genome.fa.s8053.2.7.7.80.10.50.1000.23.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  23  of  32  ( 3749 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)
4611905--4612185	39	7.8	35	72	21	156	69	3	7	19	1.26
4612113--4612158	5	9.2	5	82	17	60	78	0	0	21	0.76
4612114--4612161	3	17.7	3	78	20	52	77	0	0	22	0.78
4612127--4612161	11	3.2	11	100	0	70	74	0	0	25	0.82
4611905--4612185	36	7.7	35	70	23	149	69	3	7	19	1.26
4613601--4613890	139	2.1	139	94	0	510	30	19	21	29	1.97
4618437--4618465	2	14.5	2	100	0	58	51	0	0	48	1.00
4618506--4618542	2	18.5	2	100	0	74	51	0	0	48	1.00
4618437--4618582	77	1.9	77	100	0	292	39	9	8	42	1.67
4622974--4623101	30	4.3	30	82	0	157	28	12	10	49	1.73
4623192--4623297	53	2.0	53	100	0	212	24	24	20	30	1.99
4627323--4627371	21	2.2	23	89	7	75	36	0	22	40	1.54
4633918--4633942	13	1.9	13	100	0	50	20	0	0	80	0.72
4641047--4641094	2	24.0	2	100	0	96	50	0	0	50	1.00
4642723--4642781	23	2.6	23	94	0	100	20	13	33	32	1.91
4654054--4654093	2	20.0	2	100	0	80	50	0	0	50	1.00
4659938--4660510	286	2.0	286	100	0	1146	42	12	8	36	1.73
4660583--4660664	29	2.8	29	94	1	137	31	14	12	41	1.83
4661931--4661960	15	2.0	15	93	0	51	56	30	0	13	1.37
4664837--4664886	24	2.1	24	85	7	66	26	2	12	60	1.43
4665361--4665394	17	2.1	16	88	5	50	14	8	0	76	1.01
4667043--4667124	29	2.8	29	94	1	137	31	14	12	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4668895--4668928	16	2.1	16	94	0	59	38	26	0	35	1.57
4672339--4672378	21	1.9	21	89	0	62	37	15	7	40	1.75
4678289--4678348	21	2.9	21	92	0	93	23	15	18	43	1.87
4680467--4680586	45	2.7	45	97	1	224	42	10	10	36	1.73
4680843--4680872	2	15.0	2	100	0	60	50	0	0	50	1.00
4692642--4692699	20	2.9	20	92	0	89	15	27	36	20	1.93
4693025--4693087	24	2.6	24	100	0	126	23	42	0	33	1.55
4695404--4695460	21	2.7	21	97	0	105	15	31	31	21	1.94
4695950--4695995	18	2.6	18	85	0	65	28	28	6	36	1.82
4699722--4699842	36	3.3	36	80	8	138	45	18	4	31	1.70
4703752--4703869	35	3.3	36	81	11	145	44	18	4	33	1.69
4705704--4705821	60	2.0	60	83	3	148	44	9	8	38	1.67
4705940--4706344	198	2.0	202	91	2	667	39	12	10	38	1.77
4711136--4711200	30	2.3	27	76	10	67	44	0	3	52	1.16
4711143--4711202	28	2.2	27	82	8	68	41	0	3	55	1.16
4711268--4711318	23	2.2	23	82	10	68	45	0	1	52	1.12
4711439--4711506	19	3.2	22	73	23	65	48	1	1	48	1.19
4711417--4711499	19	4.2	20	68	23	61	46	1	2	49	1.22
4711716--4711755	14	2.9	14	88	7	55	30	7	2	60	1.38
4712822--4712876	23	2.4	23	81	0	56	21	10	14	52	1.72
4712833--4712891	23	2.7	22	84	5	66	13	6	11	67	1.40
4713261--4713433	50	3.5	50	76	10	151	21	28	30	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4715842--4715888	23	2.0	24	84	12	62	40	34	2	23	1.67
4742890--4742917	6	4.7	6	100	0	56	85	14	0	0	0.59
4747345--4747403	20	2.9	21	80	7	77	74	0	0	25	0.82
4747345--4747401	29	2.0	29	86	6	80	73	0	0	26	0.83
4747395--4747636	132	1.8	134	86	2	353	40	13	11	35	1.80
4764236--4764275	18	2.4	17	91	8	64	27	0	5	67	1.11
4766358--4766388	15	2.1	15	93	0	53	32	16	35	16	1.91
4771026--4771056	14	2.2	14	94	0	53	9	12	19	58	1.62
4773550--4773607	26	2.2	26	100	0	116	20	18	25	34	1.96
4786676--4786716	18	2.3	18	91	4	66	29	4	4	60	1.38
4788928--4788999	26	3.0	24	68	27	62	26	6	4	62	1.39
4789026--4789110	35	2.5	33	78	14	91	27	8	10	54	1.63
4790155--4790277	30	4.1	30	95	1	212	30	26	21	21	1.98
4790266--4790363	31	3.2	30	78	18	128	32	18	20	28	1.96
4791197--4791241	21	2.1	21	87	0	63	15	24	28	31	1.96
