genome.fa.s7840.2.7.7.80.10.50.1000.3.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: VEPZ01007840.1 Hibiscus syriacus cultivar Beakdansim tig00110194_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1104544

Tables:   1   2   3   4   

This is table  3  of  4  ( 450 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)
518421--518523	35	2.8	35	85	8	118	48	0	0	51	1.00
518505--518538	6	6.0	6	96	3	54	47	0	0	52	1.00
518956--519004	24	2.0	25	92	4	82	22	18	22	36	1.95
521508--521694	31	6.0	31	94	2	324	38	23	18	19	1.93
522343--522566	64	3.5	63	83	5	222	26	20	20	32	1.97
524736--524790	21	2.6	21	94	0	92	23	20	27	29	1.99
524806--524858	20	2.7	20	90	0	88	24	15	37	22	1.92
525889--525934	2	22.5	2	95	4	83	47	0	2	50	1.13
527619--527675	20	3.0	20	77	15	66	56	1	0	42	1.10
527968--528024	17	3.4	17	82	4	62	59	3	3	33	1.31
527973--528035	17	3.6	17	78	6	56	61	4	1	31	1.26
530128--530167	20	2.0	20	100	0	80	45	10	5	40	1.60
536336--536380	23	2.0	23	86	0	63	26	28	24	20	1.99
536359--536662	149	2.0	149	99	0	599	34	20	17	27	1.95
537470--537504	18	1.9	18	88	11	54	22	17	5	54	1.64
538088--538132	21	2.1	21	87	0	63	17	24	26	31	1.97
541264--541308	23	2.0	23	86	0	63	26	28	24	20	1.99
541287--541590	149	2.0	149	99	0	599	34	20	17	27	1.95
542397--542431	18	1.9	18	88	11	54	22	17	5	54	1.64
543015--543059	21	2.1	21	87	0	63	15	24	28	31	1.96
550104--550138	14	2.5	14	100	0	70	25	22	22	28	1.99
550996--551021	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551245--551356	35	3.2	35	85	0	143	40	23	0	35	1.61
552690--552799	35	3.1	35	86	0	148	35	0	21	41	1.60
553230--553310	31	2.7	30	82	1	108	33	6	2	58	1.36
554748--554837	30	3.0	30	78	4	83	37	5	15	41	1.71
554990--555066	30	2.5	31	93	4	129	40	9	22	28	1.84
556234--556265	2	16.0	2	100	0	64	50	0	0	50	1.00
573559--573601	12	3.2	12	79	20	50	69	0	25	4	1.07
577807--577860	2	27.0	2	100	0	108	50	0	0	50	1.00
583650--583688	18	2.2	18	90	4	62	33	0	5	61	1.18
583981--584018	18	2.2	18	90	4	60	31	0	5	63	1.17
583541--584204	331	2.0	330	98	0	1283	31	12	9	46	1.73
586235--586319	35	2.5	33	78	14	91	27	8	10	54	1.63
589918--590029	53	2.2	51	85	9	149	25	26	23	25	2.00
591506--591617	35	3.2	34	86	5	134	42	17	0	38	1.56
592675--592786	35	3.2	33	85	7	134	35	0	20	42	1.58
596520--596553	2	17.0	2	100	0	68	50	0	0	50	1.00
596525--596615	44	2.0	45	85	10	121	52	0	1	46	1.07
596533--596610	38	2.0	41	87	7	117	52	0	1	46	1.08
596874--596926	21	2.5	21	84	0	70	20	26	18	33	1.96
596916--597008	21	4.6	20	76	5	96	37	19	20	22	1.94
596916--597010	41	2.3	41	83	3	120	36	18	20	24	1.95
597580--597628	20	2.5	20	86	0	71	34	24	20	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597641--597727	20	4.4	20	83	1	86	14	14	22	47	1.82
597692--597735	20	2.2	20	87	0	61	13	13	20	52	1.74
599581--599675	20	5.1	20	82	14	139	41	20	21	17	1.91
599688--599837	20	7.8	20	81	8	170	17	20	21	40	1.91
599675--599826	73	2.1	74	89	1	234	16	21	21	40	1.91
600313--600411	21	4.8	20	69	10	65	22	34	20	23	1.97
600310--600420	42	2.7	43	78	5	129	20	36	18	24	1.95
601776--601811	14	2.6	14	90	0	54	30	0	22	47	1.52
601913--602007	33	2.8	33	85	3	109	42	20	23	14	1.89
602017--602104	19	4.8	19	76	16	96	14	21	18	45	1.85
602017--602155	52	2.7	50	83	5	152	15	23	19	41	1.90
602116--602195	20	4.0	20	85	3	108	18	22	23	35	1.96
602109--602195	40	2.2	40	88	8	126	18	22	24	34	1.96
