genome.fa.s8650.2.7.7.80.10.50.1000.2.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: VEPZ01008650.1 Hibiscus syriacus cultivar Beakdansim tig00111640_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1713193

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 662 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)
345294--345469	30	5.9	30	93	1	248	23	25	21	29	1.99
352650--352712	30	2.1	30	85	5	83	30	9	11	49	1.70
362440--362510	37	1.9	37	94	0	124	36	5	11	46	1.63
363400--363502	31	3.2	31	80	8	116	54	12	12	20	1.70
364627--364711	25	3.4	25	68	12	66	45	1	4	48	1.31
364799--364848	6	8.2	6	75	20	50	52	0	0	48	1.00
364793--364848	18	3.2	17	85	12	69	53	0	0	46	1.00
364799--364847	24	2.0	24	88	8	71	51	0	0	48	1.00
364803--364848	19	2.5	19	89	10	69	50	0	0	50	1.00
366496--366535	2	20.0	2	100	0	80	50	0	0	50	1.00
367415--367470	27	2.1	27	83	6	69	19	7	39	33	1.79
374222--374247	10	2.6	10	100	0	52	57	23	19	0	1.40
380487--380649	34	4.6	32	74	18	103	42	7	4	46	1.51
380487--380756	37	7.5	35	74	16	184	42	8	5	44	1.57
380585--380704	35	3.4	34	81	13	102	44	10	4	41	1.57
380771--380813	8	5.2	9	86	13	58	44	6	0	48	1.29
381164--381403	120	2.0	120	100	0	480	25	19	21	34	1.96
381560--382334	84	9.4	83	77	6	705	24	20	24	30	1.98
381531--382334	165	4.9	163	82	5	796	24	20	24	30	1.98
381725--382334	248	2.5	248	85	2	848	25	20	23	30	1.98
381560--382334	413	1.9	416	88	1	1198	24	20	24	30	1.98
395023--395102	21	3.8	20	85	8	115	15	46	12	26	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395017--395109	42	2.2	42	94	3	161	12	46	13	26	1.80
395099--395138	15	2.6	15	88	4	53	10	42	22	25	1.84
408188--408236	19	2.5	19	86	6	62	38	8	0	53	1.31
411934--411964	10	3.1	10	100	0	62	0	51	0	48	1.00
416553--416590	2	19.0	2	100	0	76	50	0	0	50	1.00
435155--435287	31	4.3	31	85	0	149	41	11	12	35	1.78
435155--435287	62	2.1	62	84	0	167	41	11	12	35	1.78
435208--435257	16	3.2	16	71	5	57	44	12	10	34	1.75
438550--438595	23	2.0	24	82	4	58	39	2	0	58	1.10
438851--438889	17	2.2	18	95	4	71	58	0	0	41	0.98
447629--447682	26	2.1	26	92	0	90	33	31	14	20	1.93
447980--448006	14	1.9	14	100	0	54	0	40	0	59	0.98
457069--457110	21	2.0	21	85	0	57	50	0	0	50	1.00
457083--457131	22	2.1	24	85	7	66	51	2	0	46	1.12
457125--457175	24	2.1	24	81	3	57	62	1	0	35	1.06
457474--457513	20	2.0	20	100	0	80	5	30	20	45	1.72
459007--459044	20	1.9	20	89	10	60	65	5	2	26	1.27
459043--459106	15	3.9	17	73	21	57	54	0	0	45	0.99
459014--459076	15	4.3	15	74	11	60	60	1	1	36	1.16
459039--459113	15	4.7	15	73	14	53	52	0	0	48	1.00
460501--460541	19	2.1	19	90	9	64	29	0	2	68	1.03
461587--461662	34	2.2	34	79	4	82	63	2	1	32	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461690--461741	27	1.9	27	88	0	77	26	5	28	38	1.79
468631--468663	17	2.0	17	94	5	59	48	0	0	51	1.00
475715--476102	185	2.1	183	92	1	643	46	8	3	41	1.51
476216--476254	15	2.7	14	80	7	51	33	5	15	46	1.68
478555--478602	2	24.0	2	100	0	96	50	0	0	50	1.00
484876--484901	2	13.0	2	100	0	52	50	0	0	50	1.00
490789--490840	21	2.5	21	83	0	77	38	17	38	5	1.74
490923--490975	26	2.0	26	96	0	97	43	11	9	35	1.73
492794--492872	40	2.0	39	85	4	106	34	18	18	27	1.95
493029--493067	13	3.0	13	96	0	69	35	23	10	30	1.88
493076--493125	22	2.3	22	89	0	82	40	26	18	16	1.90
497731--497816	40	2.0	40	82	8	100	34	6	2	55	1.39
497755--497836	38	2.1	39	82	11	96	35	6	3	54	1.43