4795641--4795763	30	4.1	30	95	1	212	30	26	21	21	1.98
4795752--4795849	31	3.2	30	78	18	128	32	18	20	28	1.96
4796683--4796726	20	2.1	21	87	4	63	15	25	27	31	1.96
4809938--4810308	69	5.4	69	90	1	539	21	25	22	30	1.99
4823303--4823367	27	2.4	27	100	0	130	40	13	12	33	1.82
4824008--4824041	14	2.5	13	86	9	50	11	20	0	67	1.21
4826799--4826837	18	2.2	18	95	0	69	17	30	17	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4837842--4837897	28	2.0	28	96	0	103	25	30	14	30	1.95
4839196--4839254	31	1.9	31	89	0	91	52	10	11	25	1.69
4839840--4839879	14	2.8	14	84	3	53	30	0	22	47	1.52
4839890--4839968	36	2.2	37	93	6	135	56	0	1	41	1.07
4839887--4839976	36	2.6	36	79	20	111	55	0	1	43	1.07
4840348--4840381	17	1.9	18	88	5	52	55	2	0	41	1.15
4845751--4845780	2	15.5	2	93	6	53	46	0	0	53	1.00
4845750--4845793	21	2.1	21	82	0	52	40	2	4	52	1.34
4847862--4847906	23	2.0	23	91	4	74	31	0	0	68	0.89
4851184--4851219	18	2.1	18	89	5	56	33	0	0	66	0.92
4854023--4854060	2	19.0	2	100	0	76	50	0	0	50	1.00
4855817--4855842	13	2.0	13	100	0	52	30	0	7	61	1.24
4862091--4862177	38	2.3	38	90	2	140	36	37	10	14	1.81
4869931--4870000	34	2.1	32	86	5	95	22	30	15	31	1.95
4870283--4870324	21	2.0	21	90	0	66	26	26	21	26	1.99
4870524--4870583	29	2.0	31	90	6	97	41	16	6	35	1.75
4873422--4873468	13	3.6	13	85	0	67	38	17	14	29	1.89
4873414--4873468	26	2.1	26	86	0	74	38	16	18	27	1.92
4875878--4875935	2	29.0	2	89	0	89	44	0	5	50	1.24
4875878--4875989	6	19.3	6	89	7	97	33	0	16	50	1.45
4875881--4875991	16	6.8	16	88	4	105	32	0	17	50	1.46
4876414--4876467	12	4.4	13	86	13	71	1	38	12	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4876419--4876460	6	7.0	6	83	0	57	0	42	16	40	1.48
4876419--4876466	18	2.6	18	80	3	60	2	41	14	41	1.57
4877874--4877907	13	2.5	14	90	4	52	50	0	0	50	1.00
4880746--4880794	23	2.1	23	88	0	71	53	6	0	40	1.26
4882588--4882807	105	2.1	105	97	0	413	33	18	18	29	1.95
4882589--4882837	105	2.4	104	91	3	329	34	18	18	29	1.94
4883201--4883247	22	2.1	22	96	0	85	44	12	10	31	1.77
4886741--4886787	23	2.0	23	87	8	67	44	6	0	48	1.28
4889341--4889369	12	2.4	12	100	0	58	44	0	0	55	0.99
4892084--4892144	21	2.9	21	97	0	113	32	31	14	21	1.93
4892170--4892208	19	2.1	19	95	0	69	20	38	15	25	1.92
4892104--4892332	64	3.5	65	81	10	206	30	25	16	27	1.97
4892286--4892332	19	2.5	19	90	10	71	25	25	19	29	1.98
4892319--4892347	15	1.9	15	100	0	58	27	20	31	20	1.98
4898123--4898202	24	3.5	23	77	14	94	23	26	22	27	2.00
4900746--4900785	21	1.9	21	100	0	80	32	27	15	25	1.95
4900811--4900849	19	2.1	19	90	0	60	20	35	15	28	1.93
4900746--4900910	64	2.5	65	81	6	192	32	24	16	26	1.96
4900796--4900955	64	2.5	63	81	6	171	30	26	15	27	1.96
4913106--4913157	14	3.4	14	78	21	52	67	1	9	21	1.29
4913125--4913159	18	1.9	18	94	0	61	68	0	8	22	1.16
4913131--4913181	9	5.6	9	73	13	50	70	0	7	21	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4913436--4913468	11	2.8	12	90	9	59	63	0	6	30	1.18
4913525--4913585	12	5.3	12	73	11	56	78	0	4	16	0.91
4913523--4913614	41	2.3	40	81	10	100	76	2	5	16	1.08
4914641--4914698	30	2.0	29	89	3	89	53	1	3	41	1.28
4915389--4915688	36	8.4	36	76	13	275	40	13	19	27	1.88
4915389--4915688	73	4.2	74	75	13	299	40	13	19	27	1.88
4915703--4915776	21	3.8	21	66	20	61	41	8	17	32	1.79
4915709--4915804	36	2.6	36	91	1	147	41	9	17	31	1.81
4917082--4917344	95	2.7	95	86	3	339	29	18	18	33	1.94
4921275--4921326	14	3.4	15	78	21	63	67	1	11	19	1.31

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