genome.fa.s8495.2.7.7.80.10.50.1000.3.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2505 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)
512017--512076	17	3.6	17	77	6	52	80	1	16	1	0.89
519548--519581	12	2.8	12	95	0	59	5	47	0	47	1.26
527467--527527	30	2.0	30	93	0	104	27	26	21	24	1.99
527617--527666	22	2.3	22	76	13	59	26	26	2	46	1.64
529816--529854	16	2.5	15	88	8	60	25	0	0	74	0.82
530819--531011	106	1.8	106	86	6	284	20	16	19	44	1.87
533215--533284	23	3.0	23	95	4	124	25	27	4	42	1.73
534811--534838	2	14.0	2	100	0	56	50	0	0	50	1.00
535154--535206	2	26.5	2	100	0	106	49	0	0	50	1.00
536618--536642	12	2.1	12	100	0	50	24	8	0	68	1.16
539315--539352	18	2.1	18	100	0	76	28	10	28	31	1.90
541570--541597	14	2.0	14	100	0	56	92	7	0	0	0.37
541578--541607	12	2.5	12	94	0	51	90	6	3	0	0.56
541570--541607	13	2.9	13	81	14	51	89	7	2	0	0.57
542993--544276	106	12.2	106	90	1	1965	34	25	18	22	1.96
545001--545096	37	2.6	37	86	0	129	40	15	11	32	1.83
545590--545627	3	12.3	3	89	10	51	36	0	0	63	0.95
545698--545752	25	2.2	25	80	0	65	25	0	3	70	1.03
545806--545873	36	1.9	35	81	3	82	20	2	1	75	1.02
547721--548007	98	2.9	98	82	5	328	27	19	15	37	1.92
547718--548011	49	5.9	49	80	6	281	27	19	15	37	1.93
549499--549636	69	2.0	69	100	0	276	21	23	15	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554670--554962	49	6.0	49	86	3	367	27	21	13	37	1.91
554673--554962	97	3.0	98	85	3	379	27	21	13	37	1.90
555796--555943	73	2.0	74	98	1	289	35	25	0	39	1.56
556404--556434	16	1.9	16	93	0	53	41	22	16	19	1.89
558102--558163	28	2.3	26	86	10	81	43	3	8	45	1.49
558168--558279	29	3.9	29	79	2	100	42	8	9	39	1.67
561430--561518	38	2.3	39	81	12	112	46	3	8	41	1.52
561535--561597	28	2.2	30	86	8	87	39	1	4	53	1.31
571976--572062	35	2.4	37	85	12	128	43	4	11	40	1.61
571991--572064	33	2.3	31	80	17	87	44	4	12	39	1.61
572089--572149	28	2.1	29	82	8	72	37	3	4	54	1.39
572105--572160	29	1.9	29	86	13	80	39	1	3	55	1.28
576943--576984	18	2.3	18	83	0	57	35	9	19	35	1.84
580524--580550	4	6.8	4	100	0	54	25	0	0	74	0.83
587646--587702	21	2.8	20	84	5	80	31	24	24	19	1.98
587723--587821	42	2.4	42	82	3	119	22	19	34	24	1.96
587764--587821	21	2.8	21	86	0	80	22	18	34	24	1.96
587901--587958	30	2.0	29	90	10	91	44	17	5	32	1.70
587901--587959	29	2.0	30	93	6	102	44	16	5	33	1.70
588714--588766	20	2.7	20	87	0	70	32	20	28	18	1.97
588799--588843	22	2.0	23	86	4	65	24	24	26	24	2.00
588787--588864	21	3.8	19	80	14	75	24	21	30	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588933--589002	29	2.3	30	88	9	99	45	15	4	34	1.66
588944--589003	29	2.0	30	93	6	104	43	16	6	33	1.74
590271--590318	19	2.5	20	82	3	62	31	10	6	52	1.60
591509--591553	21	2.1	21	84	8	56	22	26	22	28	1.99
591705--591747	22	1.9	23	90	4	70	20	20	32	25	1.97
591691--591789	21	4.8	20	83	13	119	22	19	36	22	1.95
591869--591926	30	2.0	29	86	10	82	44	15	5	34	1.69
591869--591926	29	1.9	30	89	6	91	44	15	5	34	1.69
593612--593908	117	2.5	117	79	6	350	39	13	20	26	1.90
593612--593957	117	2.9	115	78	8	324	39	14	20	25	1.90
593840--594146	162	1.9	161	83	3	393	36	16	19	27	1.93
595777--595801	4	6.2	4	100	0	50	24	0	0	76	0.80
598454--598702	81	3.1	81	82	4	297	25	22	11	40	1.87
598905--599444	54	10.0	54	88	2	707	30	18	17	33	1.94
598866--599444	269	2.1	269	88	2	851	30	18	16	34	1.93
599785--599841	22	2.8	20	82	12	71	29	22	15	31	1.95
