genome.fa.s8356.2.7.7.80.10.50.1000.23.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  23  of  56  ( 6656 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)
4704610--4704644	17	2.1	17	89	5	54	40	0	0	60	0.97
4704692--4704762	23	3.0	23	76	19	83	54	0	1	43	1.08
4704692--4704756	21	2.9	21	80	15	76	56	0	1	41	1.08
4705743--4705823	39	2.1	39	83	0	99	41	6	32	19	1.76
4709577--4710152	117	4.9	118	89	2	851	22	22	22	31	1.98
4710074--4710277	102	2.0	103	94	0	356	27	17	16	38	1.91
4710414--4710463	23	2.2	23	82	7	57	48	0	20	32	1.50
4711213--4711282	21	3.3	20	80	9	86	22	22	35	18	1.95
4713026--4713126	31	3.3	31	81	8	93	60	0	0	39	0.97
4713049--4713127	32	2.4	31	85	8	95	59	0	0	40	0.97
4713054--4713122	16	4.3	15	68	17	50	59	0	0	40	0.97
4713049--4713147	34	2.9	33	79	11	87	59	1	0	39	1.04
4714056--4714092	19	1.9	19	88	0	56	40	0	0	59	0.97
4714236--4714289	17	3.2	16	78	2	54	37	0	3	59	1.15
4714520--4715163	322	2.0	322	99	0	1270	26	14	27	31	1.95
4716148--4716189	21	2.0	21	90	0	66	26	40	11	21	1.88
4716193--4716307	21	5.5	21	77	12	119	19	31	24	25	1.98
4716199--4716307	42	2.6	42	86	2	157	19	30	24	25	1.98
4716833--4716926	34	2.8	34	88	0	134	57	4	3	35	1.34
4716922--4717267	128	2.7	128	96	0	622	35	19	23	21	1.96
4717398--4717427	15	2.0	15	100	0	60	40	20	0	40	1.52
4717396--4717428	8	4.2	8	92	7	59	36	24	0	39	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4725070--4725114	21	2.1	21	87	0	63	31	28	24	15	1.96
4725698--4725732	18	1.9	18	88	11	54	54	5	17	22	1.64
4725972--4726016	2	22.5	2	100	0	90	51	0	0	48	1.00
4726655--4726969	149	2.1	149	92	2	526	26	17	21	34	1.96
4726937--4726981	23	2.0	23	90	0	72	22	26	26	24	2.00
4729533--4729576	17	2.6	18	86	13	58	65	6	4	22	1.35
4730091--4730139	24	2.0	25	84	15	66	59	4	0	36	1.17
4733603--4733638	16	2.2	16	100	0	72	22	52	11	13	1.72
4737284--4737328	22	2.0	22	82	4	54	28	15	15	40	1.88
4738615--4738695	2	40.5	2	100	0	162	50	49	0	0	1.00
4747102--4747148	22	2.1	22	88	7	69	46	0	21	31	1.51
4750641--4750689	12	4.2	11	78	21	55	77	2	2	18	0.96
4751321--4751412	42	2.2	42	82	3	105	33	17	21	27	1.96
4751280--4751970	212	3.1	232	81	9	875	34	17	16	31	1.92
4759915--4759939	13	1.9	13	100	0	50	28	8	0	64	1.22
4765231--4765286	22	2.6	22	88	2	87	21	37	0	41	1.53
4765231--4765293	22	2.9	22	83	9	58	23	34	0	41	1.55
4766038--4766099	27	2.3	27	94	0	106	22	30	9	37	1.86
4767599--4767636	20	1.9	20	88	0	58	13	26	36	23	1.91
4774770--4774837	25	2.7	24	78	19	75	36	1	2	58	1.22
4792663--4793052	194	2.0	194	98	0	753	30	27	10	31	1.89
4803830--4803874	20	2.2	20	100	0	90	42	22	17	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4806667--4806693	2	13.5	2	100	0	54	51	0	0	48	1.00
4806981--4807020	21	1.9	21	89	0	62	40	10	2	47	1.50
4807122--4807167	21	2.1	21	92	4	74	50	2	13	34	1.53
4808540--4808609	27	2.5	29	75	15	76	51	0	2	45	1.16
4808641--4808683	22	2.0	23	86	9	63	51	0	2	46	1.13
4808731--4808835	53	2.0	52	87	5	149	48	1	2	46	1.27
4810761--4810852	29	3.2	29	96	0	166	27	7	26	39	1.83
4819325--4819376	25	2.1	25	100	0	104	30	26	3	38	1.74
4820166--4820218	21	2.5	21	87	0	79	20	24	18	35	1.95
4820208--4820333	20	6.3	20	90	0	207	42	19	17	21	1.90
4820208--4820358	40	3.8	40	86	3	182	39	19	18	21	1.92
4820538--4820603	22	3.0	22	90	0	105	24	39	15	21	1.91
4820940--4821009	20	3.5	20	82	1	88	11	17	21	50	1.77
4820973--4821016	20	2.2	20	91	0	70	11	13	20	54	1.69
4822898--4823040	20	7.5	20	85	9	183	39	20	20	18	1.92