605538--605624	20	4.3	20	79	5	104	20	21	20	36	1.95
605614--605666	21	2.5	21	84	0	70	33	18	26	20	1.96
605836--605890	28	1.9	29	85	10	78	38	7	1	52	1.40
605950--606007	29	2.0	29	96	0	107	39	13	17	29	1.88
608671--608713	16	2.7	16	100	0	86	48	32	0	18	1.48
608861--608886	12	2.2	12	100	0	52	23	19	7	50	1.73
609009--609095	29	3.1	28	83	6	95	24	3	13	58	1.51
609281--609317	2	18.5	2	100	0	74	48	0	0	51	1.00
615692--615740	22	2.3	20	75	6	53	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619524--619567	23	1.9	23	86	9	63	50	0	0	50	1.00
620646--620729	36	2.6	30	70	24	71	47	1	4	46	1.31
620651--620725	36	2.1	35	82	9	89	48	1	4	46	1.29
636819--636870	26	2.0	27	84	3	70	50	3	3	42	1.39
644012--644520	252	2.0	254	95	1	914	38	9	9	43	1.68
645534--645700	88	1.9	88	93	0	289	28	25	19	26	1.99
653087--653113	6	4.5	6	100	0	54	0	66	0	33	0.92
659247--659294	15	3.1	15	76	5	51	68	0	0	31	0.90
659233--659291	25	2.4	25	88	5	86	64	0	0	35	0.94
659249--659295	8	6.0	8	80	5	51	68	0	0	31	0.90
661227--661269	20	2.3	19	88	8	61	34	25	9	30	1.87
663175--663295	63	1.9	63	86	6	174	18	22	19	40	1.91
665855--665897	20	2.3	19	88	8	61	34	23	9	32	1.87
669018--669057	2	20.5	2	94	5	73	50	0	0	50	1.00
669369--669426	29	2.0	29	100	0	116	20	51	10	17	1.74
671242--671429	59	3.2	60	77	6	193	42	6	21	28	1.79
672594--672621	2	14.0	2	100	0	56	50	0	0	50	1.00
679632--679707	38	2.0	37	97	2	143	18	21	19	40	1.91
693745--694198	149	3.0	151	82	2	569	30	14	28	25	1.95
695102--695158	30	1.9	30	100	0	114	47	10	10	31	1.72
699903--699954	26	2.0	26	100	0	104	30	15	34	19	1.93
704347--704672	165	2.0	162	94	5	568	29	23	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
708188--708217	12	2.5	12	94	0	51	6	50	6	36	1.55
712370--712401	6	5.3	6	92	0	55	0	46	18	34	1.49
712617--712655	17	2.4	17	95	4	71	51	5	0	43	1.24
727634--727667	18	1.9	17	88	5	50	26	2	2	67	1.19
727864--727898	18	1.9	18	94	0	61	62	14	0	22	1.31
728198--728254	11	5.2	11	81	8	53	66	3	0	29	1.08
750231--750290	31	1.9	31	100	0	120	43	6	6	43	1.57
750398--750429	16	2.0	16	100	0	64	62	0	0	37	0.95
752621--752714	31	3.0	32	80	10	106	39	4	11	44	1.60
753444--753470	8	3.4	8	100	0	54	0	62	0	37	0.95
758949--759517	260	2.2	258	86	5	764	27	11	19	41	1.86
765032--765103	32	2.2	32	85	0	90	22	8	36	33	1.84
766474--766559	38	2.3	38	91	2	138	12	11	39	36	1.80
767077--767123	18	2.7	17	83	3	58	27	27	8	36	1.86
767441--767988	257	2.2	249	85	9	734	27	12	19	40	1.88
771591--771667	31	2.5	31	82	2	100	27	29	27	15	1.96
778432--779026	297	2.0	295	97	2	1131	32	16	13	37	1.87
785597--785640	15	2.9	15	77	16	54	61	0	2	36	1.09
786685--786824	51	2.7	51	93	1	226	19	32	25	22	1.97
787032--787079	15	3.1	15	79	5	51	22	2	8	66	1.29
790335--790421	35	2.5	34	80	12	97	55	10	8	26	1.61
791003--791041	18	2.2	18	95	0	69	23	17	28	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
792791--792828	10	3.8	10	89	0	58	42	0	28	28	1.56
794848--794900	2	26.5	2	100	0	106	49	0	0	50	1.00
805538--805598	23	2.6	24	86	2	88	49	16	18	16	1.80
810738--810783	21	2.1	22	84	4	58	78	4	2	15	1.01
810740--810783	24	1.9	22	86	9	61	77	4	2	15	1.04
817842--817905	23	2.7	23	82	7	74	48	1	1	48	1.20
818027--818099	31	2.4	30	78	15	78	52	1	1	45	1.18
818072--818142	24	3.0	24	79	8	65	53	4	0	42	1.20
818242--818288	14	3.3	14	77	14	51	57	2	2	38	1.23
829742--829787	21	2.2	21	88	0	65	30	28	26	15	1.96

Tables:   1   2   3   4