genome.fa.s9605.2.7.7.80.10.50.1000.20.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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  20  of  35  ( 4090 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)
4633849--4633883	6	5.8	6	100	0	70	17	31	0	51	1.45
4634265--4634309	20	2.2	21	88	4	65	17	4	4	73	1.17
4634653--4634778	59	2.1	60	82	7	150	31	22	6	39	1.79
4637029--4637080	18	2.8	18	85	2	68	48	13	0	38	1.43
4637154--4637213	30	1.9	32	90	6	97	35	8	0	56	1.29
4637842--4637872	2	15.5	2	100	0	62	48	0	0	51	1.00
4638264--4638318	28	2.0	28	100	0	110	29	12	18	40	1.87
4641579--4641614	17	2.1	17	100	0	72	41	0	19	38	1.52
4643187--4643527	178	1.9	178	96	0	637	30	10	18	39	1.85
4643726--4643785	31	1.9	32	86	10	88	56	11	8	23	1.61
4646803--4646849	21	2.2	21	96	0	85	19	25	19	36	1.95
4646810--4646857	21	2.3	21	89	7	71	22	22	16	37	1.94
4647188--4647230	23	1.9	22	90	4	68	20	9	11	58	1.61
4647188--4647231	21	2.0	22	86	8	63	22	9	11	56	1.62
4647303--4647384	42	2.0	42	95	0	146	32	7	12	47	1.68
4647750--4647796	16	2.8	17	83	9	60	42	0	2	55	1.12
4651274--4651318	21	2.1	21	87	0	63	31	28	24	15	1.96
4652179--4652334	31	5.0	31	90	1	233	20	19	22	37	1.95
4655290--4655334	21	2.1	21	87	0	63	31	28	24	15	1.96
4656203--4656355	31	5.0	31	86	6	215	20	20	22	35	1.96
4656203--4656344	59	2.3	61	89	4	216	20	21	22	35	1.96
4657316--4657364	22	2.3	21	78	3	53	61	0	4	34	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4657355--4657404	25	2.0	25	84	0	64	38	0	12	50	1.40
4666490--4667144	201	3.3	201	85	4	883	32	16	14	36	1.89
4666285--4667144	403	2.2	387	87	5	1197	32	16	13	37	1.89
4667238--4667272	15	2.3	15	90	0	61	25	11	20	42	1.85
4669506--4669538	15	2.2	15	100	0	66	12	57	6	24	1.57
4671353--4671695	170	2.0	174	97	2	658	41	22	7	27	1.81
4671925--4672372	182	2.6	180	81	10	492	30	16	11	41	1.84
4673822--4673866	23	2.0	22	86	4	63	40	26	8	24	1.84
4673946--4673989	19	2.2	20	84	4	54	54	15	11	18	1.70
4676085--4676119	15	2.4	14	95	4	61	48	0	5	45	1.26
4676088--4676162	29	2.6	28	77	8	80	48	2	5	44	1.39
4676098--4676235	20	7.1	20	69	17	69	44	2	6	47	1.41
4676168--4676230	27	2.2	29	86	5	85	42	1	6	49	1.37
4676191--4676298	7	16.0	7	72	14	68	50	2	4	42	1.37
4676192--4676301	20	5.2	20	71	18	69	50	2	4	41	1.37
4676213--4676308	27	3.7	27	79	12	110	51	3	5	40	1.40
4676331--4676423	18	5.2	18	75	14	77	39	12	8	38	1.74
4676402--4676503	31	3.5	29	77	12	102	41	4	5	48	1.49
4676379--4676548	58	2.9	56	73	17	152	40	5	6	47	1.54
4676520--4676633	7	17.7	6	75	17	63	47	5	4	42	1.46
4676500--4676633	34	3.9	36	75	14	97	46	5	5	43	1.48
4676520--4676635	20	5.7	19	75	10	72	48	5	4	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4676549--4676619	27	2.7	27	91	2	108	50	4	4	40	1.41
4676529--4676618	47	1.9	47	84	4	119	47	4	4	43	1.43
4676610--4676691	24	3.2	25	80	11	87	47	4	7	40	1.53
4676686--4676762	30	2.6	30	87	0	100	40	2	11	45	1.54
4676850--4677210	2	184.5	2	66	20	149	46	3	3	46	1.34
4676944--4677206	11	24.7	10	67	22	73	46	2	4	46	1.36
4676850--4677210	9	39.8	9	67	22	104	46	3	3	46	1.34
4677309--4677801	213	2.3	212	91	3	792	29	10	9	50	1.68
4682910--4682955	3	16.0	3	77	8	51	69	4	26	0	1.07
4682910--4682955	14	3.2	15	87	9	69	69	4	26	0	1.07
4682909--4682955	20	2.3	20	85	0	67	70	4	25	0	1.05
4683429--4683481	20	2.7	20	85	2	63	49	3	13	33	1.60
4688321--4688460	73	1.9	72	81	7	167	39	20	18	21	1.93
4703321--4703361	20	2.0	22	85	9	59	39	34	9	17	1.82
4706083--4706136	26	2.1	26	82	6	65	22	5	5	66	1.34
