genome.fa.s9643.2.7.7.80.10.50.1000.3.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   

This is table  3  of  41  ( 4862 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)
556502--556581	33	2.4	33	89	0	115	10	36	27	26	1.88
556502--556632	10	12.1	10	70	15	82	10	34	30	24	1.89
556525--556613	43	2.2	40	81	6	106	10	32	31	25	1.89
556525--556612	20	4.2	20	83	8	104	10	32	31	25	1.89
556525--556630	53	2.0	53	86	1	149	10	32	33	24	1.89
556832--556872	2	20.5	2	100	0	82	51	0	0	48	1.00
557067--557105	19	2.1	19	90	0	60	35	0	17	46	1.49
557283--557320	20	1.9	20	88	0	58	52	5	5	36	1.47
560017--560059	7	6.1	7	94	0	77	44	2	41	11	1.53
564169--564207	21	1.9	20	89	5	60	28	12	15	43	1.83
565753--565798	2	23.0	2	100	0	92	50	0	50	0	1.00
565976--566009	2	17.0	2	100	0	68	50	0	0	50	1.00
571254--571325	21	3.3	23	78	9	71	50	25	0	25	1.50
573590--573653	25	2.5	27	75	14	73	18	3	10	67	1.34
574677--574724	23	2.1	23	88	0	69	35	12	18	33	1.89
575101--575154	23	2.5	20	75	18	54	42	18	1	37	1.61
575116--575178	23	2.7	23	90	0	90	38	19	6	36	1.77
577737--578408	184	3.7	184	97	0	1227	34	15	14	35	1.89
579775--579825	3	17.0	3	83	0	66	25	33	3	37	1.74
579775--579837	12	5.2	12	90	0	81	23	33	6	36	1.80
579779--579840	18	3.4	18	88	0	88	20	33	6	38	1.79
579779--579840	6	10.3	6	83	0	61	20	33	6	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581302--582914	198	8.1	198	95	1	2851	32	15	15	36	1.88
581302--582914	596	2.7	595	96	0	2925	32	15	15	36	1.88
582980--583059	38	2.1	38	83	2	99	55	10	2	32	1.47
582996--583059	19	3.4	19	95	0	110	56	9	3	31	1.47
584858--584923	33	2.0	33	87	0	96	24	45	1	28	1.62
587028--587080	24	2.2	24	83	6	63	26	7	13	52	1.66
587225--587272	20	2.3	20	78	3	60	18	16	8	56	1.65
587393--587439	20	2.3	20	89	10	78	17	17	10	55	1.69
588350--588393	19	2.5	17	76	16	54	29	0	2	68	1.02
600427--600492	33	2.0	34	90	3	107	10	25	22	40	1.86
600427--600517	20	4.9	19	73	17	84	12	24	19	43	1.85
602608--602696	42	2.1	42	80	0	106	21	38	16	23	1.93
604076--604111	14	2.6	14	95	0	63	30	0	25	44	1.54
604236--604292	14	3.7	14	70	20	51	43	21	24	10	1.83
604218--604307	33	2.7	33	89	0	135	44	20	21	14	1.86
604303--604453	19	8.7	19	61	21	62	15	21	19	42	1.89
604307--604433	33	3.9	32	84	8	175	15	22	18	43	1.88
604300--604432	66	2.0	66	94	0	230	17	21	18	42	1.90
606726--606761	12	3.0	12	100	0	72	0	25	0	75	0.81
606937--606990	24	2.2	24	90	0	81	40	20	16	22	1.91
607813--607905	20	4.6	20	75	2	78	39	19	18	22	1.92
608118--608185	20	3.4	20	74	8	75	41	22	20	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608102--608205	40	2.9	34	75	15	100	41	21	22	15	1.90
608216--608289	19	4.5	16	83	16	66	13	20	18	47	1.82
608231--608279	19	2.6	19	100	0	98	14	20	16	48	1.80
608416--608452	14	2.6	14	86	0	56	48	21	0	29	1.50
610322--610389	20	3.5	19	78	6	73	39	23	22	14	1.91
610378--610468	14	5.9	14	72	20	74	48	21	17	12	1.80
610362--610473	33	3.4	33	96	1	199	47	21	18	12	1.81
610362--610484	65	1.9	66	89	5	196	47	22	17	12	1.81
610480--610562	19	4.6	19	79	14	104	13	19	20	46	1.82
610527--610590	19	3.3	19	82	2	74	17	21	18	42	1.89
610556--610601	20	2.3	20	88	0	65	15	21	26	36	1.93
611083--611127	18	2.5	18	85	0	63	15	15	42	26	1.87
612447--612505	20	3.0	20	87	0	73	42	22	18	16	1.89
612749--612792	22	2.0	22	90	0	70	20	15	43	20	1.88
612960--613074	20	5.7	21	76	12	82	24	17	21	36	1.94
