genome.fa.s8156.2.7.7.80.10.50.1000.3.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: VEPZ01008156.1 Hibiscus syriacus cultivar Beakdansim tig00110722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  820393

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 528 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)
323517--323576	27	2.3	27	80	16	72	33	8	13	45	1.73
328909--328976	25	2.7	25	86	0	82	16	25	20	38	1.92
331632--331786	36	4.3	36	87	0	202	16	26	21	34	1.95
331632--331785	72	2.1	72	90	0	236	16	25	22	35	1.95
338453--338497	14	3.1	14	93	3	72	48	6	4	40	1.49
348616--348669	20	2.7	20	91	0	90	22	31	24	22	1.98
351606--352106	132	3.8	132	82	4	530	34	17	18	30	1.94
351372--351878	219	2.3	218	79	8	555	32	18	18	30	1.95
363189--363233	17	2.6	17	96	0	81	42	11	22	24	1.86
368986--369044	31	2.0	29	83	9	75	40	10	11	37	1.76
370031--370157	60	2.1	60	80	8	134	37	14	16	31	1.88
372434--372470	18	2.1	17	90	5	56	37	2	0	59	1.12
373859--373935	28	2.7	29	77	16	72	36	7	2	53	1.44
374033--374074	21	2.0	20	86	13	59	38	0	2	59	1.10
376666--376738	21	3.3	22	81	9	87	19	20	27	32	1.97
376721--376768	23	2.1	23	88	7	71	12	20	22	43	1.86
376961--377005	23	2.0	23	86	0	63	33	6	17	42	1.76
388724--389387	56	12.0	55	87	3	838	29	22	19	29	1.98
388727--389387	111	6.0	110	87	2	846	29	22	19	29	1.98
389582--389652	3	22.7	3	88	8	70	33	1	8	56	1.38
390988--391064	28	2.7	29	77	16	72	36	6	2	54	1.40
391189--391232	23	1.9	23	85	0	61	22	4	2	70	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391513--391554	15	2.6	16	85	14	52	33	4	0	61	1.17
393271--393398	34	3.8	34	82	5	143	50	35	6	7	1.57
400603--400876	55	5.0	54	76	9	261	29	10	17	42	1.83
400634--400817	52	3.4	52	78	8	206	28	9	18	42	1.82
400603--400876	110	2.5	110	87	2	374	29	10	17	42	1.83
401069--401224	59	2.6	59	93	1	258	29	29	13	27	1.94
401239--401333	41	2.3	41	78	7	104	28	20	21	30	1.98
401129--401873	226	3.3	225	82	4	885	28	22	16	31	1.96
402250--402299	22	2.2	23	82	3	57	36	38	12	14	1.83
403523--403580	6	9.5	6	77	15	57	17	5	0	77	0.94
403532--403581	15	3.3	15	78	15	50	16	6	0	78	0.95
403523--403584	29	2.1	28	83	16	74	17	4	0	77	0.94
406688--406755	24	2.8	24	81	16	70	23	7	0	69	1.14
406688--406743	24	2.2	25	84	12	71	25	8	0	66	1.21
406863--406935	36	2.0	37	84	7	96	28	1	2	67	1.13
408522--408662	29	4.9	29	89	1	203	19	37	25	17	1.93
409165--409272	29	3.5	29	73	19	85	43	0	7	49	1.30
409222--409276	18	3.4	18	65	31	52	38	0	9	52	1.33
409540--409617	30	2.6	29	84	15	97	43	2	8	44	1.49
409591--409636	22	2.1	22	91	0	74	45	2	15	36	1.58
411853--411967	60	1.9	60	98	0	221	46	10	0	42	1.38
412042--412149	48	2.2	49	96	1	200	46	12	0	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412108--412196	25	3.2	25	64	27	61	47	8	0	43	1.35
412084--412268	60	3.1	60	96	1	338	45	12	0	41	1.42
412203--412375	58	3.4	48	82	16	220	46	12	0	41	1.41
412300--412326	10	2.7	10	100	0	54	40	18	0	40	1.51
412359--412446	21	4.3	21	66	18	51	45	14	0	39	1.45
412252--412457	60	3.5	59	94	1	351	46	13	0	40	1.43
412429--412475	14	3.4	14	81	0	58	42	14	0	42	1.46
412512--412585	3	24.0	3	80	5	85	39	0	1	59	1.06
414634--414698	21	3.2	21	75	10	55	33	3	1	61	1.21
417989--418020	15	2.1	15	94	0	55	25	18	9	46	1.79
425113--425146	13	2.8	12	82	8	50	85	0	14	0	0.60
427158--427703	113	4.8	113	97	0	1006	39	15	19	26	1.91
427640--427933	40	7.6	40	90	6	434	48	9	23	18	1.77
