genome.fa.s851.2.7.7.80.10.50.1000.2.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  2  of  31  ( 3618 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)
319166--319230	23	2.8	23	77	9	78	20	26	24	29	1.99
321260--321304	20	2.3	20	88	3	65	37	22	2	37	1.67
321718--321759	19	2.2	20	83	12	52	47	21	2	28	1.63
322965--323024	29	2.1	29	87	6	86	50	15	21	13	1.78
323519--323575	26	2.2	26	96	0	105	36	15	15	31	1.90
328339--328419	36	2.2	36	93	0	135	37	18	12	32	1.88
329228--329640	51	7.8	56	77	14	310	38	18	8	33	1.82
329341--329640	51	5.9	51	83	6	347	38	19	8	34	1.81
329444--329526	25	3.3	25	68	9	78	38	20	8	32	1.83
329449--329579	26	5.1	26	63	14	74	36	20	6	35	1.80
333366--333402	19	1.9	19	89	10	58	10	32	0	56	1.34
334420--334451	15	2.1	15	100	0	64	53	18	12	15	1.73
341778--341832	16	3.7	16	71	24	57	58	18	9	14	1.62
349380--349440	32	1.9	32	86	6	88	44	11	13	31	1.79
356437--356504	33	2.1	33	82	0	82	47	13	10	29	1.75
360353--360403	17	3.0	17	79	0	57	45	7	9	37	1.67
364479--364531	17	3.1	17	77	0	61	39	7	16	35	1.78
375390--375444	17	3.2	17	71	5	56	41	7	16	34	1.76
375434--375515	17	4.8	17	65	11	51	45	15	13	25	1.83
376611--376650	21	1.9	21	90	10	64	20	27	5	47	1.70
377770--377836	30	2.2	30	94	0	116	41	0	26	31	1.56
378658--378706	25	2.0	25	91	0	80	26	14	24	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378816--378851	15	2.4	15	90	0	54	44	19	11	25	1.83
379124--379195	17	4.2	17	78	3	81	40	6	15	37	1.74
379184--379266	17	4.9	17	68	11	53	45	13	12	28	1.79
379278--379374	46	2.1	46	92	0	158	40	17	14	27	1.89
397582--397614	16	2.2	15	89	10	50	69	0	0	30	0.88
402285--402337	17	3.1	17	77	0	61	41	7	13	37	1.72
406421--406472	17	3.1	17	77	5	61	42	7	15	34	1.75
406422--406470	16	2.9	17	78	6	55	42	8	16	32	1.77
411861--412489	66	9.6	66	84	4	785	41	12	16	29	1.85
412000--412190	36	5.6	36	69	19	142	43	13	16	27	1.84
411861--412489	196	3.2	195	84	4	784	41	12	16	29	1.85
412328--412451	36	3.7	35	71	19	111	41	14	17	25	1.88
412437--412526	45	2.0	45	82	8	112	38	15	16	28	1.90
417778--417830	24	2.3	23	90	6	88	49	5	9	35	1.59
419461--419489	14	2.1	14	100	0	58	6	34	0	58	1.25
420225--420259	3	12.0	3	87	6	54	62	0	2	34	1.10
420222--420259	20	1.9	20	88	0	58	63	0	2	34	1.09
422472--422512	21	1.9	22	90	5	66	41	14	17	26	1.88
426468--426521	23	2.2	25	83	6	67	16	7	22	53	1.67
432599--432631	10	3.3	10	95	0	57	42	21	9	27	1.83
445016--445090	20	3.6	21	80	7	73	29	13	16	41	1.86
452973--453025	26	2.0	26	85	7	72	24	5	16	52	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463297--463347	26	2.0	26	88	0	75	23	13	25	37	1.92
465494--465519	2	13.0	2	100	0	52	50	0	0	50	1.00
467079--467127	3	16.7	3	91	4	82	65	2	32	0	1.04
468489--468572	23	3.7	23	85	6	107	30	27	23	17	1.97
468481--468571	46	2.0	46	86	0	128	31	26	23	18	1.97
470035--470072	20	1.9	20	88	0	58	26	26	15	31	1.96
473265--473299	2	17.5	2	100	0	70	51	0	0	48	1.00
473730--473795	23	2.9	23	79	0	78	31	21	25	21	1.98
476472--476543	35	2.1	35	86	5	101	37	2	25	34	1.70
487609--487658	20	2.5	19	84	12	57	46	8	20	26	1.78
492721--492780	22	2.7	22	87	7	86	18	25	33	23	1.97
506044--506100	13	4.2	13	78	12	53	71	19	1	7	1.17
506064--506099	19	1.9	18	88	5	54	72	22	0	5	1.05
513369--513398	2	15.0	2	100	0	60	50	0	0	50	1.00
513504--513544	19	2.2	19	95	0	55	39	0	9	51	1.35
