genome.fa.s9175.2.7.7.80.10.50.1000.3.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  3  of  51  ( 6037 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)
394850--394893	20	2.2	20	87	0	61	20	11	20	47	1.80
403169--403234	24	2.7	24	80	4	87	57	18	10	13	1.64
403169--403221	14	4.1	14	74	18	51	58	18	11	11	1.62
405631--405662	3	10.7	3	100	0	64	68	0	0	31	0.90
408180--408399	117	1.9	117	85	1	307	32	31	14	21	1.93
409345--409454	27	4.0	28	73	13	93	50	14	3	31	1.60
409364--409423	30	2.0	29	87	3	84	46	10	3	40	1.54
409364--409423	29	2.0	30	84	9	79	46	10	3	40	1.54
409436--409504	29	2.4	29	87	0	93	50	24	1	23	1.57
409512--409554	18	2.4	18	84	0	59	18	25	41	13	1.88
419136--419195	22	2.7	21	77	10	57	50	6	3	40	1.45
419177--419210	16	2.1	16	88	0	50	50	0	2	47	1.16
419738--419974	130	1.8	130	91	0	393	35	13	13	36	1.85
420368--420443	35	2.2	35	92	0	125	35	1	23	39	1.63
421682--421710	2	14.5	2	100	0	58	51	0	0	48	1.00
428946--428970	13	1.9	13	100	0	50	48	4	16	32	1.64
431673--431830	42	3.5	42	70	22	131	26	17	25	30	1.97
431614--432082	97	4.9	96	89	2	673	28	17	24	28	1.98
432092--432989	91	9.7	91	78	7	912	23	23	15	37	1.93
432092--432989	182	4.8	182	84	6	1064	23	23	15	37	1.93
432548--432589	17	2.5	17	96	0	75	19	35	4	40	1.72
432457--432679	110	2.0	108	89	1	338	22	24	14	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432366--432770	201	2.0	198	90	1	630	23	24	14	37	1.92
432565--432989	181	2.3	182	89	1	645	23	24	15	36	1.94
432092--433004	473	1.9	473	91	0	1497	24	23	15	37	1.93
433394--433658	67	3.9	67	79	7	252	37	13	18	29	1.90
433539--433895	36	10.1	36	75	10	254	38	13	19	27	1.90
433483--433658	69	2.6	67	83	4	210	39	14	16	29	1.89
433663--433722	20	3.2	19	69	26	56	41	13	20	25	1.88
434102--434403	90	3.3	90	94	0	523	36	21	17	25	1.94
441766--441807	20	2.1	20	95	0	75	54	11	14	19	1.70
442630--442690	28	2.2	28	90	0	95	22	6	45	24	1.76
444423--444492	24	2.9	24	95	2	122	44	15	10	30	1.79
445697--445755	30	2.0	30	83	6	75	35	18	6	38	1.78
447530--447572	22	2.0	22	90	0	68	20	25	23	30	1.99
447989--448118	37	3.5	37	97	0	242	8	28	2	60	1.38
451276--451345	30	2.3	31	83	9	92	31	21	21	25	1.98
453351--453413	3	21.0	3	84	12	85	61	0	0	38	0.96
453351--453425	15	4.6	17	78	15	72	64	0	0	36	0.94
458604--458667	14	4.5	14	84	2	65	31	32	14	21	1.93
458668--458710	13	3.2	13	83	6	59	16	16	23	44	1.86
458712--458750	21	1.9	21	89	5	62	28	7	7	56	1.55
459078--459113	18	2.0	18	89	10	56	55	8	19	16	1.66
462924--462948	6	4.2	6	100	0	50	32	0	36	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463187--463243	26	2.2	26	81	6	71	28	3	8	59	1.44
463188--463251	26	2.4	26	80	12	69	31	4	7	56	1.49
463855--463952	50	1.9	50	93	2	169	56	9	4	30	1.50
464437--464470	16	2.1	16	94	0	59	26	0	29	44	1.55
468544--468584	21	2.0	21	85	9	57	43	31	0	24	1.54
470462--470641	27	6.7	27	86	2	245	23	24	21	30	1.99
470468--470641	81	2.1	81	91	2	278	22	24	21	30	1.99
474733--474787	21	2.5	22	76	11	58	56	0	1	41	1.10
483903--483958	25	2.2	25	100	0	112	28	0	32	39	1.57
486699--486731	15	2.1	16	88	5	50	21	15	6	57	1.59
490161--490185	12	2.1	12	100	0	50	16	8	8	68	1.38
492009--492069	19	3.2	19	79	11	63	31	0	1	67	1.01
492016--492069	19	2.8	19	80	8	65	29	0	1	68	1.00
492017--492063	18	2.5	19	86	3	60	31	0	0	68	0.90
494411--494479	21	3.2	22	63	29	58	46	5	11	36	1.64
