genome.fa.s8752.2.7.7.80.10.50.1000.3.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: VEPZ01008752.1 Hibiscus syriacus cultivar Beakdansim tig00111843_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1143363

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 674 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)
401078--401141	26	2.5	26	97	0	119	31	28	21	18	1.97
403389--403426	19	2.0	19	94	0	67	5	34	21	39	1.76
404763--404887	60	2.1	59	88	2	187	41	13	20	24	1.88
406181--406379	75	2.6	75	88	4	285	33	17	14	34	1.90
406181--406432	115	2.2	112	82	8	303	32	17	15	34	1.90
406190--406506	115	2.8	114	78	10	292	32	17	14	35	1.90
410297--410365	12	5.9	12	81	10	81	11	18	13	56	1.66
410293--410364	22	3.2	22	82	9	85	11	19	11	58	1.62
410504--410591	32	2.8	31	79	6	88	15	25	30	28	1.96
414128--414187	12	5.0	12	87	0	93	8	20	16	55	1.67
414128--414187	24	2.5	24	97	0	111	8	20	16	55	1.67
414815--414869	12	4.6	12	81	0	65	14	18	12	54	1.71
414815--414869	24	2.3	24	83	0	74	14	18	12	54	1.71
416938--417033	34	2.8	34	86	10	126	44	4	7	43	1.51
416932--417209	38	7.7	37	73	16	169	44	2	8	43	1.48
416930--417194	105	2.5	108	79	7	274	44	3	8	44	1.49
416940--417154	68	3.1	69	79	14	173	44	2	8	44	1.49
417212--417282	14	5.0	14	76	11	65	28	0	0	71	0.86
417217--417297	4	19.8	4	72	18	60	25	0	0	74	0.83
417213--417298	28	3.2	26	79	14	95	25	0	0	74	0.82
417213--417293	17	4.9	16	81	7	92	25	0	0	74	0.83
418552--418627	36	2.2	34	83	4	89	19	6	0	73	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423772--424319	85	6.5	85	89	0	778	35	21	17	25	1.95
424879--425192	37	8.5	37	76	16	226	43	2	8	45	1.48
424914--425078	79	2.1	79	84	6	210	45	2	7	44	1.44
424929--425101	41	4.3	39	73	12	129	43	2	6	46	1.43
424991--425119	33	3.7	33	83	13	109	44	0	6	48	1.35
424877--425204	38	8.8	35	77	16	245	43	2	8	45	1.47
425200--425272	28	2.5	30	86	8	105	28	1	0	69	0.96
425223--425274	11	5.0	11	81	6	56	25	0	0	75	0.81
426108--426133	13	2.0	13	100	0	52	30	7	0	61	1.24
426259--426302	16	2.8	15	86	6	52	20	4	2	72	1.13
426293--426330	15	2.4	16	86	8	60	28	7	0	63	1.23
426365--426455	6	14.8	6	70	15	53	19	4	1	74	1.05
426375--426456	26	3.3	25	72	11	71	21	3	1	73	1.06
426379--426447	16	4.5	15	71	20	54	23	4	1	71	1.12
427077--427147	35	2.0	35	82	15	85	28	5	4	61	1.37
427881--427927	18	2.5	19	82	6	60	59	4	0	36	1.17
434943--434991	23	2.1	24	92	3	82	55	4	0	40	1.19
437871--437910	15	2.5	15	88	8	53	80	0	2	17	0.83
437835--437907	17	4.2	18	71	13	64	73	0	1	24	0.90
437869--438004	17	7.9	17	70	16	77	72	1	9	16	1.17
438207--438307	26	4.0	26	79	2	107	48	19	0	30	1.56
438443--438476	2	18.0	2	88	11	54	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438648--438686	18	2.2	18	85	0	51	74	0	0	25	0.82
439099--439181	14	5.6	14	74	20	64	73	2	2	21	1.06
439204--439299	17	5.9	15	70	21	50	72	7	3	16	1.19
439255--439298	16	2.8	16	92	0	61	70	11	2	15	1.26
439371--439413	20	2.3	20	84	11	56	76	0	13	9	1.01
439505--439579	26	3.0	26	92	3	127	50	24	0	25	1.49
439833--439857	2	12.5	2	100	0	50	52	0	0	48	1.00
441143--441173	2	15.5	2	100	0	62	48	0	0	51	1.00
441407--441489	40	2.0	42	93	4	143	21	0	30	48	1.51
441413--441509	42	2.4	40	87	3	122	23	0	24	51	1.48
441532--441588	29	2.0	29	82	6	71	15	12	1	70	1.25
441678--441829	11	12.6	11	67	16	61	19	5	0	74	1.05
445692--445889	99	2.0	99	81	3	229	35	14	16	32	1.89
