genome.fa.s9141.2.7.7.80.10.50.1000.3.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: VEPZ01009141.1 Hibiscus syriacus cultivar Beakdansim tig00112649_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  919200

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 623 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)
393106--393273	81	2.1	81	87	2	239	22	20	17	39	1.92
394322--394382	22	2.7	22	82	10	70	6	11	1	80	0.97
394331--394400	16	4.3	15	81	17	61	7	12	1	78	1.01
394324--394400	22	3.5	21	81	13	68	7	11	1	79	1.00
409959--410049	45	2.0	45	97	0	173	6	38	20	34	1.79
411413--411489	35	2.2	35	88	6	120	42	3	6	46	1.48
421894--422248	55	6.5	55	85	7	433	28	25	18	27	1.98
421886--422248	165	2.2	161	85	5	482	27	26	18	27	1.98
422519--422551	17	1.9	17	88	11	50	30	27	3	39	1.72
423577--423633	24	2.4	24	80	16	73	12	10	0	77	1.00
423708--423749	19	2.3	19	91	4	68	11	14	0	73	1.09
427173--427212	2	20.0	2	84	0	53	50	7	0	42	1.30
427177--427212	8	4.5	8	96	0	63	50	8	0	41	1.33
433338--433427	45	2.0	46	84	8	121	42	17	7	32	1.78
437585--437662	38	2.1	38	80	4	86	44	0	5	50	1.24
437704--437771	21	3.2	21	62	22	52	39	2	5	51	1.41
437692--437777	42	2.1	42	86	2	120	46	2	4	46	1.36
437718--437793	15	5.3	15	71	15	70	42	1	2	53	1.23
437703--437794	42	2.2	42	98	1	177	42	2	4	51	1.34
441224--441301	27	2.8	29	88	3	106	35	5	12	46	1.65
441290--441366	39	2.0	39	84	5	102	33	6	15	44	1.72
445030--445073	18	2.6	17	85	7	63	25	4	2	68	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446777--446804	5	5.6	5	100	0	56	17	0	0	82	0.68
449395--449436	9	4.6	9	84	3	57	85	4	9	0	0.72
449395--449439	20	2.3	18	85	11	54	84	4	11	0	0.76
450033--450075	22	2.0	22	90	4	70	39	23	11	25	1.88
451109--451266	36	4.3	36	92	2	262	26	19	12	41	1.87
451146--451471	138	2.4	137	85	1	445	28	20	12	38	1.89
451190--451372	102	1.8	101	86	1	267	30	18	13	38	1.89
451285--451408	36	3.4	36	90	3	187	28	21	13	36	1.92
451329--451387	21	3.1	21	63	27	58	30	18	13	37	1.90
451030--451408	174	2.2	173	83	4	478	29	20	12	37	1.90
451366--451540	65	2.6	65	84	4	224	33	21	9	36	1.85
452183--452804	105	6.0	105	90	2	903	34	26	17	22	1.96
453837--453879	18	2.5	17	79	20	54	25	6	2	65	1.30
455198--455251	21	2.4	23	80	17	60	64	11	5	18	1.44
455292--455316	12	2.1	12	100	0	50	68	0	0	32	0.90
456203--456282	41	2.0	42	90	5	128	22	12	8	56	1.63
457515--457548	16	2.1	16	94	0	59	29	17	20	32	1.96
459484--460479	498	2.0	496	96	0	1823	30	17	16	35	1.92
463580--463612	16	2.1	16	100	0	66	36	24	12	27	1.91
464932--464965	17	2.1	16	88	5	50	14	8	0	76	1.01
471317--471359	20	2.1	21	87	8	63	18	13	0	67	1.23
471316--471365	20	2.5	20	75	15	59	18	18	0	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475180--475213	17	2.1	16	88	5	50	14	8	0	76	1.01
475624--475679	28	2.0	28	100	0	112	32	21	10	35	1.88
479887--480461	4	143.8	4	97	0	1071	25	0	24	49	1.54
480479--480525	8	5.8	8	82	10	51	46	2	0	51	1.13
480531--480564	17	2.0	17	94	0	59	32	0	14	52	1.42
486661--487292	287	2.3	280	85	6	827	33	16	5	44	1.71
494059--494154	42	2.3	41	78	7	104	31	25	20	22	1.98
494259--494370	42	2.7	41	80	4	125	28	21	25	25	1.99
494028--495551	214	7.1	214	93	0	2411	31	20	15	32	1.94
494700--494800	42	2.4	41	83	3	139	31	22	21	23	1.98
494920--495014	42	2.3	41	83	3	127	31	23	21	24	1.98
495331--495442	42	2.7	41	80	4	125	29	22	24	24	1.99
497643--497675	2	17.0	2	93	6	59	48	0	0	51	1.00
501910--501955	20	2.3	20	100	0	92	32	26	4	36	1.76
