genome.fa.s761.2.7.7.80.10.50.1000.2.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  2  of  23  ( 2686 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)
381437--381535	35	2.8	35	93	0	162	27	33	5	34	1.79
383375--383432	15	3.6	15	77	20	55	17	18	0	63	1.31
384038--384363	161	2.0	161	98	0	625	34	22	13	29	1.92
394239--394281	23	1.9	21	81	13	50	32	18	13	34	1.90
398984--399020	12	3.0	12	88	7	56	0	5	8	86	0.70
399369--399492	25	5.0	25	94	1	205	33	15	18	33	1.92
399563--399626	3	22.0	3	78	12	71	67	1	3	28	1.15
399565--399628	32	2.0	32	90	6	103	65	3	4	26	1.27
399873--400042	90	1.9	89	92	3	288	24	18	29	27	1.98
399873--400006	46	3.0	46	68	10	132	24	19	28	27	1.99
399890--400032	46	3.2	44	72	10	139	25	18	28	27	1.98
399906--400043	43	3.1	44	72	11	129	25	18	27	28	1.98
401158--401182	1	25.0	1	100	0	50	0	0	0	100	0.00
414065--414101	12	3.0	12	88	7	56	0	5	8	86	0.70
414450--414567	25	4.8	25	95	1	193	34	15	17	32	1.91
414644--414707	3	22.0	3	78	12	71	67	1	3	28	1.15
414646--414709	32	2.0	32	90	6	103	65	3	4	26	1.27
416357--416408	19	2.6	21	90	6	81	46	5	13	34	1.67
420911--420948	14	2.7	14	95	0	67	13	21	2	63	1.42
420955--421002	17	2.9	16	90	6	69	6	14	6	72	1.24
425726--425789	16	4.2	16	69	26	59	0	18	1	79	0.81
425727--425790	28	2.3	28	82	15	80	0	18	1	79	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425728--425790	10	6.9	9	77	15	67	0	19	1	79	0.82
425725--425784	6	10.5	6	79	13	56	0	18	1	80	0.80
425816--425851	11	3.3	11	100	0	72	8	16	0	75	1.04
426039--426082	22	2.0	21	86	4	61	25	2	34	38	1.68
426434--426485	19	2.6	21	90	6	81	46	5	13	34	1.67
434361--434409	22	2.2	22	96	0	89	30	30	6	32	1.82
438763--438827	28	2.3	28	79	10	78	61	13	16	7	1.54
442084--442134	19	2.6	20	90	3	77	43	5	15	35	1.71
444095--444134	20	1.9	20	85	10	53	32	7	32	27	1.85
445469--445498	13	2.4	13	94	5	53	26	30	0	43	1.55
450237--450296	30	2.0	31	83	3	77	55	10	8	26	1.61
452745--452802	11	4.8	11	74	25	55	1	15	3	79	0.95
453541--453592	19	2.7	20	90	3	79	44	5	15	34	1.70
454490--454554	30	2.1	32	83	11	82	55	9	7	27	1.59
461272--461311	19	2.0	20	90	4	64	65	0	12	22	1.26
462564--462606	15	2.8	16	80	16	54	55	4	6	32	1.47
466643--466681	20	2.0	20	94	0	69	41	10	7	41	1.68
471321--471378	18	3.0	20	85	12	84	39	10	6	43	1.66
472712--472737	13	2.0	13	100	0	52	69	7	0	23	1.14
473533--473577	23	2.0	23	82	8	56	77	2	15	4	1.02
475311--475383	17	4.2	16	76	11	65	36	12	12	38	1.81
475533--475599	24	2.8	24	71	15	57	64	14	16	4	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481087--481136	18	2.9	17	80	19	59	18	12	0	70	1.17
481378--481428	18	2.9	18	80	11	61	80	3	15	0	0.86
481382--481431	21	2.5	20	81	12	57	80	2	18	0	0.82
486533--486582	18	2.9	17	80	19	59	18	12	0	70	1.17
486753--486793	14	3.0	14	92	3	66	21	41	0	36	1.54
492226--492271	18	2.6	18	92	0	74	47	13	6	32	1.68
492327--492361	17	2.1	17	88	0	52	40	14	14	31	1.86
498207--498236	13	2.4	13	94	5	53	26	30	0	43	1.55
502078--502123	20	2.3	20	96	0	83	17	6	8	67	1.39
503904--503979	30	2.5	30	91	0	125	30	32	10	26	1.90
505261--505333	30	2.4	30	90	0	110	30	8	27	34	1.86
509863--509913	19	2.6	20	84	3	68	47	5	11	35	1.65
511371--511409	18	2.2	17	82	8	51	25	17	12	43	1.85
511843--511894	24	2.3	22	80	12	52	32	15	17	34	1.91
513132--513184	24	2.2	24	90	3	81	13	13	15	58	1.64
