genome.fa.s8044.2.7.7.80.10.50.1000.2.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: VEPZ01008044.1 Hibiscus syriacus cultivar Beakdansim tig00110532_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  979496

Tables:   1   2   3   4   

This is table  2  of  4  ( 380 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)
344106--344474	183	2.0	185	98	1	715	40	15	10	33	1.81
344532--344669	46	2.8	49	81	12	149	25	21	21	31	1.98
348674--348813	65	2.2	65	88	0	199	29	23	18	28	1.98
351607--351663	20	2.8	21	76	7	73	36	26	15	21	1.93
351607--351664	19	2.9	20	79	5	73	36	25	17	20	1.94
355818--355859	3	13.7	3	90	5	57	64	4	0	30	1.14
355818--355862	22	2.0	22	91	0	72	64	4	0	31	1.13
355824--355875	13	4.0	13	79	20	56	61	7	0	30	1.24
355987--356031	16	2.8	16	83	6	56	48	6	0	44	1.29
356003--356093	21	4.6	20	70	14	73	46	6	2	45	1.41
355991--356089	37	2.7	37	77	11	107	44	7	2	46	1.42
356103--356219	54	2.2	50	79	13	128	52	8	0	37	1.38
357220--357250	15	2.1	15	94	5	55	25	0	6	67	1.14
363378--363645	135	2.0	133	97	2	504	34	8	19	36	1.83
364629--364694	29	2.3	29	100	0	132	22	15	28	33	1.94
365862--366094	45	5.2	44	87	3	306	22	22	13	42	1.88
365862--366121	90	2.9	90	84	4	220	22	21	13	41	1.88
365862--366121	135	1.9	135	82	5	310	22	21	13	41	1.88
366424--366719	95	3.1	95	88	0	430	25	22	12	39	1.89
374611--374639	15	2.0	15	93	6	51	0	20	3	75	0.94
398925--398958	17	2.0	17	100	0	68	29	17	0	52	1.45
401533--401620	45	2.0	45	90	0	140	39	10	21	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403268--403360	20	4.7	20	100	0	186	34	19	16	30	1.93
403450--403581	70	1.9	70	84	3	176	31	25	8	34	1.85
405608--405724	60	2.0	60	92	0	198	33	21	13	31	1.92
405665--407165	81	18.6	81	86	1	1983	32	21	10	34	1.88
407276--407396	54	2.2	53	81	5	134	38	16	8	37	1.79
407738--407790	22	2.5	21	76	8	54	26	20	15	37	1.92
412404--413299	81	11.1	81	87	1	1213	32	22	10	34	1.88
413446--413552	55	1.9	55	88	0	160	35	14	9	41	1.77
417897--417944	2	24.0	2	100	0	96	50	0	0	50	1.00
424538--424576	20	2.0	20	89	0	60	79	0	15	5	0.90
426544--426572	11	2.5	12	88	11	51	6	6	6	79	1.06
427361--427410	26	2.0	26	84	11	68	20	2	12	66	1.34
439212--439260	23	2.1	23	84	0	62	65	8	8	18	1.44
442261--442593	172	1.9	173	97	2	632	37	18	10	33	1.85
446353--446421	21	3.0	21	70	23	59	46	0	0	53	1.00
446358--446457	52	1.9	53	84	10	134	47	1	0	52	1.07
446284--446511	125	1.8	125	93	4	397	44	1	1	52	1.21
449409--449483	33	2.3	34	93	6	136	34	18	32	14	1.91
465964--466193	117	2.0	117	84	0	307	36	19	15	28	1.92
466225--466322	26	3.9	26	82	6	121	24	24	15	35	1.94
468105--468159	17	3.2	17	71	19	51	34	16	14	34	1.89
472691--472771	34	2.4	34	81	4	101	37	12	8	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472711--472815	17	6.2	17	78	6	88	40	14	6	38	1.72
472712--472808	51	1.9	51	82	4	124	40	12	7	40	1.70
473317--473366	22	2.3	22	100	0	100	46	16	18	20	1.85
483815--483873	2	29.5	2	100	0	118	50	49	0	0	1.00
483873--483904	2	16.0	2	100	0	64	50	0	0	50	1.00
484203--484281	2	39.5	2	100	0	158	49	0	0	50	1.00
486937--486970	16	2.1	16	94	0	59	44	11	5	38	1.65
488181--488224	16	2.8	16	80	13	63	9	0	27	63	1.24
488481--488514	16	2.1	16	94	0	59	38	5	11	44	1.65
494615--494660	17	2.7	17	79	0	56	26	13	17	43	1.85
494636--494706	30	2.4	31	74	11	76	35	14	7	43	1.72
502239--502379	33	4.2	33	89	4	212	42	31	9	16	1.81
502426--502513	37	2.6	32	78	16	104	44	37	7	10	1.68