447138--448052	85	10.8	85	86	1	1165	35	20	17	26	1.95
447138--448052	423	2.2	424	86	2	1257	35	20	17	26	1.95
448681--448709	2	14.5	2	100	0	58	48	0	0	51	1.00
449789--449837	23	2.1	23	85	7	64	24	6	0	69	1.11
449808--449851	16	2.8	15	80	19	54	20	2	0	77	0.88
449808--449852	15	2.8	16	80	10	56	20	2	0	77	0.87
449901--449973	2	36.5	2	100	0	146	49	0	0	50	1.00
450331--450383	12	4.2	12	79	13	54	71	0	1	26	0.96
450330--450411	26	3.4	23	73	20	69	73	0	2	24	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450332--450412	20	3.8	22	71	20	66	74	0	2	23	0.94
450340--450463	6	20.2	6	70	17	51	75	0	5	18	1.05
450385--450451	7	9.0	7	73	16	55	77	1	7	13	1.04
452344--453176	85	9.8	85	87	0	1058	26	17	20	35	1.95
455934--455980	21	2.2	21	77	7	51	10	27	10	51	1.70
457678--457710	11	2.9	12	86	13	52	78	0	0	21	0.75
457678--457743	23	2.7	25	79	9	82	75	1	0	22	0.88
458006--458054	24	2.0	24	88	8	71	53	18	0	28	1.45
458206--458235	2	14.5	2	93	6	51	50	0	3	46	1.18
462866--462906	21	2.0	21	85	0	55	36	24	14	24	1.93
470480--470522	23	1.9	22	86	13	61	23	16	13	46	1.83
475704--475735	15	2.0	17	88	11	50	31	15	6	46	1.71
475820--475859	21	2.0	20	90	5	62	80	2	10	7	1.00
478998--479024	14	1.9	14	100	0	54	37	3	14	44	1.63
479513--479554	3	14.3	3	85	14	61	28	0	0	71	0.86
479513--479549	17	2.2	16	95	4	65	29	0	0	70	0.88
479513--479554	14	3.1	14	93	3	68	28	0	0	71	0.86
486509--486969	57	8.1	57	91	0	688	36	16	10	36	1.83
492185--492296	2	59.5	2	72	21	91	50	4	0	44	1.28
492186--492296	7	15.9	7	77	16	63	49	4	0	45	1.28
492176--492297	29	4.1	29	75	15	85	51	4	0	43	1.26
492218--492288	5	15.0	5	82	8	78	52	1	0	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493818--493848	14	2.1	15	94	5	55	12	12	0	74	1.08
505349--505373	13	1.9	13	100	0	50	8	32	32	28	1.86
506870--506901	6	5.3	6	100	0	64	34	0	15	50	1.45
508262--508299	20	1.9	20	94	0	67	28	26	7	36	1.84
509376--509414	19	2.1	19	100	0	78	53	15	0	30	1.42
514724--514828	30	3.5	30	73	2	86	58	12	10	19	1.62
515604--515655	14	3.6	14	75	14	52	5	11	9	73	1.25
516583--516780	82	2.4	83	83	5	256	22	17	35	23	1.95
516592--516909	40	7.6	40	69	18	157	22	17	34	25	1.96
516679--516929	130	1.9	130	86	1	351	23	16	33	25	1.96
517030--517248	67	3.4	61	78	11	212	44	12	14	28	1.82
518423--518552	27	4.7	26	72	14	91	5	13	6	75	1.17
518441--518552	30	3.5	30	75	13	80	6	12	6	75	1.19
523542--523616	6	12.5	6	83	5	71	53	8	8	30	1.59
523548--523612	18	3.6	18	80	0	85	52	9	6	32	1.58
523541--523617	36	2.1	37	92	2	129	54	7	7	29	1.57
525702--525739	2	19.0	2	100	0	76	50	0	0	50	1.00
532094--532508	206	2.0	206	99	0	812	37	8	21	31	1.85
534650--534710	32	1.9	32	96	0	113	57	9	14	18	1.64
536415--536448	13	2.4	14	90	9	52	73	8	0	17	1.08
537566--537624	20	2.7	23	79	12	61	8	16	0	74	1.05
538125--538152	3	9.3	3	100	0	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538280--538312	2	16.5	2	100	0	66	48	0	0	51	1.00
539203--539422	110	2.0	110	100	0	440	36	16	10	36	1.84
540902--541131	6	38.5	6	85	0	291	0	40	0	58	1.04
540902--541131	9	25.7	9	90	0	291	0	40	0	58	1.04
540902--541131	15	15.4	15	87	0	291	0	40	0	58	1.04
562508--562560	3	17.7	3	86	0	52	32	7	0	60	1.25
562508--562559	18	2.6	21	82	11	65	32	7	0	59	1.26
562505--562560	21	2.5	23	80	8	62	30	7	0	62	1.22
566534--566564	13	2.4	13	94	0	53	32	25	32	9	1.88
568976--569059	42	2.0	43	81	9	100	58	4	3	33	1.36

Tables:   1   2   3   4   5   6