613021--613073	19	2.7	20	91	5	90	26	18	22	32	1.97
612960--613076	60	1.9	62	82	6	150	23	17	21	37	1.94
616077--616179	51	2.0	51	98	0	197	33	5	31	29	1.81
617631--617678	23	2.1	23	88	0	69	35	12	18	33	1.89
618437--618499	23	2.7	23	92	0	99	38	20	4	36	1.74
618902--618988	39	2.2	39	95	0	156	17	13	20	48	1.81
619246--619282	18	2.1	18	89	0	56	51	10	5	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619671--619721	25	2.0	25	92	0	84	39	19	7	33	1.81
619906--619957	23	2.3	22	90	6	77	44	19	1	34	1.62
619916--619978	23	2.7	23	90	0	90	38	19	6	36	1.77
620265--620330	25	2.6	25	80	0	87	42	13	9	34	1.76
621732--622249	183	2.8	183	95	0	937	34	16	14	35	1.88
623669--623719	3	17.0	3	83	0	66	25	33	3	37	1.74
623673--623731	12	4.9	12	91	0	82	22	33	6	37	1.80
623669--623734	18	3.7	18	87	0	87	22	33	6	37	1.79
623673--623734	6	10.3	6	83	0	61	20	33	6	38	1.79
625195--626769	199	7.9	199	100	0	3150	32	16	15	36	1.89
626882--626930	19	2.6	19	93	0	80	57	10	2	30	1.43
628727--628792	33	2.0	33	84	0	87	24	46	0	28	1.52
628826--628890	21	3.1	21	80	6	69	15	29	15	40	1.88
631121--631163	20	2.3	18	85	14	61	20	16	11	51	1.75
631126--631172	20	2.4	19	82	10	67	19	17	10	53	1.72
631294--631339	20	2.3	20	89	10	76	17	17	10	54	1.70
639527--639555	2	14.5	2	100	0	58	0	51	0	48	1.00
639555--639580	2	13.0	2	100	0	52	50	50	0	0	1.00
643984--644018	4	8.2	4	87	12	52	48	2	0	48	1.16
644378--644459	30	2.7	30	82	1	83	42	7	4	45	1.53
653890--653924	2	17.5	2	93	0	61	54	0	0	45	0.99
653885--653925	10	4.1	10	90	0	55	56	2	0	41	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654152--654184	4	8.2	4	100	0	66	24	0	0	75	0.80
663197--663374	60	3.0	59	82	3	203	33	16	3	47	1.63
663890--663942	21	2.5	21	81	6	72	20	26	18	33	1.96
663932--663983	21	2.5	21	87	3	70	38	17	23	21	1.93
663917--664126	41	5.1	41	69	7	122	32	20	19	27	1.96
663993--664065	21	3.5	21	75	3	67	24	21	16	36	1.94
664055--664148	20	4.7	20	81	7	118	39	19	21	20	1.93
664055--664148	41	2.3	41	85	5	120	39	19	21	20	1.93
664684--664754	19	3.7	19	81	9	81	47	22	18	11	1.80
664755--664843	20	4.8	19	74	18	89	12	20	19	48	1.80
666940--667059	42	2.9	42	79	2	116	23	35	17	23	1.95
666994--667063	21	3.4	21	65	9	54	22	38	18	20	1.93
668875--668899	12	2.1	12	100	0	50	0	28	0	72	0.86
669897--669951	20	2.7	21	82	5	67	40	16	21	21	1.91
669936--670027	20	4.6	20	69	2	76	39	23	17	19	1.92
670295--670381	19	4.8	19	90	9	139	13	21	17	47	1.82
670295--670391	38	2.8	33	84	14	140	13	20	18	47	1.82
670378--670420	20	2.2	20	91	0	68	11	13	25	48	1.77
671966--672057	42	2.2	42	88	1	141	20	15	42	21	1.89
671993--672053	21	2.9	21	73	9	70	21	13	42	22	1.87
672397--672486	20	4.5	20	85	0	99	34	26	18	20	1.96
672397--672486	40	2.2	40	88	0	126	34	26	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672421--672507	40	2.2	39	83	2	102	36	24	22	16	1.94
672480--672538	19	3.4	19	73	22	74	47	20	18	13	1.82
672496--672552	14	3.7	14	75	20	60	50	22	15	10	1.74
672480--672557	33	2.4	33	100	0	156	46	21	19	12	1.83
672564--672635	20	3.7	19	81	5	81	13	22	23	40	1.90
673176--673223	18	2.7	18	93	0	87	14	12	45	27	1.81
674543--674601	20	3.0	20	87	0	73	44	22	18	15	1.87
674616--674642	14	1.9	14	100	0	54	7	14	29	48	1.71
674864--674907	22	2.0	22	95	0	79	18	15	45	20	1.85
675094--675166	20	3.7	20	77	0	83	28	16	24	30	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41