genome.fa.s4048.2.7.7.80.10.50.1000.2.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: VEPZ01004048.1 Hibiscus syriacus cultivar Beakdansim tig00008843_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  625444

Tables:   1   2   3   

This is table  2  of  3  ( 358 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)
355430--355502	31	2.4	31	86	6	96	47	9	13	28	1.74
359208--359241	6	5.7	6	100	0	68	32	50	0	17	1.47
359991--360017	2	13.5	2	100	0	54	0	48	0	51	1.00
362468--362508	12	3.3	12	89	3	55	0	56	2	41	1.13
362444--362535	24	4.0	22	77	14	71	0	51	3	45	1.17
362474--362510	12	3.1	12	88	0	56	0	54	5	40	1.24
364235--364263	15	1.9	15	100	0	58	48	13	6	31	1.69
364389--364775	183	2.1	184	92	2	638	43	2	7	46	1.47
364781--364814	9	3.7	9	96	4	59	23	8	17	50	1.74
364873--364914	22	2.0	21	90	4	66	30	28	19	21	1.97
365456--365509	21	2.6	21	93	0	90	27	16	27	27	1.97
365541--365612	22	3.4	22	73	11	87	18	19	25	37	1.94
365562--365630	19	3.5	19	71	11	66	18	18	21	40	1.91
365521--365630	41	2.7	41	92	4	177	17	20	23	39	1.92
365501--365616	20	5.7	20	72	15	94	14	20	23	41	1.89
365743--365787	6	7.7	6	97	2	83	31	51	17	0	1.46
366740--366848	38	2.9	38	77	0	110	27	20	11	41	1.86
366852--366884	11	2.8	12	86	9	50	12	12	0	75	1.04
367371--367406	17	2.1	17	94	0	63	22	8	5	63	1.43
367377--367425	11	4.3	11	78	16	55	26	4	2	67	1.19
367378--367433	25	2.2	24	81	12	60	26	5	1	66	1.23
371287--371348	32	2.0	32	96	3	117	14	14	9	61	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371527--371911	210	1.8	211	80	3	472	31	21	22	24	1.98
373412--373481	12	6.4	11	73	17	56	70	10	17	2	1.28
373394--373446	26	2.0	27	92	3	90	69	9	18	1	1.25
373415--373456	19	2.2	19	91	0	66	69	9	19	2	1.28
373440--373481	12	3.6	11	87	9	57	69	11	14	4	1.34
374656--374730	12	5.6	12	70	22	51	45	26	1	26	1.62
374655--374730	16	5.2	16	72	23	78	46	26	1	26	1.61
374655--374734	28	2.9	28	96	0	142	45	26	2	26	1.66
375086--375223	36	3.9	35	80	7	161	31	19	12	36	1.89
375089--375223	71	1.9	72	86	4	193	32	20	12	34	1.90
375190--375435	105	2.4	103	83	6	293	29	20	11	38	1.87
375381--375500	36	3.4	36	80	6	122	30	21	12	35	1.91
375759--375826	25	2.5	26	86	11	93	26	11	14	47	1.79
375745--375839	28	3.5	26	79	13	102	26	10	14	48	1.76
375926--375977	27	1.9	27	96	0	95	28	9	11	50	1.70
375970--376097	37	3.6	37	71	15	126	31	11	12	44	1.78
375953--376150	67	3.0	66	88	5	276	30	12	12	44	1.79
376331--376454	63	2.0	62	84	4	160	30	14	11	43	1.80
376611--376669	15	3.9	15	95	0	100	30	20	5	44	1.73
377005--377086	28	2.9	28	83	3	94	24	12	13	50	1.76
377122--377467	43	8.1	45	68	14	144	26	29	19	25	1.98
377105--377265	83	1.9	83	85	7	223	24	31	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377129--377436	130	2.4	130	88	1	456	25	29	19	25	1.98
377638--377707	3	24.0	3	80	11	83	28	2	1	67	1.14
377632--377707	38	2.0	38	92	5	127	27	3	2	65	1.23
384726--384762	20	1.9	19	89	10	58	45	10	24	18	1.81
385963--385989	13	2.1	13	100	0	54	48	7	14	29	1.71
386309--386365	19	3.1	17	73	12	51	56	0	1	42	1.10
386986--387048	32	2.0	32	84	6	83	39	23	14	22	1.91
388677--388730	17	3.3	17	76	10	58	33	1	12	51	1.51
402389--402426	2	19.0	2	100	0	76	50	0	0	50	1.00
403679--403709	15	2.1	15	93	0	53	32	3	0	64	1.09
404123--404214	3	30.7	3	88	0	139	34	3	0	61	1.12
405812--405864	17	3.1	18	72	10	56	54	0	5	39	1.24
406314--406372	16	3.6	16	84	13	68	27	1	0	71	0.96
406308--406370	23	2.7	24	80	7	67	26	1	0	71	0.95