4822901--4823061	40	4.4	37	75	20	144	40	20	21	17	1.91
4822898--4823078	93	1.9	93	94	0	317	40	20	20	18	1.92
4823087--4823193	20	5.3	20	95	0	133	22	19	21	36	1.95
4823087--4823193	40	2.7	40	89	0	151	22	19	21	36	1.95
4823085--4823203	20	5.9	20	89	2	80	21	19	21	37	1.94
4823679--4823720	21	2.2	19	87	12	59	21	35	19	23	1.96
4823674--4823784	42	2.6	42	77	5	109	21	36	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4825151--4825186	14	2.6	14	90	0	54	30	0	22	47	1.52
4825312--4825365	14	3.5	14	73	22	54	44	20	24	11	1.83
4825292--4825387	33	2.9	34	92	3	158	43	20	22	12	1.86
4825325--4825392	20	3.8	19	72	21	74	47	19	22	11	1.81
4825402--4825497	33	2.8	33	88	3	129	13	22	19	43	1.86
4825471--4825577	20	5.3	20	92	2	162	16	18	24	40	1.91
4828903--4829029	20	6.3	20	95	0	218	23	19	27	29	1.98
4829016--4829128	20	5.7	20	94	0	190	21	19	19	39	1.92
4828918--4829128	40	5.3	40	87	3	146	22	19	23	34	1.97
4828923--4829109	60	3.1	60	81	6	166	22	19	22	34	1.97
4829125--4829170	21	2.2	21	92	0	74	39	17	26	17	1.91
4831537--4831569	12	2.5	14	85	14	52	39	0	0	60	0.97
4832215--4832266	18	2.9	17	73	21	52	42	3	1	51	1.31
4832325--4832384	31	1.9	32	86	3	86	18	16	26	38	1.92
4832591--4832694	51	2.0	51	84	0	136	34	13	14	37	1.85
4832599--4832724	51	2.5	51	81	1	135	33	12	14	39	1.84
4832693--4832912	51	4.3	53	80	5	184	32	4	20	42	1.71
4832730--4832929	51	3.9	51	82	2	195	31	5	22	41	1.75
4832685--4832929	102	2.4	104	76	5	237	31	5	21	41	1.75
4833832--4834131	36	8.3	36	80	5	338	30	11	17	41	1.85
4833832--4834131	108	2.8	108	87	1	404	30	11	17	41	1.85
4840076--4840129	19	2.8	20	75	11	58	37	1	29	31	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4841655--4841696	20	2.1	20	86	0	57	35	19	9	35	1.84
4850089--4850128	20	1.9	22	90	10	66	30	5	35	30	1.79
4853113--4853142	6	5.2	6	96	4	53	66	0	0	33	0.92
4854070--4854117	24	2.0	24	83	0	60	43	4	4	47	1.41
4860635--4860686	20	2.5	21	84	6	70	28	21	17	32	1.96
4862628--4863290	54	12.3	54	91	0	1035	31	12	17	37	1.88
4866222--4866502	48	6.1	48	73	12	230	18	7	43	29	1.78
4866096--4866433	132	2.6	127	89	5	482	19	8	44	27	1.80
4866735--4866771	12	3.1	12	96	0	65	2	24	32	40	1.69
4873084--4873221	53	2.6	53	94	0	240	29	21	18	30	1.97
4873635--4873981	59	5.9	59	90	2	538	35	11	22	30	1.90
4874765--4874812	23	2.0	26	84	12	66	27	10	4	58	1.49
4875328--4875367	2	20.0	2	100	0	80	50	0	0	50	1.00
4875421--4875495	9	8.4	9	89	2	107	37	0	1	61	1.05
4875415--4875513	3	33.0	3	75	4	92	38	0	1	60	1.04
4876233--4876301	34	2.0	34	86	5	95	39	10	27	23	1.87
4877081--4877128	25	1.9	25	83	8	62	54	6	0	39	1.26
4880846--4880870	12	2.1	12	100	0	50	56	0	32	12	1.36
4881128--4881159	15	2.1	15	94	0	55	21	18	6	53	1.67
4888455--4888498	2	22.5	2	86	4	63	52	2	2	43	1.26
4888838--4888885	21	2.2	21	88	3	69	29	10	8	52	1.65
4890045--4890589	112	4.8	113	81	8	593	38	13	18	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4890505--4890862	129	2.7	137	83	8	434	39	13	18	27	1.89
4891063--4891155	3	31.0	3	78	4	71	39	0	1	59	1.05
4892890--4892943	22	2.7	20	78	15	58	51	1	0	46	1.11
4894708--4894791	38	2.2	38	97	0	159	19	10	41	28	1.84
4896446--4896473	13	2.2	13	100	0	56	14	21	7	57	1.61
4898813--4898841	12	2.5	12	94	5	51	27	0	10	62	1.28
4898781--4898958	75	2.4	74	81	9	200	26	4	14	53	1.60
4899055--4899089	6	5.8	6	93	0	61	2	65	14	17	1.38
4899059--4899101	18	2.4	18	92	0	68	6	60	11	20	1.54
4899059--4899111	18	2.9	18	88	0	61	9	56	11	22	1.63

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