genome.fa.s8387.2.7.7.80.10.50.1000.3.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: VEPZ01008387.1 Hibiscus syriacus cultivar Beakdansim tig00111151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2491990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1390 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)
394114--394180	19	3.5	19	81	4	80	37	22	23	16	1.94
394169--394226	14	3.9	14	79	16	71	48	25	17	8	1.75
394153--394231	32	2.4	33	93	2	133	46	22	18	11	1.81
394243--394371	19	7.3	19	71	18	82	13	20	23	43	1.86
394260--394317	14	3.9	14	75	16	62	10	17	24	48	1.78
394243--394333	32	2.8	33	91	3	157	12	18	21	47	1.81
394318--394371	20	2.8	19	86	5	72	16	24	24	35	1.95
394838--394881	17	2.5	18	85	3	63	11	15	45	27	1.81
396407--396450	22	2.0	22	100	0	88	18	13	45	22	1.84
396618--396731	20	5.7	20	77	10	99	26	16	23	33	1.96
396720--396812	20	4.5	21	78	4	100	17	24	18	39	1.91
396659--396793	41	3.3	41	85	4	157	20	20	20	37	1.94
396720--396812	41	2.3	41	100	0	186	17	24	18	39	1.91
401110--401172	33	1.9	33	81	12	76	44	9	30	15	1.79
404066--404104	17	2.5	15	84	12	51	30	25	25	17	1.97
404050--404110	15	3.9	16	77	12	63	31	26	24	18	1.97
417076--417188	60	1.9	60	82	8	142	38	11	8	40	1.73
425843--425957	29	4.0	30	80	6	139	39	21	6	33	1.78
428625--428670	24	1.9	24	90	0	74	52	4	21	21	1.64
430186--430225	21	1.9	21	84	0	53	35	20	17	27	1.95
432627--432760	59	2.3	59	82	8	157	40	17	0	42	1.49
441001--441040	19	2.1	19	95	0	71	35	2	15	47	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445636--445762	39	3.3	39	68	4	121	14	8	33	42	1.77
445945--445999	18	3.1	18	83	0	74	27	16	40	16	1.89
446707--446740	15	2.3	15	89	0	50	44	0	2	52	1.16
447542--447594	26	2.0	26	100	0	106	30	15	22	32	1.94
450545--450585	13	3.3	13	73	13	50	26	4	9	58	1.50
450544--450613	24	3.0	23	89	6	106	25	4	15	54	1.60
451361--451385	13	1.9	13	100	0	50	8	24	0	68	1.16
458803--458842	19	2.1	19	95	0	71	35	2	15	47	1.58
468477--468603	39	3.3	39	68	4	121	14	8	33	42	1.77
468786--468840	18	3.1	18	83	0	74	27	16	40	16	1.89
469549--469582	15	2.3	15	89	0	50	44	0	2	52	1.16
470381--470433	26	2.0	26	100	0	106	30	15	22	32	1.94
471778--471812	18	1.9	18	94	0	61	34	8	2	54	1.46
473395--473435	13	3.3	13	73	13	50	26	4	9	58	1.50
473394--473463	24	3.0	23	89	6	106	25	4	15	54	1.60
474210--474234	13	1.9	13	100	0	50	8	24	0	68	1.16
481385--481409	6	4.2	6	100	0	50	68	0	0	32	0.90
481605--481773	91	1.9	91	86	2	241	30	21	8	39	1.83
482580--482631	26	2.0	26	85	3	70	25	15	17	42	1.88
486705--486763	27	2.0	28	84	12	75	47	0	8	44	1.33
490502--490536	18	1.9	18	100	0	70	34	5	2	57	1.37
492421--492455	18	1.9	18	88	0	52	34	8	2	54	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500212--500236	6	4.2	6	100	0	50	68	0	0	32	0.90
500433--500603	92	1.9	92	86	2	245	29	22	8	39	1.83
501414--501465	26	2.0	26	85	3	70	25	15	17	42	1.88
505542--505600	27	2.0	28	84	12	75	47	0	8	44	1.33
514038--514072	18	1.9	18	100	0	70	34	5	2	57	1.37
515804--515860	24	2.4	23	91	5	96	24	5	14	56	1.59
515989--516023	18	1.9	18	88	0	52	34	8	2	54	1.46
524543--524634	45	2.0	45	100	0	184	32	30	10	26	1.90
533587--533634	20	2.4	20	100	0	96	18	18	4	58	1.55
533428--533791	178	2.0	179	87	4	529	26	17	5	51	1.67
535537--535587	26	2.0	26	92	0	84	11	43	25	19	1.85
536819--536937	29	4.1	29	75	8	109	25	19	9	46	1.79
544783--544844	28	2.2	28	86	11	83	38	40	4	16	1.69
547917--547975	21	2.8	21	78	0	73	13	30	35	20	1.91