498414--498450	3	11.7	3	88	11	56	29	0	0	70	0.88
498414--498451	10	3.9	10	93	6	69	28	0	0	71	0.87
499804--499849	15	3.1	15	90	0	74	8	17	65	8	1.45
501245--501383	61	2.3	61	83	2	172	28	24	16	30	1.97
501280--501379	31	3.3	31	73	8	87	30	25	15	30	1.95
508295--508513	73	2.8	77	81	12	279	35	11	18	34	1.87
509229--509253	12	2.1	12	100	0	50	24	24	24	28	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510159--510225	30	2.2	32	94	5	120	11	31	22	34	1.90
510187--510247	20	3.1	19	77	13	68	13	29	22	34	1.92
510378--510546	41	4.1	42	81	7	184	32	16	19	31	1.94
511169--511211	22	2.0	22	90	0	68	51	4	11	32	1.59
512434--512544	41	2.7	40	80	6	98	32	18	17	31	1.94
514498--514526	15	1.9	15	100	0	58	13	10	13	62	1.55
515159--515188	2	15.0	2	100	0	60	50	0	0	50	1.00
517135--517176	12	3.5	12	75	12	50	33	23	38	4	1.76
517131--517187	24	2.4	24	97	2	107	35	22	38	3	1.72
517123--517208	21	4.0	21	79	8	91	38	16	39	5	1.72
517197--517251	21	2.6	21	85	0	74	49	21	27	1	1.60
517569--517680	44	2.6	45	84	4	131	33	20	16	30	1.94
517701--517887	43	4.4	42	73	6	160	33	21	17	27	1.96
519299--519374	20	3.8	20	77	16	77	30	31	11	26	1.92
519385--519480	20	4.8	20	75	5	77	31	23	9	35	1.87
519446--519516	20	3.7	20	75	7	65	33	19	8	38	1.82
519656--519686	16	1.9	16	93	0	53	29	3	0	67	1.06
520444--520490	24	2.0	24	86	0	67	23	17	21	38	1.93
523093--523145	20	2.7	20	72	0	61	26	22	22	28	1.99
524661--524778	21	5.6	21	85	0	155	22	17	38	22	1.94
524661--524779	42	2.8	41	88	5	175	22	17	37	21	1.94
524923--524960	4	9.5	4	88	0	58	71	2	0	26	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525070--525149	21	3.8	20	67	6	52	36	32	10	21	1.86
525071--525165	42	2.3	43	75	5	113	34	33	10	21	1.87
527316--527363	22	2.2	22	84	0	60	22	18	41	16	1.90
527530--527666	20	6.8	20	71	6	105	30	13	21	33	1.93
527524--527620	41	2.4	41	89	1	151	26	13	19	40	1.89
527528--527637	41	2.7	40	85	5	132	26	14	22	36	1.93
529691--529731	14	2.9	14	100	0	82	26	36	29	7	1.83
529719--529785	10	6.4	10	73	10	53	26	26	38	7	1.83
529855--529945	10	8.8	10	73	16	62	10	29	31	27	1.91
529842--529911	33	2.1	33	91	0	113	10	34	28	27	1.89
529889--529945	20	2.8	20	94	0	96	12	26	35	26	1.92
530133--530266	20	7.3	19	66	17	61	70	0	11	17	1.19
530151--530312	78	2.1	74	81	15	181	71	1	11	16	1.20
530226--530282	14	4.2	13	71	20	53	71	0	5	22	1.05
530182--530325	78	1.9	77	85	7	202	71	2	9	16	1.22
530355--530386	13	2.6	12	90	9	55	81	0	0	18	0.70
530530--530638	18	6.2	17	67	22	57	72	1	1	23	1.04
530555--530629	11	6.8	11	70	10	55	74	2	2	20	1.06
530523--530643	23	5.4	22	72	15	79	72	1	2	23	1.05
531672--531723	4	12.8	4	78	8	52	69	0	5	25	1.10
531733--532061	38	8.7	39	84	8	344	48	7	1	43	1.38
531835--531939	13	7.9	13	67	17	56	49	8	0	41	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531749--531990	119	2.0	119	88	4	355	48	6	1	44	1.35
532046--532082	2	19.0	2	94	5	67	51	0	0	48	1.00
533957--533991	16	2.2	16	94	0	61	40	22	11	25	1.88
539196--539237	21	2.0	21	90	0	66	30	11	7	50	1.66
539226--539333	33	3.4	32	86	8	150	32	8	13	45	1.74
540717--540746	2	15.0	2	100	0	60	50	0	0	50	1.00
542026--542057	6	5.3	6	96	0	55	34	0	46	18	1.49
544547--544594	23	2.1	23	92	0	78	54	0	2	43	1.12
548117--548159	19	2.3	19	84	8	52	51	6	2	39	1.42
550890--550950	31	1.9	33	86	6	90	36	11	4	47	1.61

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51