genome.fa.s8919.2.7.7.80.10.50.1000.2.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: VEPZ01008919.1 Hibiscus syriacus cultivar Beakdansim tig00112223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1453011

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 485 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)
364750--364799	19	2.6	19	77	3	55	34	8	8	50	1.61
369116--369185	31	2.2	33	85	10	92	15	22	2	58	1.50
370169--370202	17	1.9	18	88	5	52	32	0	38	29	1.58
373377--373411	15	2.4	14	90	4	52	40	11	2	45	1.55
375144--375226	30	2.7	30	78	17	91	19	19	0	61	1.35
375144--375226	31	2.7	31	80	14	93	19	19	0	61	1.35
389086--389132	22	2.1	22	88	7	69	8	12	17	61	1.55
391276--391347	13	5.8	13	70	9	60	33	1	38	26	1.65
395221--395289	26	2.5	26	81	11	68	10	17	2	69	1.29
395695--395805	35	3.2	35	83	2	134	34	3	36	26	1.74
395742--395800	13	4.8	13	73	12	61	32	0	38	28	1.57
403786--403851	5	13.8	5	72	15	50	1	16	1	80	0.87
403780--403852	8	9.0	8	75	19	62	1	17	1	79	0.88
403780--403851	18	4.1	17	79	15	67	1	18	1	79	0.88
403791--403848	30	1.9	31	92	3	100	1	17	1	79	0.90
409809--409858	2	25.5	2	95	4	93	50	0	0	50	1.00
418921--419015	8	11.0	8	71	22	52	2	17	3	76	1.01
418921--419014	18	5.1	17	78	17	66	2	18	3	76	1.02
418932--418989	30	1.9	31	89	3	91	3	15	3	77	1.04
418947--418998	22	2.4	22	100	0	104	3	17	3	75	1.11
424839--424944	35	3.0	34	82	5	131	27	33	5	33	1.80
430380--430493	35	3.2	35	82	3	131	33	1	35	29	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430436--430494	13	4.8	13	73	12	61	32	0	38	28	1.57
436591--436636	24	2.0	21	84	12	56	17	13	13	56	1.67
439395--439436	22	1.9	22	85	0	57	35	0	21	42	1.53
456778--456808	15	2.1	14	94	5	53	38	12	0	48	1.42
458565--458646	32	2.6	32	84	9	114	20	21	0	57	1.41
462805--462866	22	2.7	23	87	9	92	61	16	14	8	1.55
464159--464201	23	1.9	21	81	13	50	32	18	13	34	1.90
474380--474427	20	2.4	20	92	0	78	79	8	10	2	1.02
481431--481526	17	5.5	17	75	13	81	39	13	7	39	1.72
484250--484278	15	2.0	15	93	6	51	75	3	20	0	0.94
488365--488405	22	1.9	22	90	5	66	12	7	19	60	1.54
490238--490306	29	2.4	29	95	2	122	59	0	26	14	1.36
501064--501108	23	2.0	23	83	16	58	51	11	6	31	1.63
501815--501850	17	2.1	17	89	0	54	38	0	30	30	1.58
502045--502097	24	2.2	24	86	10	72	7	18	3	69	1.28
502127--502171	6	7.3	6	85	14	65	2	17	0	80	0.82
512547--512582	17	2.1	18	89	5	56	36	0	30	33	1.58
513188--513300	35	3.2	35	87	1	154	33	3	35	27	1.74
517683--517736	28	1.9	28	85	7	74	5	20	1	72	1.14
522658--522710	17	3.1	17	83	5	72	39	15	5	39	1.70
526433--526504	17	4.2	16	81	12	81	38	13	8	38	1.75
529563--529615	24	2.2	24	93	0	88	35	15	26	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530923--530988	30	2.2	29	81	7	80	7	16	6	69	1.32
531018--531050	13	2.7	12	90	9	57	0	12	6	81	0.85
531011--531050	19	2.2	18	86	4	53	0	15	5	80	0.88
531375--531407	11	2.8	12	86	9	50	27	0	39	33	1.57
542337--542373	17	2.2	17	90	0	56	35	18	5	40	1.74
545769--545811	6	6.7	6	80	15	50	83	0	11	4	0.78
545842--545872	11	2.8	11	100	0	62	80	0	19	0	0.71
546020--546055	5	7.0	5	87	6	54	16	25	0	58	1.38
546006--546064	21	2.8	21	92	0	91	13	23	0	62	1.31
546006--546064	16	3.8	16	78	13	52	13	23	0	62	1.31
550097--550126	14	2.1	15	93	6	53	3	13	6	76	1.11
556381--556420	21	1.9	21	90	10	64	47	5	27	20	1.70
561165--561216	21	2.6	20	84	6	70	48	7	11	32	1.68
562005--562053	25	1.9	25	83	4	62	44	6	14	34	1.70
