genome.fa.s8005.2.7.7.80.10.50.1000.2.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: VEPZ01008005.1 Hibiscus syriacus cultivar Beakdansim tig00110467_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778185

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 727 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)
282591--282686	31	3.1	30	74	12	88	32	20	19	27	1.97
283036--283072	2	19.0	2	94	5	67	51	0	0	48	1.00
283552--283589	20	1.9	20	88	0	58	10	31	34	23	1.89
287183--287282	30	3.3	30	98	0	191	29	24	23	24	1.99
287183--287299	60	2.0	60	89	0	180	30	23	23	22	1.99
287534--287558	4	6.2	4	100	0	50	48	24	0	28	1.52
291720--291749	15	2.0	15	93	0	51	46	16	13	23	1.82
291720--291773	14	3.8	14	82	2	63	50	9	12	27	1.71
293362--293409	23	2.1	23	84	7	62	70	0	2	27	0.98
293365--293402	16	2.4	16	91	4	60	73	0	0	26	0.83
293895--293948	27	2.0	27	89	3	83	51	0	0	48	1.00
294131--294168	2	19.0	2	88	0	58	50	0	0	50	1.00
294131--294176	12	3.8	12	91	0	56	45	0	0	54	0.99
294221--294253	16	2.1	16	88	11	50	60	0	0	39	0.97
322347--322396	17	3.0	17	76	2	57	50	4	2	44	1.32
330797--330834	16	2.4	16	100	0	76	47	7	0	44	1.32
340981--341007	2	13.5	2	100	0	54	48	0	0	51	1.00
341618--341665	18	2.7	18	87	3	62	27	25	16	31	1.97
343588--343627	21	1.9	21	85	10	55	52	0	10	37	1.35
347391--347449	23	2.7	22	78	19	70	30	22	22	25	1.99
349996--350116	64	1.9	65	87	5	183	31	20	19	28	1.97
350166--350261	21	4.5	22	85	12	130	31	28	17	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378861--379357	93	5.3	93	93	0	823	38	16	8	36	1.79
379810--379866	30	1.9	30	85	0	78	47	8	8	35	1.66
384938--384967	15	2.0	15	93	0	51	46	10	0	43	1.37
402134--402175	17	2.4	18	84	8	59	40	0	2	57	1.12
404059--404092	14	2.4	14	86	13	52	55	17	0	26	1.42
412101--412145	22	2.0	23	86	4	65	35	6	0	57	1.25
412106--412160	22	2.6	21	82	2	65	41	3	0	54	1.18
413341--413397	2	28.5	2	100	0	114	49	0	0	50	1.00
414600--414643	21	2.1	21	86	0	61	36	15	6	40	1.74
414973--415027	27	2.0	28	92	3	94	63	9	0	27	1.24
416189--416230	2	21.0	2	100	0	84	50	0	0	50	1.00
421522--421579	23	2.6	23	91	8	93	15	22	13	48	1.80
424607--424674	27	2.7	25	79	6	75	38	0	1	60	1.06
426073--426116	19	2.3	19	96	0	79	29	25	9	36	1.86
430446--430491	6	7.7	6	100	0	92	50	0	32	17	1.47
451495--451547	21	2.6	20	74	11	54	43	3	0	52	1.19
462074--462122	19	2.5	20	79	20	59	75	2	2	20	1.00
470218--470258	18	2.3	18	80	16	50	43	2	0	53	1.13
470813--470950	66	2.1	66	81	5	154	26	32	26	15	1.95
479444--479494	21	2.4	22	90	6	79	37	13	37	11	1.82
491687--491728	21	2.0	21	81	9	50	47	4	4	42	1.45
492623--492677	18	2.8	20	83	8	69	38	1	3	56	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492629--492677	20	2.6	18	87	6	62	34	2	4	59	1.28
505162--505200	12	3.2	12	85	3	51	17	0	7	74	1.05
506554--506723	23	7.5	23	82	6	195	48	1	28	22	1.58
506554--506725	45	3.8	44	78	10	177	47	1	28	22	1.59
506553--506723	68	2.5	68	84	8	231	48	1	28	22	1.58
509643--509683	16	2.4	17	80	19	50	60	0	0	39	0.96
510147--510197	21	2.4	21	100	0	102	52	0	0	47	1.00
509895--510444	267	2.0	269	87	7	781	41	17	11	29	1.84
523250--523627	125	3.0	125	88	0	524	33	16	24	25	1.96
524812--524965	36	4.3	36	90	4	222	35	24	20	19	1.95
525184--525800	51	11.8	51	81	7	571	34	18	24	23	1.97
525196--525755	155	3.6	155	85	6	661	33	19	24	22	1.97
525505--525799	111	2.8	106	80	7	262	35	18	22	23	1.96
525792--526395	55	11.2	54	78	10	481	30	14	26	28	1.95
