genome.fa.s7709.2.7.7.80.10.50.1000.2.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: VEPZ01007709.1 Hibiscus syriacus cultivar Beakdansim tig00109924_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  657132

Tables:   1   2   3   

This is table  2  of  3  ( 285 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)
322743--322772	2	15.0	2	100	0	60	50	0	0	50	1.00
326468--326502	2	17.5	2	100	0	70	51	0	0	48	1.00
336898--336945	23	2.1	23	84	0	60	37	12	16	33	1.86
337306--337358	23	2.4	22	79	14	56	41	20	1	35	1.64
337702--337788	39	2.2	39	95	0	156	17	13	20	48	1.81
338633--338684	23	2.3	22	90	6	77	44	19	1	34	1.62
338643--338705	23	2.7	23	90	0	90	38	19	6	36	1.77
339026--339112	39	2.2	39	95	0	156	17	13	20	48	1.81
339369--339405	18	2.1	18	89	0	56	51	10	5	32	1.60
339653--339703	25	2.0	25	92	0	84	39	19	7	33	1.81
339926--339962	19	1.9	19	88	0	56	45	10	16	27	1.80
339966--340017	23	2.3	22	90	6	77	44	19	1	34	1.62
339976--340038	23	2.7	23	90	0	90	38	19	6	36	1.77
340393--340464	23	3.2	22	82	4	81	37	20	5	36	1.76
340817--340868	23	2.3	22	90	6	77	44	19	1	34	1.62
340827--340889	23	2.7	23	90	0	90	38	19	6	36	1.77
341244--341295	23	2.3	22	90	6	77	44	19	1	34	1.62
341254--341316	23	2.7	23	90	0	90	38	19	6	36	1.77
339738--341414	425	3.9	429	96	2	3007	39	12	7	39	1.73
342935--343720	196	4.0	198	95	3	1405	31	16	15	35	1.90
343869--343917	19	2.6	19	93	0	80	57	10	2	30	1.43
345699--345761	33	1.9	33	86	0	90	23	46	1	28	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348070--348116	20	2.4	19	80	19	69	21	17	10	51	1.75
348237--348282	20	2.3	20	89	10	76	17	17	10	54	1.70
348347--348795	229	2.0	228	95	0	808	39	7	8	44	1.62
362930--362959	2	15.0	2	92	0	51	46	0	0	53	1.00
362935--362992	16	3.8	16	80	15	61	46	0	1	51	1.11
362936--362992	15	3.9	14	80	15	53	47	0	1	50	1.11
364672--364705	17	2.0	17	100	0	68	11	23	47	17	1.81
364713--364767	9	5.6	10	74	18	53	32	27	25	14	1.95
364713--364768	20	2.8	19	84	12	69	32	26	25	16	1.96
365504--365537	11	3.1	11	91	0	50	50	23	2	23	1.63
367250--367293	24	1.9	24	86	9	65	65	0	0	34	0.93
368161--368200	4	9.5	4	86	5	53	27	0	5	67	1.11
370940--371101	59	2.7	58	82	6	157	34	19	2	43	1.64
371185--371352	60	2.8	59	79	2	183	41	5	23	29	1.78
371812--371862	28	2.0	27	85	14	72	29	1	3	64	1.22
377689--377738	23	2.2	23	89	3	75	62	10	12	16	1.55
381983--382019	18	2.0	19	89	5	58	45	35	16	2	1.61
391933--392018	21	4.1	21	76	11	104	39	17	18	24	1.92
391945--392036	42	2.2	41	86	3	139	40	19	18	21	1.92
392008--392061	20	2.7	20	88	5	74	38	20	22	18	1.93
392072--392164	40	2.3	40	92	0	150	23	18	27	30	1.98
393861--393904	14	2.9	14	80	12	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405314--405346	2	16.5	2	100	0	66	51	0	0	48	1.00
407130--407207	24	3.2	24	64	25	65	43	3	6	46	1.47
426316--426341	2	13.0	2	100	0	52	50	50	0	0	1.00
427339--427383	19	2.4	19	85	3	56	71	11	15	2	1.24
427787--427818	3	10.7	3	93	0	55	65	3	0	31	1.08
428911--429096	85	2.2	86	94	0	320	33	11	24	30	1.91
429664--429697	2	17.0	2	100	0	68	50	0	0	50	1.00
430215--430258	3	14.7	3	100	0	88	34	0	0	65	0.93
435014--435171	21	7.8	20	70	7	77	37	25	17	18	1.93
435139--435347	20	10.4	20	80	6	199	37	25	17	19	1.93
436039--436085	24	2.0	24	87	8	69	25	14	21	38	1.92
438581--438709	34	3.7	33	72	19	118	45	17	21	14	1.85
438581--438709	53	2.4	53	94	2	224	45	17	21	14	1.85
438581--438709	19	7.2	19	77	19	152	45	17	21	14	1.85