564365--564429	13	4.8	13	74	12	51	7	12	3	76	1.10
564753--564791	20	1.9	21	84	5	53	33	0	38	28	1.57
573884--573933	25	2.0	25	84	7	66	6	16	4	74	1.17
582024--582071	17	2.8	17	81	15	55	68	2	14	14	1.30
593477--593518	15	2.7	15	88	7	57	54	0	28	16	1.42
600590--600638	16	3.3	15	81	10	57	65	0	18	16	1.28
600590--600638	15	3.4	14	78	15	55	65	0	18	16	1.28
606532--606599	2	34.5	2	94	2	120	48	0	1	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612534--612580	25	1.9	25	86	4	69	2	14	6	76	1.08
616701--616741	12	3.3	13	80	10	50	4	19	2	73	1.13
616935--616982	15	3.1	14	83	16	60	58	0	25	16	1.38
616932--616984	26	2.1	24	83	16	63	58	0	22	18	1.39
630746--630782	19	1.9	19	88	0	56	40	5	16	37	1.71
630950--631001	21	2.4	21	93	3	86	36	21	21	21	1.95
632839--632897	13	4.8	13	71	12	52	27	38	1	32	1.67
632838--632953	35	3.3	35	87	1	169	27	36	3	32	1.74
633755--633779	13	1.9	13	100	0	50	40	0	36	24	1.55
635776--635826	20	2.6	20	87	3	59	33	17	5	43	1.73
636536--636592	12	4.4	12	79	14	60	75	3	19	1	1.04
636536--636595	27	2.3	26	77	5	68	75	3	20	1	1.04
637830--637911	24	3.4	24	72	0	74	35	21	17	25	1.95
641673--641714	19	2.2	19	86	0	57	50	4	7	38	1.51
647415--647447	15	2.2	15	94	0	57	0	27	0	72	0.85
647414--647446	10	3.4	10	91	4	50	0	30	0	69	0.88
650302--650345	16	2.6	18	78	14	56	68	0	18	13	1.22
650476--650524	14	3.6	14	86	10	66	2	18	0	79	0.83
653269--653332	19	3.5	18	85	8	76	37	18	6	37	1.76
653277--653331	17	3.1	17	87	7	74	40	18	5	36	1.74
658512--658554	20	2.2	20	87	4	61	34	9	6	48	1.62
659079--659110	15	2.1	15	100	0	64	18	25	0	56	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662672--662711	19	2.1	19	90	0	62	32	7	7	52	1.58
675900--675932	17	1.9	17	93	0	57	36	0	33	30	1.58
676639--676750	35	3.2	35	89	1	170	31	3	36	28	1.74
676692--676749	13	4.7	13	68	12	50	29	1	41	27	1.66
677194--677249	29	1.9	29	96	0	103	32	21	21	25	1.98
685405--685446	13	3.4	12	80	12	50	73	4	11	9	1.22
685405--685451	24	1.9	25	87	12	71	72	4	14	8	1.24
688336--688371	2	18.5	2	94	5	65	50	0	0	50	1.00
694085--695419	666	2.0	667	94	0	2332	36	13	17	33	1.88
696586--697920	666	2.0	667	94	0	2357	36	13	17	33	1.88
699088--700648	667	2.4	665	95	1	2800	34	14	17	32	1.91
702948--702973	13	2.0	13	100	0	52	30	30	0	38	1.58
709550--709601	21	2.6	20	87	6	70	38	13	5	42	1.68
710304--710373	20	3.5	19	81	12	70	74	4	17	4	1.14
710311--710385	35	2.2	32	81	11	80	73	4	16	6	1.20
713612--713662	20	2.6	20	90	3	77	35	15	5	43	1.71
715754--715795	22	1.9	22	85	9	59	54	7	2	35	1.41
717788--717829	16	2.6	16	88	0	66	40	19	33	7	1.78
718027--718071	23	2.0	23	82	8	56	51	8	6	33	1.59
720949--720990	13	3.4	12	80	12	50	7	14	4	73	1.21
720941--720990	24	2.0	25	88	11	77	6	16	4	74	1.17
722436--722480	23	2.0	23	83	16	58	51	11	6	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724607--724645	16	2.4	16	95	0	69	41	17	33	7	1.79
725699--725765	17	3.9	17	80	7	64	40	10	11	37	1.77
725722--725765	18	2.5	18	89	10	65	43	13	6	36	1.71
728284--728328	16	2.8	16	89	0	72	40	15	31	13	1.86
729377--729443	17	3.9	17	80	7	64	40	10	11	37	1.77
729400--729443	18	2.5	18	89	10	65	43	13	6	36	1.71
732123--732169	24	2.0	24	82	0	58	27	19	23	29	1.98
743752--743802	20	2.6	20	90	3	77	35	15	5	43	1.71
744516--744567	22	2.4	22	90	6	79	76	3	17	1	1.02
746584--746643	30	2.0	31	83	3	77	26	8	10	55	1.61

Tables:   1   2   3   4   5