603365--603837	54	8.7	54	85	4	587	37	21	16	24	1.94
603860--603967	56	1.9	56	84	0	144	36	8	16	38	1.79
605721--605796	20	3.8	20	79	10	75	5	23	1	69	1.16
605768--605809	16	2.5	17	81	14	52	4	23	0	71	1.05
605767--605820	24	2.2	25	83	3	65	5	22	1	70	1.18
614230--614266	19	1.9	19	88	0	56	48	13	2	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615407--615512	31	3.1	34	81	15	128	47	28	1	22	1.62
617358--617439	44	1.9	44	85	5	114	29	18	18	34	1.94
618352--618398	21	2.2	22	84	3	60	2	12	2	82	0.84
624966--624998	3	11.7	3	87	12	52	30	0	0	69	0.88
629921--630043	55	2.2	55	88	0	183	30	24	13	30	1.94
630027--631074	51	20.3	51	84	5	1261	24	25	19	31	1.98
630027--631074	103	10.2	104	86	4	1299	24	25	19	31	1.98
630000--631074	154	6.9	154	84	5	1327	24	25	19	31	1.98
630027--631074	257	4.1	258	85	4	1364	24	25	19	31	1.98
632637--632891	125	2.0	125	83	1	323	22	27	16	33	1.95
634359--634383	2	12.5	2	100	0	50	48	0	0	52	1.00
636797--636846	6	8.2	6	85	10	66	50	14	16	20	1.78
636797--636843	13	3.8	13	88	5	71	46	14	17	21	1.83
636797--636846	19	2.7	18	85	11	66	50	14	16	20	1.78
637197--637336	52	2.6	54	84	6	185	20	22	14	42	1.88
642958--643099	55	2.6	55	85	0	185	41	14	21	22	1.89
645758--645814	18	2.9	20	78	21	59	71	0	24	3	1.01
648575--648707	37	3.6	37	85	3	187	36	22	15	25	1.94
648585--648732	37	4.1	36	83	4	172	35	21	16	25	1.95
648571--648732	73	2.2	74	83	5	211	35	20	17	25	1.95
649032--649109	37	2.1	37	83	9	97	44	12	19	23	1.84
649421--649846	55	7.8	55	84	3	490	31	14	23	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649421--649835	219	1.9	217	84	4	557	31	14	23	30	1.94
649222--650028	55	14.9	53	77	10	372	33	16	23	26	1.96
649114--650028	54	16.9	54	77	10	429	33	16	23	25	1.96
656050--656112	29	2.2	29	85	0	81	23	36	3	36	1.71
660112--660146	18	1.9	18	100	0	70	28	28	5	37	1.80
666606--666813	65	3.2	64	79	13	221	32	23	16	27	1.96
666654--666833	65	2.8	64	82	12	208	30	22	17	29	1.97
674863--674972	21	5.3	21	64	10	64	33	0	44	20	1.58
674846--674973	42	3.1	42	95	1	231	35	0	41	22	1.60
679707--680073	139	2.7	134	83	4	423	25	21	17	35	1.95
680793--680954	55	3.1	51	78	11	157	45	14	9	30	1.77
680806--681004	53	3.7	54	75	9	149	44	14	9	31	1.77
680928--681072	55	2.7	54	84	6	168	42	15	8	33	1.77
680885--681091	55	3.8	55	79	4	161	42	14	10	32	1.79
681269--681313	4	11.2	4	80	0	54	24	8	26	40	1.84
681273--681311	8	4.9	8	100	0	78	25	10	25	38	1.87
682381--682435	28	1.9	29	85	3	76	30	3	21	43	1.70
682999--683188	7	27.1	7	71	13	90	4	15	1	78	0.95
682999--683188	20	10.2	19	70	16	96	4	15	1	78	0.95
682999--683196	25	7.7	25	71	21	92	4	15	1	78	0.96
683095--683152	29	2.0	29	86	3	80	3	20	0	75	0.94
683133--683196	11	5.5	11	81	12	67	4	9	0	85	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682999--683196	13	15.2	13	69	19	103	4	15	1	78	0.96
683131--683173	1	43.0	1	85	0	59	2	4	0	93	0.43
691672--691722	23	2.2	23	96	0	93	39	17	7	35	1.79
693034--693078	22	2.0	22	86	0	63	35	11	13	40	1.80
693426--693493	23	3.0	23	91	0	109	39	20	5	33	1.77
693908--693980	23	3.2	23	88	0	110	39	20	5	34	1.76
692984--696549	485	7.4	488	92	3	5793	40	10	7	41	1.68
694393--694465	23	3.2	24	84	9	98	41	20	5	32	1.75
694874--694946	23	3.2	24	80	9	89	41	19	5	34	1.74
695372--695419	20	2.3	21	89	7	80	37	22	6	33	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21