510275--510304	3	10.0	3	92	0	51	30	0	3	66	1.07
511922--511951	4	7.5	4	100	0	60	26	0	23	50	1.50
517357--517485	36	3.6	36	82	9	147	33	17	12	36	1.88
517425--517484	19	3.3	19	62	9	52	30	20	10	40	1.85
517541--517678	66	2.1	65	89	4	206	21	21	15	41	1.90
517813--517948	40	3.3	39	71	17	123	27	33	16	22	1.95
517806--517985	83	2.2	83	89	2	272	25	32	17	25	1.96
517830--517957	40	3.1	40	72	14	134	25	35	17	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517711--518095	213	1.8	213	86	2	567	26	28	18	26	1.98
518285--518363	3	26.3	3	100	0	158	32	0	0	67	0.91
519513--519587	39	1.9	39	89	5	116	14	18	17	49	1.80
528063--528119	28	2.0	28	89	0	87	29	21	19	29	1.97
530217--530431	92	2.4	89	89	2	322	31	19	17	31	1.95
535284--535328	17	2.7	17	93	3	74	48	4	8	37	1.55
535781--535820	21	1.9	21	89	0	62	55	0	5	40	1.22
537563--537622	32	1.9	32	89	3	95	55	3	13	28	1.54
540352--540395	23	1.9	23	85	0	61	50	18	20	11	1.77
540399--540454	21	2.7	19	78	13	58	71	3	1	23	1.11
549148--549197	19	2.7	19	90	9	77	18	24	22	36	1.95
550526--550563	20	1.9	20	88	0	58	34	13	26	26	1.93
550762--550827	2	33.0	2	93	6	116	50	0	1	48	1.10
552995--553020	2	13.0	2	100	0	52	50	0	0	50	1.00
554295--554376	41	2.0	41	90	0	128	21	17	18	42	1.89
558399--558469	31	2.3	30	83	7	90	35	15	7	42	1.74
562734--562759	10	2.6	10	100	0	52	73	0	0	26	0.84
564759--564838	21	3.8	21	91	0	133	27	26	22	23	2.00
564917--565051	65	2.1	63	80	5	155	31	20	22	26	1.98
567639--567739	44	2.3	44	81	8	118	27	18	21	31	1.97
576118--576212	32	3.2	32	77	20	123	36	0	34	28	1.58
576150--576203	25	2.2	25	100	0	108	37	0	35	27	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579999--580037	3	13.0	3	83	0	51	58	0	7	33	1.26
579999--580037	12	3.2	12	92	0	60	58	0	7	33	1.26
580221--580630	138	3.0	136	82	4	475	27	17	26	28	1.98
580633--580818	66	2.9	64	84	4	243	43	12	15	29	1.83
580822--581002	99	1.8	101	81	6	233	33	9	20	35	1.86
582609--582661	2	26.5	2	100	0	106	49	0	0	50	1.00
584755--584784	14	2.1	15	93	6	53	56	13	16	13	1.67
586695--586745	17	3.0	17	80	11	68	27	13	23	35	1.93
585926--587485	790	2.0	790	97	0	2942	39	14	14	30	1.87
589320--589349	3	10.3	3	92	7	53	66	0	0	33	0.92
591634--591706	37	2.0	37	89	2	112	43	10	28	16	1.82
593311--593645	168	2.0	167	98	0	643	36	7	15	40	1.75
600715--600807	21	4.5	21	78	4	100	39	18	24	17	1.91
600715--600807	41	2.3	41	100	0	186	39	18	24	17	1.91
600734--600868	41	3.3	41	82	6	132	37	21	21	19	1.94
600796--600910	20	5.7	20	82	6	115	31	26	18	24	1.97
600793--600924	41	3.2	41	78	6	151	34	25	16	23	1.95
601098--601141	22	2.0	22	95	0	79	20	45	15	18	1.85
601404--601462	20	3.0	20	87	0	73	16	18	22	42	1.89
602782--602826	18	2.5	18	88	0	72	26	44	15	13	1.83
603308--603374	20	3.4	20	81	2	73	38	23	22	14	1.92
603308--603428	19	6.6	19	77	13	92	42	22	21	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603441--603497	14	3.8	14	78	17	69	8	15	26	49	1.74
603435--603513	32	2.4	33	93	2	133	10	17	24	48	1.78
603456--603513	18	3.4	17	73	22	59	12	18	22	46	1.82
603507--603553	20	2.3	20	88	0	67	17	23	23	36	1.95
605291--605326	14	2.6	14	90	0	54	30	0	22	47	1.52
605443--605510	19	3.8	19	85	14	101	47	17	22	13	1.82
605529--605586	20	2.9	20	92	0	98	17	22	22	37	1.93
606643--606696	24	2.2	24	90	0	81	24	16	20	38	1.92
606871--606895	12	2.1	12	100	0	50	72	0	28	0	0.86
609177--609307	19	7.7	19	66	23	94	42	19	22	14	1.88

Tables:   1   2   3   4   5   6