502436--502514	37	2.1	37	90	0	122	40	37	10	11	1.75
503997--504039	2	22.5	2	90	9	72	51	0	0	48	1.00
503997--504039	19	2.3	19	100	0	86	51	0	0	48	1.00
504668--505546	255	3.7	235	81	9	790	34	18	14	32	1.91
506129--506252	42	3.0	40	80	4	122	31	20	20	26	1.98
506019--506594	239	2.4	239	84	6	704	35	17	14	33	1.90
506384--506470	41	2.1	42	89	2	131	33	20	19	26	1.97
508294--508483	99	1.9	99	87	0	281	31	19	14	34	1.92
510156--510208	20	2.5	22	87	9	83	16	22	37	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512114--512153	21	1.9	21	84	0	53	30	0	32	37	1.58
512856--512918	20	2.9	21	79	9	65	15	23	34	25	1.95
518199--518246	20	2.5	20	96	3	89	20	25	35	18	1.95
520549--520642	47	2.0	46	81	8	109	34	21	12	31	1.91
530379--530450	24	3.0	24	79	0	90	18	12	18	51	1.76
530356--530448	12	7.8	12	70	9	64	20	13	17	48	1.81
530342--530450	48	2.3	48	85	3	139	21	14	16	47	1.82
533244--533413	45	3.8	45	92	1	279	30	22	7	40	1.80
533493--533568	40	1.9	40	83	5	100	23	27	25	23	2.00
537101--537788	6	115.7	6	92	5	1112	50	18	0	31	1.48
538094--538125	2	16.5	2	93	6	57	50	0	0	50	1.00
539432--539595	66	2.5	67	85	3	208	22	4	20	52	1.64
543115--543157	21	2.1	21	86	4	61	44	23	0	32	1.54
544655--544695	21	2.0	21	100	0	82	41	19	9	29	1.83
549143--549487	156	2.2	156	89	2	523	33	17	9	39	1.82
550046--550101	24	2.2	26	84	15	82	32	3	19	44	1.68
557275--557323	2	25.0	2	89	4	64	42	0	57	0	0.99
557883--557922	16	2.5	16	100	0	80	30	32	15	22	1.94
558004--558080	25	3.0	25	81	12	86	45	3	1	49	1.28
564183--564231	15	3.3	15	82	0	62	10	18	59	12	1.60
564197--564245	26	1.9	25	91	4	80	12	16	57	14	1.66
564922--564970	22	2.2	23	82	10	57	34	8	2	55	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567960--568162	95	2.1	95	82	3	257	31	15	27	25	1.96
568558--568974	45	9.3	45	85	3	448	39	9	20	30	1.85
574538--574575	11	3.4	11	83	16	51	55	0	2	42	1.14
575068--575296	111	2.1	111	86	3	318	28	15	18	37	1.92
576950--576995	21	2.1	22	84	8	58	28	17	13	41	1.86
583446--583505	24	2.6	23	75	17	61	36	1	3	58	1.25
586615--586713	45	2.2	47	80	10	116	34	8	18	39	1.80
587357--587396	20	2.0	20	85	9	55	17	10	12	60	1.59
590398--590435	14	2.7	15	84	12	53	81	5	13	0	0.85
590398--590447	13	3.7	13	83	5	55	78	4	14	4	1.05
591077--591170	32	2.8	32	90	4	143	47	27	8	15	1.75
591524--591755	32	7.2	32	88	1	338	29	14	23	32	1.94
591524--591755	65	3.6	64	88	1	338	29	14	23	32	1.94
591524--591755	97	2.4	97	93	0	383	29	14	23	32	1.94
591863--592017	34	4.6	34	87	3	222	30	20	13	34	1.91
592321--592431	36	3.1	36	85	5	170	25	22	14	37	1.92
592579--592997	90	4.7	90	92	1	664	25	18	22	33	1.97
596492--596538	24	2.0	24	83	8	60	48	14	4	31	1.63
597701--597729	12	2.3	13	94	5	51	37	13	6	41	1.72
599199--599233	18	2.0	17	88	5	52	80	5	2	11	1.00
600566--600701	2	69.0	2	82	2	168	48	5	2	44	1.37
601552--601710	57	2.8	57	90	0	237	22	15	20	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602596--602626	6	5.3	6	92	7	55	16	0	0	83	0.64
602596--602626	11	2.7	12	95	5	55	16	0	0	83	0.64
602674--602714	11	3.9	11	79	20	52	4	12	0	82	0.81
609717--609755	20	2.0	20	90	9	64	74	5	7	12	1.20
613164--613227	21	3.0	21	73	10	60	79	6	1	12	0.98
620746--620796	26	2.1	24	85	10	68	37	9	17	35	1.83
626874--626924	14	3.4	14	76	23	59	5	15	27	50	1.67
627696--627740	22	2.1	22	87	4	65	46	2	6	44	1.42
629424--629488	28	2.3	28	81	5	69	24	9	7	58	1.55
636221--636269	25	2.0	25	95	0	89	46	12	4	36	1.60

Tables:   1   2   3   4