4706229--4706266	20	1.9	20	84	10	51	28	10	5	55	1.56
4709139--4709172	15	2.3	15	89	0	50	88	5	5	0	0.64
4722143--4722185	21	2.1	20	83	12	52	55	9	9	25	1.61
4722861--4722914	23	2.3	24	96	3	101	59	3	12	24	1.50
4722935--4723268	152	2.2	152	79	8	352	47	6	17	29	1.72
4726127--4726300	89	2.0	89	83	0	222	48	9	18	23	1.77
4728055--4728100	24	1.9	24	100	0	92	30	13	15	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4730357--4730404	21	2.3	22	78	10	55	33	4	0	62	1.14
4733790--4733823	10	3.3	10	91	4	50	29	8	8	52	1.62
4735217--4735256	21	1.9	21	94	0	71	65	0	2	32	1.06
4738236--4738380	78	1.9	78	95	0	263	31	23	28	17	1.97
4738238--4738403	78	2.1	78	89	0	251	33	22	27	16	1.96
4738227--4738388	39	4.2	39	84	3	220	30	24	29	16	1.96
4739762--4739826	30	2.2	30	91	0	103	35	15	6	43	1.72
4742572--4742642	28	2.7	26	84	6	81	33	4	2	59	1.31
4744235--4744286	12	4.2	12	71	9	50	21	11	11	55	1.66
4744213--4744286	26	2.8	26	79	4	67	22	13	10	52	1.71
4744213--4744290	14	5.9	14	68	14	58	23	12	10	53	1.69
4746954--4747005	15	3.3	15	77	15	52	75	0	17	7	1.03
4746969--4747013	17	2.6	17	89	6	65	75	0	13	11	1.05
4748567--4748605	9	4.4	9	90	6	62	23	0	0	76	0.78
4750921--4750979	28	2.1	27	87	3	82	32	6	0	61	1.22
4753209--4753282	14	5.4	13	77	15	69	21	9	8	60	1.53
4755998--4756050	18	2.9	18	97	2	97	79	0	20	0	0.74
4756001--4756059	26	2.3	25	85	11	75	77	0	20	1	0.85
4756001--4756040	8	4.8	8	88	11	62	80	0	20	0	0.72
4755999--4756058	18	3.3	18	90	4	93	80	0	18	1	0.80
4756509--4756570	32	1.9	32	90	0	97	45	19	16	19	1.86
4759108--4759259	78	1.9	79	92	4	254	38	21	18	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4759114--4759244	37	3.4	38	67	22	94	37	22	18	21	1.94
4761294--4761481	73	2.6	72	89	8	303	25	20	21	33	1.97
4761361--4761594	118	2.0	119	87	4	337	24	20	21	33	1.97
4761479--4761736	77	3.4	75	83	2	320	25	20	22	31	1.98
4763399--4763457	29	2.0	30	83	9	77	28	6	3	61	1.38
4763546--4763585	2	20.0	2	89	0	62	55	0	0	45	0.99
4772914--4772948	16	2.2	16	89	0	52	17	2	8	71	1.23
4781893--4782001	13	8.2	13	79	4	92	30	20	16	33	1.94
4781895--4781996	40	2.6	39	93	1	168	31	21	15	31	1.95
4782975--4783084	53	2.1	53	98	0	211	32	19	18	30	1.95
4783786--4783833	21	2.3	21	96	0	87	27	8	12	52	1.67
4789980--4790019	20	2.0	20	100	0	80	30	15	35	20	1.93
4794869--4794901	13	2.5	13	100	0	66	45	9	9	36	1.68
4797323--4797423	22	4.6	22	81	6	116	22	25	28	22	1.99
4797327--4797418	45	2.0	45	85	4	123	21	26	30	21	1.99
4804577--4804620	19	2.3	19	84	4	52	59	9	11	20	1.59
4816067--4816108	9	4.7	9	90	0	57	73	0	19	7	1.05
4816071--4816179	46	2.4	44	82	14	116	77	0	11	11	0.98
4816869--4816967	6	17.2	6	78	14	84	78	0	16	5	0.91
4816860--4816967	11	9.6	11	80	15	107	78	0	16	4	0.91
4816893--4816954	7	8.9	7	78	16	58	83	0	14	1	0.71
4816859--4816967	34	3.1	34	81	13	107	77	0	17	4	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4817480--4817772	131	2.2	132	80	4	324	29	16	20	33	1.95
4817750--4817852	43	2.4	43	80	0	116	28	19	21	31	1.97
4829310--4829446	68	2.0	69	94	1	240	43	7	3	45	1.49
4829548--4829637	30	3.0	30	70	13	76	34	22	3	40	1.70
4830429--4830487	24	2.3	26	74	5	68	49	0	5	45	1.24
4831322--4831375	27	1.9	29	82	14	69	42	1	7	48	1.42
4831420--4831473	27	2.0	27	96	0	99	14	20	25	38	1.91
4839472--4839517	20	2.3	20	85	7	58	36	15	19	28	1.92
4848622--4848673	2	26.0	2	100	0	104	50	0	0	50	1.00
4859007--4859064	2	29.0	2	100	0	116	50	0	0	50	1.00

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