427798--427899	17	5.5	18	66	29	63	50	7	23	18	1.73
427817--427861	24	1.9	23	82	13	56	48	6	26	17	1.72
428288--428370	3	27.0	3	80	4	94	39	0	1	59	1.05
430333--430512	26	7.2	26	79	12	196	43	8	2	45	1.48
430333--430571	124	1.9	124	94	3	419	43	9	2	44	1.47
430534--430571	12	3.2	12	96	3	69	42	7	0	50	1.31
430768--430802	17	2.0	18	94	5	63	37	5	0	57	1.23
434117--434184	18	3.6	17	72	14	55	47	10	2	39	1.53
434635--434659	8	3.1	8	100	0	50	60	12	0	28	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434679--434727	21	2.3	21	85	3	71	53	16	0	30	1.43
435084--435154	21	3.3	21	70	14	72	28	26	26	18	1.98
435212--435245	17	2.0	17	100	0	68	29	0	47	23	1.52
435334--435417	19	4.3	20	86	10	129	20	45	15	19	1.86
435334--435417	39	2.2	39	93	4	143	20	45	15	19	1.86
435399--435450	26	2.0	27	96	3	97	15	48	17	19	1.82
435401--435460	26	2.2	26	85	5	75	20	48	15	16	1.81
435485--435564	29	2.8	29	94	0	142	7	25	36	31	1.84
440215--440284	29	2.4	30	75	17	76	50	0	11	38	1.39
442013--442163	29	5.2	29	83	2	178	48	14	3	33	1.62
442013--442228	29	7.4	29	78	7	174	46	14	5	33	1.68
442013--442228	86	2.5	86	80	3	227	46	14	5	33	1.68
448486--448608	31	3.9	31	69	12	90	28	26	26	18	1.98
449494--449679	29	6.4	29	83	6	184	48	13	4	33	1.62
449491--449654	58	2.8	58	84	8	210	49	14	4	32	1.62
449494--449654	86	1.9	87	85	3	227	48	14	4	32	1.63
449501--449685	58	3.2	56	81	9	203	47	14	4	32	1.66
449821--449853	10	2.9	12	86	13	52	45	15	3	36	1.61
450960--451016	21	2.6	22	75	13	55	50	3	0	45	1.18
464603--464658	16	3.2	16	71	28	51	67	1	3	26	1.16
464603--464673	37	1.9	37	83	11	92	69	1	4	25	1.15
465883--465955	3	25.0	3	91	5	114	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465883--465955	20	3.8	20	90	7	123	63	0	0	36	0.95
466199--466257	17	3.4	17	70	25	59	15	23	11	49	1.77
466311--467067	113	6.6	114	84	7	924	26	19	15	38	1.92
466214--466971	239	3.2	237	86	6	1050	25	18	16	38	1.92
467872--467923	22	2.4	22	90	0	77	40	15	9	34	1.80
470438--470657	114	1.9	114	95	0	395	30	22	15	32	1.95
474798--474839	7	6.0	7	78	10	50	54	11	16	16	1.70
477190--477245	16	3.2	16	71	28	51	67	1	3	26	1.16
477190--477260	37	1.9	37	83	11	92	69	1	4	25	1.15
478470--478507	3	12.7	3	89	10	60	63	0	0	36	0.95
480092--480367	83	3.3	83	76	6	265	30	17	18	34	1.94
487734--487792	26	2.3	26	84	0	73	27	28	20	23	1.99
487780--487819	9	4.4	9	83	0	53	25	30	30	15	1.95
487780--487822	18	2.4	18	88	0	59	27	27	30	13	1.95
488708--488822	53	2.2	53	88	3	178	38	16	13	32	1.87
490755--490792	10	3.8	10	96	0	67	60	7	0	31	1.25
492018--492076	28	2.1	28	100	0	118	33	0	3	62	1.12
493476--493517	20	2.2	20	95	4	77	45	0	0	54	0.99
494161--494200	12	3.6	12	80	12	50	45	2	0	52	1.14
494187--494331	22	6.6	22	98	0	281	37	0	11	50	1.39
494355--494413	31	1.9	31	89	0	91	44	8	3	44	1.51
499501--499925	116	3.7	115	82	3	433	28	24	12	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500333--500435	42	2.5	41	75	7	100	35	18	15	30	1.92
500603--500693	42	2.2	41	84	5	121	34	18	20	26	1.96
500443--500921	260	1.8	261	83	2	631	37	14	12	35	1.85
500925--500967	20	2.2	20	83	4	52	46	16	20	16	1.84
504210--504256	20	2.5	19	86	6	60	25	17	27	29	1.97
504219--504256	20	1.9	20	94	0	67	26	18	26	28	1.98
509401--509432	16	2.0	16	100	0	64	43	6	18	31	1.75
510655--510937	36	7.9	36	72	18	168	44	4	7	43	1.53
510827--510894	32	2.1	33	84	10	88	44	5	5	44	1.52
511006--511044	18	2.2	18	86	9	53	23	15	0	61	1.33

Tables:   1   2   3   4   5