406325--406373	13	3.8	13	76	10	55	26	0	0	73	0.83
407964--408016	14	3.7	14	85	5	70	22	13	9	54	1.67
413517--413787	83	3.3	82	95	2	479	28	13	22	36	1.92
414794--414955	74	2.2	74	84	4	202	33	17	20	28	1.95
415818--415969	50	3.0	50	92	3	236	36	13	21	28	1.91
416338--416392	22	2.5	22	87	0	83	32	12	16	38	1.86
416795--418239	113	12.8	113	89	3	1969	37	14	19	28	1.91
418492--418580	3	29.7	3	90	0	142	33	3	0	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420176--420228	17	3.1	18	72	10	56	54	0	5	39	1.24
422966--423087	40	3.0	41	68	12	99	47	6	13	32	1.68
423519--423562	3	14.3	3	85	4	61	70	2	27	0	0.99
427769--427816	7	6.9	7	100	0	96	43	29	0	27	1.55
427864--427894	2	15.5	2	100	0	62	51	0	0	48	1.00
430333--430380	23	2.1	23	92	0	78	39	4	14	41	1.65
431143--431607	113	4.1	113	91	0	711	25	14	13	46	1.81
431143--431607	225	2.1	225	91	1	745	25	14	13	46	1.81
438502--438676	60	2.9	60	100	0	350	30	13	33	22	1.93
439684--439831	72	2.0	74	94	3	264	37	30	13	18	1.90
441791--441844	21	2.6	21	85	8	74	27	20	20	31	1.97
441832--441884	20	2.7	20	87	0	79	43	18	16	20	1.88
441894--441977	20	4.2	20	83	8	116	28	27	20	23	1.99
441873--441963	41	2.2	41	92	3	148	30	27	20	20	1.98
441873--441947	21	3.7	20	77	13	73	32	26	21	20	1.97
441894--442009	61	1.9	61	80	0	133	31	24	18	25	1.98
442142--442221	22	3.6	22	84	0	115	20	41	18	20	1.91
442581--442648	20	3.5	20	87	2	93	19	19	25	36	1.94
442616--442671	20	2.8	20	88	0	76	12	14	21	51	1.74
444672--444718	20	2.3	20	85	0	58	36	25	17	21	1.94
444690--444773	20	4.5	20	68	17	63	34	22	21	21	1.97
444680--444814	54	2.5	54	88	0	216	37	20	20	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444869--444912	20	2.1	21	91	4	72	13	6	20	59	1.57
446839--446904	30	2.2	30	100	0	132	28	3	13	54	1.54
447000--447237	20	12.9	20	73	15	172	22	21	21	35	1.96
446966--447086	34	3.4	34	74	14	100	22	21	20	35	1.96
446956--447121	73	2.3	74	82	1	199	21	21	19	37	1.95
447017--447229	54	4.0	54	90	0	320	20	22	21	36	1.96
449426--449462	14	2.5	15	91	4	58	5	18	21	54	1.64
449652--449705	24	2.2	24	93	0	90	40	20	18	20	1.91
450538--450673	20	6.7	20	77	9	132	23	21	25	30	1.99
450526--450673	61	2.4	61	91	0	233	22	20	25	31	1.98
450620--450694	21	3.6	21	69	16	66	21	21	25	32	1.98
450604--450694	41	2.2	41	90	0	137	23	20	25	30	1.98
450789--450835	19	2.4	19	82	3	58	25	14	29	29	1.95
450801--450837	19	1.9	19	94	0	65	21	16	29	32	1.95
451946--452178	104	2.2	104	95	0	421	29	16	26	27	1.97
452349--452409	29	2.1	29	81	0	68	45	8	3	42	1.50
452649--452796	74	2.0	74	100	0	296	35	8	13	43	1.74
455939--455971	14	2.2	15	89	10	50	69	0	0	30	0.88
456558--456616	23	2.8	20	80	16	66	28	1	6	62	1.30
456562--456630	22	3.2	21	77	10	68	27	1	5	65	1.24
460173--460232	30	2.0	31	86	3	86	45	6	18	30	1.75
460367--460393	11	2.5	11	100	0	54	37	11	0	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461918--461987	30	2.3	30	100	0	140	41	7	14	37	1.73
463004--463046	21	2.0	21	86	0	59	16	30	34	18	1.93
467975--468021	2	23.5	2	100	0	94	48	0	0	51	1.00
468460--468590	60	2.2	60	81	8	142	30	19	6	43	1.75
471431--471470	17	2.3	17	86	4	53	35	0	0	65	0.93
471498--471552	28	2.0	28	85	0	74	36	20	7	36	1.80
482148--482201	2	27.0	2	100	0	108	50	0	0	50	1.00
483159--483236	25	3.0	27	78	15	78	46	3	0	50	1.20
484349--484387	14	2.8	14	84	7	53	46	0	7	46	1.31
484396--484423	14	2.0	14	100	0	56	64	0	7	28	1.20

Tables:   1   2   3