525762--526337	217	2.7	216	81	8	572	30	15	26	27	1.96
525828--526337	109	4.8	108	81	8	519	30	15	26	27	1.96
528919--529122	106	1.9	108	97	2	394	26	11	13	48	1.77
531589--531629	2	21.0	2	85	5	57	46	0	0	53	1.00
531581--531628	23	2.1	23	92	0	78	47	0	0	52	1.00
533588--533628	16	2.6	16	92	3	66	39	7	19	34	1.80
543792--543836	23	2.0	23	86	0	63	26	28	24	20	1.99
543815--544118	149	2.0	149	96	0	554	34	19	17	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544763--544790	2	14.0	2	100	0	56	50	0	0	50	1.00
545122--545156	18	1.9	18	88	11	54	22	17	5	54	1.64
545736--545780	21	2.1	21	87	0	63	15	24	28	31	1.96
549026--549067	21	2.0	21	100	0	84	42	14	19	23	1.87
551516--551540	2	12.5	2	100	0	50	52	0	0	48	1.00
554000--554599	312	1.9	312	81	2	722	21	24	18	36	1.95
559371--559411	18	2.3	18	80	20	50	31	2	0	65	1.05
559364--559449	41	2.0	43	82	8	106	37	3	0	59	1.15
569260--569547	149	1.9	151	85	2	393	22	12	17	46	1.82
570720--570991	149	1.8	149	87	1	411	23	14	15	46	1.83
570956--571031	37	2.1	37	100	0	152	13	13	30	43	1.81
572056--572530	239	2.0	239	87	3	681	27	13	17	42	1.86
580223--580368	4	36.5	4	100	0	292	25	0	24	50	1.50
581354--581388	13	2.7	13	81	0	52	48	51	0	0	1.00
582794--582834	21	2.0	20	85	4	55	34	12	9	43	1.75
597204--597238	15	2.3	15	90	0	52	54	0	2	42	1.15
597315--597381	24	2.8	24	72	2	62	40	4	0	55	1.20
601741--601897	21	7.5	21	78	5	167	31	21	21	25	1.98
602525--602571	16	2.9	16	93	6	78	0	19	55	25	1.43
602525--602571	5	8.8	5	93	6	67	0	19	55	25	1.43
602600--602805	21	9.8	21	71	15	149	38	20	18	22	1.94
602615--602831	42	5.2	42	89	0	326	37	22	18	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610092--610127	18	2.0	18	94	0	63	44	8	8	38	1.65
610089--610131	18	2.6	16	79	13	50	46	6	9	37	1.63
613059--613123	32	2.0	33	85	8	89	52	3	0	44	1.16
614628--614670	6	7.0	6	84	5	59	39	0	0	60	0.97
616942--617018	34	2.3	34	95	0	136	38	10	10	40	1.74
619704--619758	17	3.4	17	75	10	60	50	1	10	36	1.48
619705--619765	32	1.9	32	89	0	95	49	4	11	34	1.61
626115--626225	53	2.1	53	80	9	120	50	1	0	47	1.11
626113--626175	23	2.6	24	78	19	60	50	1	0	47	1.10
626147--626193	22	2.1	23	88	4	69	44	2	0	53	1.12
626183--626236	23	2.3	23	84	6	65	55	1	1	40	1.21
626207--626301	45	2.1	45	79	11	106	45	0	1	53	1.07
626476--626527	27	2.0	26	88	11	79	50	5	0	44	1.26
626692--626742	14	3.6	14	84	5	66	41	7	11	39	1.71
632740--632853	58	1.9	59	82	5	142	50	7	9	33	1.62
633889--633973	30	2.8	30	87	3	109	25	24	23	25	2.00
635247--635320	32	2.3	32	79	2	87	18	43	25	12	1.85
635448--635521	38	1.9	39	86	2	105	24	39	16	20	1.92
635617--635658	23	1.9	21	85	9	57	50	14	9	26	1.73
635753--635795	21	2.2	19	87	8	59	67	0	32	0	0.91
636026--636079	21	2.8	18	71	15	54	46	1	1	50	1.23
637035--637113	5	15.8	5	98	0	131	44	0	15	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637795--637895	21	4.9	21	71	14	84	36	20	20	21	1.95
637861--638116	20	12.6	20	75	8	214	38	25	17	18	1.93
637861--638113	41	6.2	41	86	3	327	38	24	17	18	1.93
638185--638231	21	2.2	21	84	0	67	19	27	17	36	1.93
638165--638314	82	1.8	80	80	12	180	28	26	16	29	1.97
639113--639166	24	2.2	24	86	0	81	18	18	20	42	1.89
639357--639392	14	2.5	14	90	4	54	58	22	11	8	1.59
641597--641705	20	5.4	21	81	8	129	36	22	21	19	1.95
641597--641705	40	2.7	40	81	0	146	36	22	21	19	1.95
641723--641854	19	7.4	19	73	17	131	15	21	17	46	1.84

Tables:   1   2   3   4   5   6   7