438688--438803	53	2.2	52	84	3	151	18	22	18	39	1.92
438726--438824	19	5.4	19	82	14	127	15	23	16	45	1.84
438711--438824	53	2.2	53	95	3	203	14	23	16	44	1.85
438931--438967	14	2.6	14	91	0	65	45	21	0	32	1.52
440886--441058	19	9.6	19	76	15	152	45	23	20	10	1.82
440961--441053	33	2.8	33	93	3	161	45	21	22	10	1.83
441070--441128	14	3.9	14	76	20	64	6	16	28	47	1.72
441054--441161	33	3.3	33	94	0	180	7	18	26	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441054--441145	19	5.4	18	72	24	83	7	17	28	46	1.75
441103--441159	14	3.7	14	72	20	51	8	22	24	43	1.81
443087--443183	20	5.2	20	72	18	100	46	17	24	11	1.81
443085--443149	21	3.1	21	82	4	96	47	15	26	10	1.78
443134--443190	14	3.7	14	75	20	60	43	22	24	8	1.81
443085--443207	33	3.5	33	90	8	165	46	18	24	10	1.81
443224--443313	14	5.7	14	72	23	72	8	24	22	44	1.81
443208--443320	33	3.4	33	97	0	208	8	22	22	46	1.78
443235--443365	19	7.2	19	71	20	111	11	22	18	47	1.80
443301--443374	21	3.5	21	80	7	96	13	21	17	47	1.82
443457--443525	32	2.2	32	94	0	120	46	18	23	11	1.82
443476--443525	16	3.0	18	69	22	54	44	20	24	12	1.85
443926--444075	20	7.5	20	86	3	194	18	19	28	34	1.95
444104--444161	21	2.8	21	97	0	107	22	18	22	36	1.95
451876--451942	22	3.0	22	100	0	134	26	26	26	19	1.99
452955--452989	18	1.9	18	88	11	54	22	17	5	54	1.64
453571--453613	21	2.0	21	86	0	59	16	27	27	27	1.97
456749--456815	22	3.0	22	100	0	134	26	26	26	19	1.99
457828--457862	18	1.9	18	88	11	54	22	17	5	54	1.64
458444--458486	21	2.0	21	86	0	59	16	27	27	27	1.97
484908--484959	5	10.4	5	82	0	50	3	25	0	71	1.03
493095--493163	29	2.3	30	76	9	70	50	2	14	31	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493306--493364	31	1.9	31	85	0	82	27	6	13	52	1.65
493632--493660	2	14.5	2	100	0	58	48	0	0	51	1.00
501880--501955	39	1.9	39	86	5	109	38	11	15	34	1.84
501972--502028	14	4.4	14	76	17	59	8	12	24	54	1.65
501973--502047	24	3.1	24	88	3	98	12	10	21	56	1.66
502766--502839	10	7.7	10	67	24	52	9	12	20	58	1.61
502772--502843	16	4.7	16	89	6	105	9	11	19	59	1.58
502772--502835	32	2.0	31	96	3	119	7	12	21	57	1.60
502905--502937	16	2.1	16	100	0	66	6	12	24	57	1.57
506732--506769	20	1.9	20	100	0	76	36	10	28	23	1.88
506245--507206	506	1.9	504	92	2	1608	39	7	14	39	1.74
507216--507499	157	1.8	158	85	5	405	33	23	20	22	1.97
517966--517991	13	2.0	13	100	0	52	53	7	0	38	1.30
519010--519051	2	21.0	2	100	0	84	50	0	0	50	1.00
526834--526875	2	21.0	2	100	0	84	50	0	0	50	1.00
531999--532052	24	2.2	24	83	6	65	48	3	3	44	1.38
535511--535571	29	2.1	29	84	6	79	32	3	27	36	1.73
535516--535582	29	2.3	29	82	7	75	37	4	26	31	1.77
536247--536281	2	17.5	2	100	0	70	51	0	0	48	1.00
549239--549318	32	2.5	32	95	0	142	28	25	18	27	1.98
549228--549318	32	2.9	32	88	4	141	30	23	18	27	1.98
550451--550488	19	2.0	20	85	15	53	5	34	0	60	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550949--550991	21	2.0	21	86	0	59	30	27	25	16	1.97
557248--557285	19	2.0	20	85	15	53	5	34	0	60	1.19
557744--557786	21	2.0	21	86	0	59	30	27	25	16	1.97
567380--567465	10	9.0	10	72	19	51	77	2	3	16	1.00
567404--567438	18	1.9	18	88	0	52	77	0	2	20	0.90
567425--567465	20	2.0	20	95	0	73	82	4	4	7	0.93
568138--568172	16	2.2	16	94	0	61	25	0	0	74	0.82
568133--568194	21	2.8	21	85	9	70	24	0	0	75	0.80
568132--568194	16	4.1	16	74	14	60	23	0	0	76	0.79
568132--568190	13	4.8	13	78	17	72	25	0	0	74	0.82

Tables:   1   2   3