498060--498105	17	2.7	17	80	10	58	19	0	6	73	1.04
502236--502292	21	2.8	21	76	10	55	63	3	17	15	1.45
508857--508882	1	26.0	1	100	0	52	100	0	0	0	0.00
509690--510467	105	7.4	105	98	0	1466	33	25	18	23	1.96
511841--511925	41	2.1	41	85	12	113	34	5	1	58	1.30
511868--511952	41	2.1	41	82	8	102	35	5	3	55	1.41
512176--512221	17	2.7	17	80	10	58	19	0	6	73	1.04
512344--512377	12	2.8	12	86	4	50	35	2	5	55	1.39
513265--513311	23	2.0	24	83	4	60	42	8	4	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513256--513311	23	2.3	23	78	6	58	42	7	5	44	1.54
514851--514884	18	1.9	17	88	5	50	50	2	44	2	1.32
521767--522000	117	2.0	117	98	0	450	47	9	12	30	1.74
533484--533538	27	2.0	27	89	0	83	29	10	20	40	1.86
534372--534448	37	2.1	36	83	9	93	46	1	3	48	1.28
545913--545944	2	16.0	2	100	0	64	50	0	0	50	1.00
546160--546220	31	2.0	31	90	0	95	24	4	13	57	1.56
547384--547429	19	2.4	18	85	10	56	58	0	2	39	1.10
548051--548095	15	3.0	15	96	0	81	51	0	0	48	1.00
548066--548150	33	2.4	36	88	7	122	42	0	8	49	1.32
548118--548165	22	2.4	18	73	23	51	33	0	14	52	1.42
548051--548164	55	2.1	52	88	4	165	40	0	8	50	1.33
548174--549313	32	38.7	32	72	22	825	35	0	11	52	1.42
548207--548249	22	2.0	22	100	0	86	34	0	13	51	1.42
548175--549425	54	22.6	54	78	13	1047	35	0	11	52	1.41
548261--548303	22	2.0	22	95	0	77	34	0	11	53	1.37
548229--549425	86	14.0	85	73	16	761	35	0	11	52	1.41
548306--548384	22	4.4	18	64	28	51	35	1	11	51	1.46
548369--548481	22	5.0	22	82	8	145	34	0	14	51	1.42
548470--548554	14	5.5	14	67	20	53	36	0	7	56	1.27
548516--548572	18	3.4	18	69	18	59	35	0	8	56	1.31
548416--549393	140	6.9	140	81	12	811	35	0	11	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548669--548711	22	2.0	22	100	0	86	34	0	13	51	1.42
548755--548797	22	2.0	22	95	0	77	37	0	11	51	1.39
548809--548851	22	2.0	22	100	0	86	34	0	13	51	1.42
548863--548905	22	2.0	22	95	0	77	34	0	11	53	1.37
549013--549055	22	2.0	22	100	0	86	34	0	13	51	1.42
549067--549109	22	2.0	22	100	0	86	34	0	13	51	1.42
549098--549150	14	3.5	14	72	18	52	37	0	5	56	1.23
549207--549249	22	2.0	22	95	0	77	37	0	11	51	1.39
549238--549289	14	3.4	14	71	19	50	38	0	5	55	1.24
549373--549415	22	2.0	22	100	0	86	34	0	13	51	1.42
549440--549498	31	1.9	31	86	6	84	45	8	1	44	1.44
552831--552870	21	1.9	21	94	0	71	47	7	7	37	1.60
553020--553104	42	2.0	42	100	0	170	34	9	16	40	1.81
561766--561904	60	2.3	60	82	3	172	33	12	20	33	1.90
562452--562510	21	2.6	23	84	10	77	52	0	0	47	1.00
562737--562788	12	4.5	12	77	18	56	57	1	0	40	1.10
567858--567905	24	2.0	24	88	8	71	35	0	6	58	1.23
568096--568149	20	2.7	20	88	2	72	42	0	1	55	1.10
568063--568149	20	4.5	21	72	17	64	39	0	1	59	1.05
572315--572348	16	2.2	15	89	5	50	55	0	2	41	1.15
574476--574521	21	2.2	21	92	0	74	43	0	2	54	1.12
574901--574938	20	1.9	20	94	0	67	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578343--578381	20	1.9	21	89	5	62	51	0	2	46	1.14
582982--583180	103	1.9	103	86	2	283	42	20	11	26	1.85
586618--586684	27	2.5	26	80	7	73	47	2	1	47	1.26
587794--587853	31	1.9	32	86	10	88	41	0	8	50	1.33
593621--594146	261	2.0	261	98	0	1025	37	25	13	23	1.91
604683--604736	19	3.2	19	65	29	57	48	16	5	29	1.69
604667--604736	32	2.2	32	97	0	131	51	14	4	30	1.61
611925--611982	30	1.9	31	82	10	75	17	12	3	67	1.36
612983--613017	13	2.6	13	90	4	52	14	0	11	74	1.08
613414--613472	29	2.1	29	90	3	93	47	5	44	3	1.42

Tables:   1   2   3   4   5   6