514137--514418	139	2.0	141	82	5	345	32	9	10	47	1.71
514815--514846	2	16.0	2	100	0	64	50	0	0	50	1.00
520605--520647	16	2.7	16	100	0	86	39	25	0	34	1.56
521433--521468	3	12.0	3	100	0	72	66	0	0	33	0.92
522280--522403	61	2.0	61	96	0	230	22	33	4	38	1.76
522453--522491	18	2.2	18	100	0	78	25	25	20	28	1.99
522453--522500	18	2.8	17	90	6	62	27	25	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523178--523210	16	2.1	16	100	0	66	75	6	18	0	1.00
527637--527862	41	5.6	41	73	5	208	35	19	9	34	1.85
527631--527855	82	2.8	81	89	2	353	35	19	10	34	1.86
535744--536034	41	7.1	41	74	8	243	34	17	12	35	1.88
535740--536034	82	3.6	81	88	4	396	34	17	12	35	1.88
539857--539961	25	4.2	25	77	16	78	77	1	17	3	1.01
539894--539961	8	8.4	8	75	12	50	80	2	14	1	0.89
539917--539960	20	2.3	20	84	7	56	81	4	13	0	0.83
541561--541737	57	3.1	57	89	4	250	30	22	16	29	1.96
543719--543773	13	4.2	13	85	0	74	27	20	16	36	1.93
543745--543908	85	1.9	85	81	4	197	31	20	18	29	1.96
555382--555423	3	13.7	3	80	14	50	30	0	4	64	1.14
558831--558893	31	2.1	30	85	8	83	15	17	12	53	1.72
562040--562100	29	2.1	28	82	8	70	75	8	13	3	1.15
562121--562323	101	2.0	101	98	0	388	41	20	18	20	1.91
563214--563244	15	2.1	15	94	5	55	38	6	29	25	1.81
564495--564956	132	3.5	133	79	9	529	26	29	17	25	1.98
564881--564995	38	2.8	40	71	17	103	22	28	20	28	1.98
565156--565205	3	16.7	3	80	15	59	32	0	4	64	1.12
568995--569037	2	21.5	2	100	0	86	0	51	0	48	1.00
574132--574160	8	3.6	8	100	0	58	10	0	0	89	0.48
578695--578734	20	2.0	20	100	0	80	55	0	10	35	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580932--580976	19	2.4	19	100	0	90	51	11	28	8	1.68
584854--584956	34	3.0	34	91	2	154	32	23	16	28	1.96
585112--585705	111	5.4	111	92	0	906	31	24	14	29	1.95
588711--588751	20	2.0	20	100	0	82	51	4	9	34	1.56
596162--596251	30	3.1	29	72	10	85	22	7	25	44	1.79
596256--596330	32	2.3	33	88	4	116	10	8	36	45	1.68
597210--597242	14	2.3	15	84	5	50	27	0	3	69	1.03
597568--597614	21	2.2	21	80	0	58	31	23	25	19	1.98
598919--598967	19	2.7	17	84	9	53	26	20	28	24	1.99
598938--599043	45	2.3	45	87	4	142	29	20	20	29	1.98
601213--601251	13	3.1	13	88	3	53	48	2	7	41	1.45
604641--604670	16	1.9	15	93	6	51	40	13	0	46	1.43
607607--607769	65	2.5	65	83	5	188	28	17	23	31	1.97
610628--610663	18	2.0	18	89	10	56	61	8	8	22	1.51
615810--616279	140	3.5	134	79	8	472	36	12	11	39	1.79
645149--645262	21	5.4	21	76	4	122	25	14	21	37	1.92
645149--645265	42	2.8	42	85	5	173	25	14	21	38	1.91
645153--645273	63	1.9	63	81	6	147	26	15	21	36	1.93
654013--654051	18	2.2	18	90	0	60	43	35	7	12	1.72
677754--677796	13	3.3	13	90	0	59	32	20	11	34	1.89
693718--693830	6	18.8	6	71	20	85	77	0	18	3	0.90
693719--693817	5	18.8	5	70	23	53	76	0	20	3	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693717--693829	17	6.7	17	68	10	72	77	0	18	3	0.90
693718--693831	29	3.8	29	73	16	92	78	0	18	3	0.90
693822--693867	22	2.3	19	85	11	56	67	0	23	8	1.18
696598--696648	21	2.4	22	90	6	86	15	43	25	15	1.86
701492--701574	21	3.8	21	75	7	67	25	31	24	19	1.98
701492--701579	23	4.1	21	76	5	70	26	29	26	18	1.98
712651--712721	19	3.7	19	79	3	72	46	7	14	32	1.71
712764--712807	13	3.5	13	81	6	54	56	0	22	20	1.42
713314--713369	24	2.3	23	79	11	58	50	0	8	41	1.34
713913--713941	12	2.4	12	100	0	58	27	27	0	44	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31