genome.fa.s9622.2.7.7.80.10.50.1000.3.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: VEPZ01009622.1 Hibiscus syriacus cultivar Beakdansim tig00117011_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  790348

Tables:   1   2   3   4   

This is table  3  of  4  ( 439 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)
428333--428382	22	2.3	22	82	0	64	16	24	42	18	1.89
435314--435438	31	4.0	31	79	11	139	29	19	19	32	1.96
435394--435600	83	2.5	83	96	0	378	23	20	24	31	1.98
439651--439777	31	4.1	31	78	9	141	29	18	20	31	1.96
439654--439861	31	7.0	31	70	15	125	26	19	22	31	1.97
439736--439939	82	2.5	83	95	0	365	23	20	24	31	1.98
441207--441335	45	2.8	44	78	10	143	24	18	27	30	1.98
441674--441726	16	3.5	16	70	15	58	26	37	0	35	1.57
441666--441724	29	2.0	29	100	0	118	27	38	0	33	1.57
442015--442043	14	2.0	15	93	6	51	62	27	3	6	1.37
443998--444064	22	3.2	19	76	17	62	23	20	25	29	1.99
443998--444064	21	3.2	21	79	10	66	23	20	25	29	1.99
453528--453556	14	2.0	15	93	6	51	62	27	3	6	1.37
455458--455552	44	2.2	42	85	7	120	26	21	23	29	1.99
455458--455552	21	4.4	21	74	9	68	26	21	23	29	1.99
456133--456460	164	2.0	164	95	3	599	33	20	15	29	1.94
460533--460587	18	3.0	18	77	12	58	23	23	25	27	2.00
461308--461377	36	2.0	35	83	8	88	38	17	17	27	1.91
466405--466447	2	21.5	2	100	0	86	48	0	0	51	1.00
470013--470052	2	21.0	2	90	10	66	50	0	0	50	1.00
470039--470128	38	2.4	37	83	7	101	45	5	5	43	1.50
470137--470161	11	2.3	11	100	0	50	40	8	8	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470027--470177	83	1.8	82	88	5	234	43	4	5	45	1.49
470148--470204	28	2.0	28	83	6	71	36	3	7	52	1.46
470175--470404	38	6.0	37	75	14	175	41	2	7	48	1.46
470206--470420	40	5.4	40	72	14	169	42	3	7	46	1.48
470176--470440	81	3.4	78	83	9	285	41	3	7	47	1.49
471613--471666	23	2.3	24	81	9	58	16	11	3	68	1.33
471710--471738	2	14.5	2	100	0	58	48	0	0	51	1.00
471834--471863	13	2.3	13	94	0	51	30	0	0	70	0.88
476404--476499	39	2.5	39	79	6	106	38	19	19	21	1.93
479549--479584	18	2.0	18	100	0	72	22	5	22	50	1.70
482425--482481	24	2.4	24	100	0	114	45	26	14	14	1.82
490228--490260	2	16.5	2	100	0	66	51	0	0	48	1.00
492412--492452	21	1.9	22	90	5	66	36	17	19	26	1.94
495367--495441	32	2.3	32	84	4	98	57	5	17	20	1.59
496875--496951	37	2.1	37	85	4	102	48	1	3	46	1.28
501068--501114	2	24.0	2	95	4	87	51	0	0	48	1.00
503387--503484	30	3.4	28	82	13	103	65	3	10	21	1.37
503391--503469	15	5.3	14	69	11	50	62	2	12	22	1.43
503402--503499	15	6.6	14	67	14	54	66	4	7	22	1.34
503429--503500	30	2.4	29	80	13	74	65	4	5	25	1.32
505281--505371	24	3.8	24	83	2	112	37	18	17	26	1.93
505281--505371	47	1.9	48	86	2	130	37	18	17	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507842--507875	15	2.1	16	89	10	52	23	20	35	20	1.96
507866--507896	13	2.4	13	100	0	62	12	22	48	16	1.80
509718--509784	32	2.1	32	100	0	134	28	13	17	40	1.88
511108--511176	12	5.8	12	72	6	59	20	10	17	52	1.73
511106--511176	24	3.0	24	85	0	106	22	9	16	50	1.74
512269--512295	14	1.9	14	100	0	54	37	11	29	22	1.89
513853--513882	9	3.3	9	100	0	60	50	13	10	26	1.73
521912--521973	30	2.1	30	82	11	74	51	3	14	30	1.58
523721--524758	520	2.0	519	87	2	1483	33	16	16	33	1.91
537001--537042	20	2.1	20	100	0	84	66	19	14	0	1.25
542239--542263	12	2.1	12	100	0	50	68	0	0	32	0.90
542513--542581	26	2.6	27	77	11	70	42	1	5	50	1.35
546174--546286	21	5.3	21	70	17	83	49	1	0	47	1.17
