genome.fa.s7725.2.7.7.80.10.50.1000.3.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: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3026330

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1646 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)
416661--416749	26	3.7	23	78	17	92	31	2	1	65	1.12
416655--416747	14	7.1	14	76	16	92	31	2	1	65	1.11
416654--416749	3	33.0	3	76	15	87	31	2	1	65	1.11
419484--420093	304	2.0	306	95	4	1101	27	13	18	40	1.88
422400--422442	24	1.9	23	86	13	63	37	9	4	48	1.56
423739--423773	13	2.6	13	90	4	52	62	2	2	31	1.24
427124--427152	2	14.5	2	100	0	58	48	0	0	51	1.00
430429--430531	15	6.5	15	80	15	118	44	0	2	52	1.16
430511--431185	32	24.7	31	71	26	433	37	0	10	52	1.38
430444--430557	47	2.3	51	88	7	164	42	0	5	51	1.24
430539--430598	22	2.7	22	100	0	120	40	0	8	51	1.32
430560--431175	54	11.3	54	85	8	831	36	0	11	51	1.39
430642--430694	14	3.5	14	72	18	52	37	0	3	58	1.16
430697--430761	22	3.0	22	90	4	105	38	0	10	50	1.37
430704--430841	22	6.7	20	75	17	92	36	0	11	50	1.44
430781--430841	22	2.8	22	94	0	104	37	1	11	49	1.49
430885--430927	22	2.0	22	95	0	77	37	0	11	51	1.39
430939--430981	22	2.0	22	95	0	77	37	0	13	48	1.43
430993--431035	22	2.0	22	100	0	86	34	0	13	51	1.42
431047--431089	22	2.0	22	100	0	86	34	0	13	51	1.42
431132--431184	14	3.5	14	72	18	52	37	0	5	56	1.23
431200--431258	31	1.9	31	96	0	109	42	8	6	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432309--432360	14	3.5	14	73	14	50	50	1	0	48	1.12
434156--434194	20	2.0	19	85	5	51	48	7	0	43	1.31
434524--434597	29	2.6	28	76	4	85	48	10	13	27	1.75
439961--440010	20	2.5	20	78	12	59	40	2	2	56	1.22
439928--440014	31	2.8	30	79	10	95	41	1	3	54	1.25
440730--440817	32	2.8	30	78	13	88	54	3	1	40	1.24
440733--440790	11	5.7	10	74	22	50	56	1	1	39	1.19
448283--448356	31	2.4	31	95	0	130	29	12	18	39	1.87
448814--448923	13	8.8	13	71	19	92	43	0	1	54	1.10
448842--448923	39	2.2	36	87	10	112	43	0	2	53	1.13
448787--448944	62	2.6	63	91	7	247	41	0	2	55	1.18
449447--449537	31	2.9	31	98	0	173	43	12	6	37	1.68
451691--451730	18	2.3	18	87	8	57	37	0	5	57	1.21
451916--451969	21	2.7	20	75	13	65	38	12	7	40	1.72
454137--454186	16	3.2	16	68	21	52	42	4	6	48	1.46
454136--454196	30	2.0	30	100	0	122	45	3	6	44	1.46
456675--456705	2	15.5	2	100	0	62	51	0	0	48	1.00
459452--459496	16	2.8	16	100	0	90	44	26	15	13	1.83
460029--460107	26	3.0	26	96	0	140	21	30	12	35	1.91
461709--461805	45	2.2	45	84	0	122	18	11	31	38	1.86
463335--463384	15	3.2	16	75	13	50	42	6	16	36	1.72
463319--463412	45	2.1	44	84	2	116	39	6	17	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470603--470697	23	4.1	23	76	0	82	17	21	23	37	1.94
470627--470713	23	3.8	23	78	3	77	18	22	22	35	1.95
473424--473499	21	3.6	21	75	10	73	27	14	27	30	1.95
481231--481475	56	4.4	56	74	4	203	34	19	20	25	1.96
481153--481475	110	2.9	110	81	4	332	35	19	19	25	1.95
481213--481422	54	3.8	55	76	3	210	35	20	20	24	1.96
490522--490601	19	3.9	19	68	17	52	61	2	3	32	1.27
490688--490728	21	2.0	21	85	9	57	63	0	4	31	1.15
491078--491179	36	2.8	37	86	3	143	29	15	13	41	1.86
491852--492511	106	6.3	106	86	4	883	23	18	24	33	1.97
492449--492600	43	3.4	43	68	13	128	21	19	25	33	1.97
492209--492813	302	2.0	302	94	0	1066	22	18	25	33	1.97
492426--492601	90	2.0	90	96	0	325	22	19	25	33	1.97
491898--492878	212	4.8	204	86	6	1215	22	18	25	33	1.97