548453--548740	20	14.4	20	82	10	167	38	23	16	21	1.93
548453--548740	40	7.2	39	79	13	236	38	23	16	21	1.93
548453--548740	60	4.8	59	74	17	229	38	23	16	21	1.93
549527--549566	12	3.2	12	89	3	53	55	32	0	12	1.38
549683--549736	24	2.2	24	90	0	81	22	18	18	40	1.91
551986--552021	18	2.0	18	94	0	63	55	25	2	16	1.55
552404--552459	20	2.8	19	81	5	58	17	17	19	44	1.87
552514--552687	65	2.6	65	90	7	253	51	17	3	28	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554015--554133	21	5.7	21	77	8	109	21	18	35	24	1.96
554015--554137	42	2.9	41	80	9	149	21	17	35	24	1.95
554491--554590	42	2.4	41	75	8	103	32	38	13	17	1.87
556282--556364	20	4.4	20	74	20	72	50	24	14	10	1.74
556282--556347	34	1.9	35	93	3	116	51	24	13	10	1.72
556302--556335	14	2.4	14	85	0	50	50	26	14	8	1.72
556349--556379	16	1.9	16	100	0	62	48	25	12	12	1.77
556392--556431	20	2.0	20	85	0	53	15	12	22	50	1.77
556753--556796	22	2.0	22	90	0	70	20	9	45	25	1.80
556903--557065	20	8.1	20	82	1	182	19	16	23	41	1.90
556970--557022	21	2.6	21	87	3	72	22	9	24	43	1.83
556970--557076	41	2.7	40	80	1	124	18	13	25	42	1.86
556905--557062	61	2.6	61	87	3	221	19	16	24	39	1.91
556910--557116	81	2.6	80	81	7	215	20	16	22	40	1.91
557071--557117	20	2.3	20	92	0	76	21	19	21	38	1.94
559098--559173	34	2.3	33	90	2	125	14	40	2	42	1.59
559404--559494	12	7.8	12	80	9	91	34	31	5	28	1.80
560737--560848	50	2.2	50	78	6	118	21	30	28	19	1.98
564738--564768	12	2.6	12	100	0	62	6	32	25	35	1.82
565350--565670	160	2.0	160	97	2	610	23	30	23	22	1.99
567034--567072	20	2.0	19	90	5	60	43	0	23	33	1.54
567185--567311	51	2.5	50	87	1	173	18	31	33	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567652--567707	30	1.9	28	89	7	85	64	0	1	33	1.04
571930--571988	19	2.9	20	87	7	75	16	25	35	22	1.95
577728--577764	2	18.5	2	100	0	74	51	0	0	48	1.00
578464--578516	23	2.4	21	79	14	63	35	0	0	64	0.94
582616--582697	18	4.3	18	85	11	119	29	32	18	19	1.95
587189--587245	15	3.4	17	84	13	66	28	0	3	68	1.06
587219--587251	7	4.7	7	89	10	50	27	0	0	72	0.85
587208--587250	15	2.8	15	89	10	61	27	0	0	72	0.85
587272--587322	13	3.8	13	71	19	50	29	0	9	60	1.28
592248--592654	205	2.0	206	97	2	770	36	17	3	42	1.65
592529--592567	15	2.7	15	84	4	53	43	17	0	38	1.50
593054--593100	21	2.3	21	85	10	62	51	27	6	14	1.67
593193--593223	2	15.5	2	100	0	62	48	0	0	51	1.00
593617--593703	40	2.2	38	82	8	95	40	6	12	40	1.70
595717--595830	60	1.9	58	83	3	147	42	9	8	38	1.69
596884--596941	2	29.0	2	100	0	116	50	0	0	50	1.00
598651--598701	3	17.0	3	79	0	57	39	0	0	60	0.97
598661--598701	15	2.7	15	92	0	73	36	0	0	63	0.95
599150--599182	17	2.1	17	88	11	52	87	3	9	0	0.63
600415--600472	29	2.0	30	86	3	82	46	1	0	51	1.11
602464--602517	14	3.8	14	82	2	54	25	12	7	53	1.65
606052--606085	9	3.7	9	84	7	50	85	0	8	5	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611535--611598	20	3.2	20	65	12	51	42	9	20	28	1.83
611385--612280	112	7.8	112	78	10	881	38	14	19	27	1.91
611385--612166	225	3.5	222	90	5	1114	37	14	19	28	1.91
611980--612385	120	3.3	122	87	5	554	41	15	18	24	1.89
612517--612564	12	3.7	13	79	15	55	41	0	0	58	0.98
612517--612567	15	3.4	15	83	5	68	41	0	0	58	0.98
613007--613048	14	3.0	14	76	13	50	78	4	16	0	0.91
613323--613357	18	1.9	18	88	0	52	8	40	37	14	1.76
613949--614024	29	2.7	27	73	13	64	27	1	3	67	1.17
614293--614350	29	2.0	30	86	3	82	46	1	0	51	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12