546179--546286	42	2.6	42	84	7	141	50	1	0	46	1.18
549659--549813	20	7.7	20	74	11	91	33	25	10	30	1.90
549659--549752	21	4.5	22	79	11	94	35	27	10	26	1.90
549659--549788	41	3.2	40	77	10	120	31	26	12	30	1.92
550741--550787	24	2.0	24	91	0	76	29	21	14	34	1.93
550746--550792	24	1.9	24	86	4	67	27	21	14	36	1.93
553060--553099	18	2.2	18	95	0	71	60	22	2	15	1.47
553308--553403	42	2.3	42	87	5	131	23	14	25	36	1.93
556151--556233	20	4.2	20	93	1	141	46	22	18	12	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556597--556669	22	3.3	22	80	0	83	26	12	39	21	1.89
556780--556817	20	2.0	20	84	5	51	44	13	15	26	1.83
556839--556876	20	1.9	20	88	0	58	26	10	28	34	1.90
557813--557856	20	2.1	21	83	8	54	36	0	15	47	1.46
561346--561374	14	2.1	14	100	0	58	0	17	27	55	1.42
564377--564447	14	4.9	14	75	23	67	29	7	1	61	1.30
564531--564555	2	12.5	2	100	0	50	48	0	0	52	1.00
564626--564660	2	17.5	2	100	0	70	51	0	0	48	1.00
564764--564796	17	1.9	17	93	0	57	21	6	6	66	1.35
575225--575312	45	1.9	46	93	2	151	43	15	25	15	1.87
576096--576753	98	6.5	98	87	6	874	33	24	19	22	1.97
576407--576562	43	3.4	43	68	13	132	33	25	18	21	1.96
576496--576738	106	2.3	106	88	0	351	32	25	19	22	1.97
578481--578535	21	2.4	23	79	8	60	25	3	0	70	1.03
578555--578599	21	2.1	21	84	15	58	35	0	6	57	1.25
578545--578966	220	2.0	212	92	7	717	26	8	7	57	1.54
579982--580006	2	12.5	2	100	0	50	48	0	0	52	1.00
580755--580888	52	2.6	51	82	3	153	44	6	9	39	1.64
583502--583537	17	2.1	17	89	0	54	36	33	19	11	1.87
595262--595313	27	1.9	27	100	0	104	50	11	3	34	1.57
595827--595882	28	2.0	28	89	0	85	37	7	8	46	1.63
596467--596702	123	1.9	124	85	4	323	26	27	8	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600723--600773	24	2.1	25	82	10	61	45	7	1	45	1.44
600880--600943	31	2.1	31	96	0	119	34	6	1	57	1.33
600880--600936	17	3.5	17	68	22	59	31	5	1	61	1.28
607763--607814	21	2.5	21	96	0	95	34	9	25	30	1.88
612425--612450	13	2.0	13	100	0	52	30	7	0	61	1.24
613826--613863	20	1.9	20	88	0	58	44	0	2	52	1.14
613819--613880	32	1.9	32	87	9	90	45	0	3	51	1.17
614023--614078	26	2.2	26	83	6	69	50	0	3	46	1.19
614021--614079	27	2.2	27	79	11	68	50	0	3	45	1.18
614067--614112	22	2.0	24	83	8	60	41	0	2	56	1.11
617866--617983	60	2.0	60	89	0	182	41	19	18	20	1.91
617960--618006	23	2.0	23	91	0	76	40	19	19	21	1.92
619822--621707	627	3.0	624	78	7	1596	35	15	13	36	1.86
620033--622155	627	3.4	631	76	8	1454	35	15	13	35	1.86
627197--627356	32	5.1	32	76	9	159	33	20	17	29	1.95
631941--631986	23	2.0	23	86	0	65	15	21	36	26	1.93
642992--643019	14	2.0	14	100	0	56	50	14	7	28	1.69
649138--649167	2	15.0	2	92	0	51	0	53	0	46	1.00
659615--659845	81	2.9	80	86	6	324	29	26	20	23	1.99
666710--666763	20	2.7	19	75	8	63	33	31	18	16	1.93
666813--667104	20	14.5	20	78	8	227	38	22	18	19	1.93
666813--667104	40	7.2	40	81	6	268	38	22	18	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
667964--668017	24	2.2	24	93	0	90	20	18	20	40	1.91
670567--670704	19	7.7	19	70	16	116	44	17	22	15	1.85
670554--670700	33	4.3	33	80	10	177	44	17	23	14	1.86
670554--670700	72	2.1	66	85	7	186	44	17	23	14	1.86
670700--670775	19	4.3	19	72	16	63	15	19	21	43	1.88
670882--670918	14	2.6	14	91	0	65	45	21	0	32	1.52
672811--672904	33	2.8	33	93	0	161	45	19	23	11	1.83
672787--672907	19	6.8	19	68	19	82	46	19	22	12	1.83
672904--673057	38	4.1	38	77	12	124	12	17	24	45	1.83
672914--673017	19	5.7	19	81	11	128	9	20	24	46	1.80

Tables:   1   2   3   4