492105--492878	408	1.9	406	94	0	1377	22	18	25	33	1.97
492511--492878	106	3.5	106	93	1	614	22	18	26	33	1.97
493713--493770	22	2.6	22	88	0	89	18	10	31	39	1.85
494389--494466	19	4.1	19	76	14	56	2	15	5	76	1.06
494375--494444	19	3.5	19	74	14	61	5	12	4	77	1.10
495596--495631	8	4.6	8	89	6	56	55	13	16	13	1.69
495596--495631	15	2.3	15	90	4	54	55	13	16	13	1.69
496140--496167	14	2.0	14	100	0	56	7	28	7	57	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498895--498974	12	6.6	12	77	8	72	73	0	6	20	1.04
498919--498980	4	15.2	4	81	9	72	74	0	4	20	1.00
499020--499073	21	2.8	18	81	15	56	62	3	3	29	1.29
499024--499074	18	2.6	19	79	11	59	62	3	3	29	1.31
499258--499318	19	3.1	19	71	19	52	62	3	4	29	1.32
499423--499471	21	2.4	22	80	13	59	63	2	4	30	1.24
500248--500352	37	2.8	37	88	0	156	40	15	15	29	1.88
502598--502717	51	2.4	51	84	0	150	46	16	10	25	1.80
506453--506492	16	2.6	15	84	7	53	27	2	2	67	1.16
506450--506486	16	2.3	16	90	0	56	35	0	2	62	1.10
514880--514924	6	7.5	6	97	0	72	0	15	55	28	1.41
515014--515226	21	10.2	20	75	15	175	33	23	20	23	1.97
515014--515226	42	5.1	40	82	8	223	33	23	20	23	1.97
515014--515234	63	3.5	63	79	12	260	33	23	20	22	1.97
515042--515226	84	2.2	82	93	3	307	32	24	20	22	1.97
515063--515234	42	4.1	42	87	1	258	34	23	19	22	1.97
518406--518481	23	3.3	23	78	14	84	22	19	25	32	1.97
524698--524744	18	2.6	18	96	0	85	19	12	36	31	1.89
525338--525438	23	4.3	24	82	5	116	18	23	24	32	1.97
532465--532518	21	2.7	19	75	13	54	42	24	11	22	1.85
536641--536719	20	4.0	20	74	12	72	29	18	11	40	1.86
537890--537918	2	15.0	2	92	7	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558341--558377	20	1.9	19	89	10	58	45	10	24	18	1.81
561939--561963	13	1.9	13	100	0	50	36	8	16	40	1.77
563319--563389	34	2.2	32	87	5	97	21	32	15	30	1.94
563873--563932	29	2.0	31	87	6	88	41	15	6	36	1.73
565233--565365	59	2.3	59	84	7	173	37	21	15	26	1.92
565240--565403	56	2.8	61	79	10	180	33	22	17	26	1.96
569260--569474	63	3.5	62	84	5	238	33	20	19	26	1.96
574550--574606	2	29.0	2	82	10	73	45	1	3	49	1.29
575635--575700	17	3.9	16	70	14	53	15	7	3	74	1.17
576014--576055	11	3.6	11	90	6	57	16	0	0	83	0.65
579104--579144	2	20.5	2	85	9	57	48	2	2	46	1.28
580160--580235	17	4.5	17	71	14	59	14	7	2	75	1.14
580144--580190	23	2.0	23	84	8	60	12	8	2	76	1.09
580551--580583	14	2.4	14	90	5	50	18	0	3	78	0.87
581459--581495	20	1.9	19	89	10	58	45	10	24	18	1.81
584004--584029	11	2.4	11	100	0	52	61	0	0	38	0.96
584111--584158	17	2.7	17	80	6	51	52	0	0	47	1.00
584408--584467	2	30.0	2	100	0	120	0	50	0	50	1.00
584467--584510	2	22.0	2	100	0	88	50	0	0	50	1.00
597988--598034	14	3.7	14	71	26	50	44	0	4	51	1.21
597987--598036	23	2.1	24	96	3	93	48	0	4	48	1.20
598203--598296	7	13.6	7	71	2	55	22	1	27	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598192--598296	21	5.0	21	77	9	90	22	1	26	48	1.61
598204--598296	14	6.7	14	75	9	66	22	1	26	49	1.57
598289--598381	48	1.9	49	84	2	125	32	7	9	50	1.63
598371--598416	15	3.2	13	82	17	56	36	2	10	50	1.50
598908--598946	14	2.8	14	88	0	51	33	0	15	51	1.44
598967--599001	15	2.3	15	100	0	70	34	11	0	54	1.37
599021--599051	2	16.0	2	93	6	55	51	0	0	48	1.00
599139--609661	4	2657.2	4	81	7	11001	44	24	4	26	1.73
604293--604329	2	19.0	2	94	5	67	48	0	0	51	1.00
609895--609956	8	7.0	8	73	20	52	27	27	0	45	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14