6.8	13	75	15	72	66	3	1	28	1.15
6434437--6434524	29	3.0	29	74	12	81	68	3	1	27	1.13
6437655--6437733	36	2.2	36	97	0	149	37	7	16	37	1.77
6441196--6441239	22	2.0	22	86	0	61	13	9	9	68	1.40
6444623--6444680	20	2.8	21	84	10	75	31	24	20	24	1.98
6444698--6444745	20	2.3	21	85	3	62	33	29	20	16	1.95
6447783--6447855	16	4.6	16	89	1	112	31	19	12	36	1.88
6449082--6449154	3	24.3	3	100	0	146	67	0	0	32	0.91
6454301--6454330	13	2.3	13	94	0	51	30	10	6	53	1.60
6457628--6457814	55	3.4	55	83	7	202	31	19	18	31	1.95
6457805--6457830	13	2.0	13	100	0	52	23	15	23	38	1.92
6457754--6457882	68	1.9	68	90	0	204	32	19	17	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6457818--6457959	55	2.6	55	93	0	239	32	20	20	26	1.97
6457697--6457940	123	2.0	123	92	0	407	31	19	19	29	1.96
6458383--6458434	20	2.6	20	100	0	104	25	26	17	30	1.97
6458285--6458529	115	2.1	116	86	1	332	26	24	16	32	1.96
6458308--6458529	114	1.9	114	87	1	320	26	23	17	32	1.97
6462183--6462233	21	2.4	21	93	0	84	15	27	25	31	1.96
6462674--6462730	18	2.9	19	80	14	80	47	8	12	31	1.72
6463354--6463412	23	2.5	22	76	15	57	55	11	5	27	1.56
6465195--6465248	24	2.5	20	79	11	54	20	22	24	33	1.97
6469184--6469279	29	3.3	29	89	0	147	27	20	20	31	1.98
6469644--6469709	32	2.1	32	82	5	80	53	4	6	36	1.46
6470945--6470979	16	2.1	16	89	10	52	40	0	14	45	1.45
6471087--6471125	15	2.6	15	79	0	51	38	12	7	41	1.72
6471873--6472735	2	426.5	2	62	24	133	45	5	4	44	1.46
6471844--6472055	28	7.5	28	72	21	135	45	6	5	42	1.52
6471984--6472055	33	2.2	33	92	5	119	43	5	5	45	1.50
6472112--6472272	13	11.7	14	67	20	65	42	1	4	51	1.32
6472072--6472477	56	7.4	55	68	16	168	45	4	4	45	1.44
6472072--6472244	29	6.1	29	72	14	121	42	1	5	51	1.31
6472072--6472242	27	6.1	27	71	13	105	42	1	5	51	1.32
6472453--6472587	33	4.1	33	77	17	147	44	4	5	45	1.46
6472471--6472529	25	2.4	24	83	13	84	45	3	5	45	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6472452--6472571	62	1.9	63	89	5	190	44	3	5	47	1.41
6472391--6472735	11	31.5	11	63	27	53	46	5	3	45	1.42
6474611--6474715	39	2.7	39	78	8	115	47	0	18	33	1.55
6474746--6474791	2	23.0	2	100	0	92	50	0	0	50	1.00
6475549--6475577	14	2.0	15	93	6	51	62	3	0	34	1.12
6481727--6481817	31	2.9	31	83	3	110	16	18	10	53	1.71
6481734--6481817	32	2.7	32	84	1	107	16	19	10	53	1.71
6487167--6487255	38	2.6	33	82	17	119	19	19	22	39	1.93
6487611--6487653	6	7.0	6	97	2	77	32	0	51	16	1.45
6487687--6487716	14	2.1	14	100	0	60	0	50	0	50	1.00
6487687--6487724	17	2.5	15	87	12	51	0	47	0	52	1.00
6495092--6495141	3	16.7	3	100	0	100	68	0	0	32	0.90
6496535--6496574	21	2.0	21	85	9	57	40	10	20	30	1.85
6497304--6497415	53	2.1	53	88	0	170	26	17	18	36	1.94
6502194--6502249	26	2.2	26	90	0	85	37	12	28	21	1.90
6504217--6504321	53	2.0	53	90	3	167	25	16	20	38	1.92
6506022--6506074	20	2.7	20	100	0	106	43	16	13	26	1.85
6511452--6511501	20	2.5	20	90	0	73	36	20	12	32	1.89
6512420--6512452	5	6.6	5	100	0	66	36	0	21	42	1.53
6522109--6522158	23	2.2	23	96	3	93	20	36	24	20	1.95
6522117--6522182	19	3.3	19	79	12	53	21	31	30	16	1.95
6528649--6528743	45	2.1	47	88	4	140	16	5	25	52	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6529226--6529592	55	6.7	55	86	0	432	28	25	17	28	1.97
6529224--6529607	165	2.4	165	84	6	482	29	25	16	27	1.97
6530959--6531217	7	36.3	7	92	5	389	12	13	0	74	1.08
6530959--6531295	7	52.0	6	83	10	199	10	14	0	74	1.06
6531219--6531284	20	3.2	20	79	8	71	4	16	0	78	0.90
6540925--6541027	46	2.2	46	84	3	136	40	21	11	26	1.87
6543779--6543871	46	2.0	47	91	2	152	17	4	27	50	1.64
6556850--6556879	11	2.7	11	89	0	51	50	0	3	46	1.18
6559577--6559912	166	2.0	167	98	1	647	35	19	19	25	1.95
6563751--6563867	55	2.0	59	85	9	161	47	9	11	31	1.72

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