513178--513209	12	2.6	13	85	14	50	9	12	6	71	1.29
513839--513887	19	2.5	20	83	3	55	44	6	14	34	1.70
516121--516161	11	3.8	11	93	6	75	90	9	0	0	0.46
516124--516161	10	3.7	10	96	3	67	92	7	0	0	0.40
516123--516168	1	46.0	1	82	0	56	91	8	0	0	0.43
516704--516736	12	2.7	13	86	13	52	3	9	15	72	1.21
522186--522224	18	2.2	18	100	0	78	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523720--523745	5	5.2	5	100	0	52	0	19	0	80	0.71
538703--538759	21	2.7	21	81	8	62	5	12	3	78	1.03
539073--539116	22	2.0	21	86	4	61	25	2	34	38	1.68
539469--539520	21	2.6	21	90	6	81	44	5	15	34	1.70
540427--540486	30	2.0	31	83	3	77	51	10	10	28	1.67
542753--542801	19	2.5	20	78	21	59	24	8	0	67	1.18
546665--546713	19	2.5	20	78	21	59	24	8	0	67	1.18
554229--554509	140	2.0	141	99	0	555	24	22	17	35	1.95
558518--558554	18	1.9	19	89	10	58	21	10	0	67	1.21
560767--560810	22	2.0	21	86	4	61	25	2	34	38	1.68
561163--561214	21	2.6	21	90	6	81	44	5	15	34	1.70
564410--564450	22	1.9	21	85	5	55	43	34	2	19	1.64
566103--566347	123	2.0	124	98	0	474	26	17	20	35	1.95
571484--571509	13	2.0	13	100	0	52	38	0	30	30	1.58
576761--576803	19	2.2	20	87	4	61	48	6	9	34	1.62
580232--580282	20	2.6	20	90	3	77	35	15	5	43	1.71
581514--581540	12	2.2	12	100	0	54	14	0	0	85	0.61
584462--584512	20	2.6	20	93	3	86	35	17	5	41	1.74
585534--585559	10	2.6	10	100	0	52	73	19	0	7	1.07
600613--600713	39	2.6	38	83	7	114	30	23	25	19	1.98
604389--604432	16	2.7	16	92	3	70	31	2	0	65	1.05
604809--604840	13	2.4	14	94	5	57	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610477--610603	47	2.8	46	83	5	152	29	22	7	40	1.82
616374--616616	133	1.8	130	82	9	305	33	15	18	32	1.92
620846--620894	19	2.6	18	79	17	55	46	0	2	51	1.12
621334--621409	19	3.8	19	77	13	64	32	21	18	27	1.96
621334--621410	40	1.9	41	89	2	120	33	20	18	27	1.96
622343--622396	21	2.5	21	81	3	72	16	16	27	38	1.90
622364--622423	29	2.0	30	93	3	104	18	18	23	40	1.92
622413--622463	19	2.6	20	84	12	70	19	11	35	33	1.88
622394--622463	20	3.6	19	77	12	70	18	14	31	35	1.91
622545--622577	2	16.5	2	100	0	66	51	0	0	48	1.00
626410--626451	3	14.3	3	92	5	68	35	0	0	64	0.94
628483--628639	54	2.9	54	86	0	226	38	19	13	28	1.89
632300--632350	19	2.6	20	90	3	77	43	5	15	35	1.71
633248--633307	30	2.0	31	83	3	77	55	10	8	26	1.61
636143--636188	23	2.0	24	82	4	58	47	15	15	21	1.81
638155--638200	21	2.2	21	92	0	74	34	6	28	30	1.82
643160--643215	21	2.6	21	86	8	69	30	12	25	32	1.92
644665--645140	238	2.0	238	99	0	936	38	18	19	23	1.93
649561--649615	20	2.7	20	75	13	58	25	38	21	14	1.92
651587--651620	17	2.0	17	88	0	50	14	2	29	52	1.56
654403--654459	14	4.3	13	76	10	53	5	7	5	82	0.95
654393--654459	19	3.3	20	76	11	66	8	5	4	80	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654414--654452	21	1.9	20	84	5	51	2	10	7	79	1.02
654403--654461	20	2.9	21	79	20	72	6	6	5	81	0.99
655990--656057	31	2.2	31	78	5	75	35	1	7	55	1.37
657751--657962	20	10.4	20	80	6	212	37	23	18	20	1.94
657751--657962	41	5.2	41	89	1	311	37	23	18	20	1.94
658526--658617	20	4.6	20	86	4	123	51	18	16	14	1.77
658663--658727	19	3.7	19	74	19	77	10	23	21	44	1.83
658666--658758	33	2.8	33	91	1	150	11	24	21	41	1.87
658743--658789	20	2.3	20	81	0	58	10	27	12	48	1.74
660804--660870	21	3.2	21	66	6	55	23	35	20	19	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23