genome.fa.s8241.2.7.7.80.10.50.1000.3.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: VEPZ01008241.1 Hibiscus syriacus cultivar Beakdansim tig00110889_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1355325

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 875 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)
420314--420563	118	2.1	118	93	1	430	20	22	12	44	1.85
420268--420608	164	2.1	164	92	2	560	20	21	12	44	1.85
420432--420701	46	5.9	46	94	0	470	20	22	12	44	1.85
420199--420491	138	2.1	134	82	12	337	21	22	12	44	1.85
420222--420655	210	2.1	210	91	2	703	20	21	12	44	1.85
420386--420715	138	2.4	140	84	11	428	20	21	13	44	1.85
420177--420715	256	2.1	256	92	0	900	21	21	12	44	1.85
422464--422523	31	1.9	31	89	0	93	36	10	26	26	1.88
423096--423208	36	3.2	36	86	7	169	32	13	19	34	1.90
423719--423781	30	2.1	30	94	5	110	36	14	22	26	1.92
428222--428289	29	2.3	29	80	14	77	54	7	10	27	1.61
428409--428499	44	2.1	43	82	12	105	60	6	8	24	1.50
429444--429492	17	2.8	17	78	3	53	40	0	0	59	0.98
430604--430703	4	24.2	4	83	13	105	69	1	30	0	0.96
430604--430685	34	2.6	30	88	9	110	68	0	31	0	0.90
430607--430703	27	3.6	27	82	13	101	69	1	29	0	0.96
430604--430703	34	3.3	29	85	12	98	69	1	30	0	0.96
430773--430815	21	2.0	21	95	0	77	25	0	16	58	1.38
431306--431365	17	3.4	17	78	13	75	40	1	8	50	1.43
431296--431358	22	3.2	20	76	21	62	38	4	6	50	1.49
431857--431942	20	4.2	20	76	2	91	33	22	18	25	1.96
433760--433813	24	2.2	24	93	0	90	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434771--434846	40	1.9	40	89	2	118	39	11	19	28	1.87
434865--434915	20	2.5	21	90	6	79	33	11	27	27	1.92
434906--434945	21	1.9	21	94	0	71	42	10	20	27	1.83
441682--441753	23	3.2	23	94	2	119	22	36	23	18	1.95
441671--441776	45	2.4	44	84	3	140	25	31	24	18	1.98
441671--441764	22	4.2	22	90	2	134	25	28	27	18	1.98
443344--443379	18	1.9	19	94	5	65	44	22	27	5	1.75
443349--443389	18	2.3	18	82	0	55	46	21	29	2	1.64
443916--443972	2	28.5	2	100	0	114	50	0	0	49	1.00
447240--447265	12	2.2	12	100	0	52	7	42	0	50	1.31
452418--452489	18	4.0	18	88	0	99	27	29	19	23	1.98
452418--452489	36	2.0	36	91	0	117	27	29	19	23	1.98
454128--454172	21	2.1	22	84	12	58	37	2	8	51	1.46
454149--454229	14	6.1	14	73	13	64	43	2	12	41	1.55
454149--454257	52	2.2	49	90	5	164	43	2	11	43	1.54
454149--454262	11	9.2	11	74	18	75	44	2	10	42	1.52
454039--454264	127	1.8	126	81	6	291	43	2	9	44	1.49
454290--454327	16	2.4	16	90	0	58	39	5	10	44	1.61
454305--454349	22	2.0	23	86	4	65	37	6	6	48	1.56
454378--454414	14	2.5	15	91	4	58	48	0	0	51	1.00
456868--456946	36	2.4	34	83	12	94	48	11	0	40	1.39
456986--457100	38	3.1	36	81	10	133	49	10	0	39	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457001--457100	38	2.7	37	86	4	148	49	10	0	41	1.36
457110--457160	21	2.4	21	87	9	68	52	17	0	29	1.45
457193--457226	17	1.9	18	94	5	61	61	2	0	35	1.11
458627--458652	12	2.2	12	100	0	52	23	0	0	76	0.78
459727--459925	100	2.0	100	96	0	371	32	23	23	20	1.98
460613--460693	26	3.0	26	80	10	65	44	28	13	13	1.82
461348--461382	18	1.9	18	100	0	70	17	45	22	14	1.84
463881--463938	12	4.8	12	82	0	71	13	15	18	51	1.76
466535--466658	33	3.4	37	81	13	159	9	9	39	41	1.71
467520--467572	22	2.4	22	93	0	97	35	0	7	56	1.28
469839--469873	16	2.2	16	94	0	61	40	11	0	48	1.39
469800--469933	71	1.9	71	87	6	200	42	10	1	45	1.47
479336--479389	28	1.9	28	96	0	99	22	16	16	44	1.86
489277--489436	64	2.5	62	81	11	180	33	20	18	28	1.96
490001--490069	18	3.7	18	75	7	75	20	18	28	31	1.96
490317--490449	2	67.5	2	94	3	234	50	0	1	48	1.10
495427--495465	2	19.5	2	89	0	60	51	5	0	43	1.24
496114--496265	31	5.0	31	75	3	87	24	17	23	35	1.95
496169--496265	30	3.2	29	76	11	97	19	18	27	34	1.95
498363--498410	23	2.1	22	85	11	62	35	4	18	41	1.70
498541--498576	2	18.5	2	94	5	65	50	0	0	50	1.00
499487--499626	64	2.2	63	84	5	174	37	18	18	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500721--500828	31	3.5	31	77	3	94	25	17	22	35	1.95
500774--500835	30	2.0	31	84	3	81	19	19	25	35	1.95
505960--506010	21	2.6	20	78	9	61	29	25	13	31	1.94
506687--506745	22	2.7	23	82	15	70	59	0	37	3	1.14
511978--512089	51	2.4	45	71	16	107	35	21	25	16	1.95
513183--513497	158	2.0	159	98	1	607	35	13	15	34	1.87
515212--515275	29	2.2	30	83	8	78	40	4	4	50	1.44
526856--526904	20	2.5	20	96	0	89	10	44	12	32	1.75
527137--527189	24	2.2	25	87	9	76	24	3	3	67	1.23
528865--528904	16	2.5	16	88	8	55	10	5	5	80	1.02
533465--533505	6	7.0	6	84	15	59	85	2	12	0	0.70
534412--534686	80	3.3	80	64	27	194	32	25	17	24	1.97
534315--534904	170	3.5	170	98	0	1126	33	25	17	23	1.96
535526--535574	20	2.5	20	96	0	89	10	44	12	32	1.75
535810--535862	24	2.2	25	87	9	76	24	3	3	67	1.23
537642--537813	85	2.0	85	94	2	301	26	13	14	44	1.83
542908--542942	15	2.3	15	95	0	61	37	31	11	20	1.88
543611--543862	117	2.2	117	86	0	378	16	31	19	32	1.94
543630--543939	117	2.6	116	84	4	347	16	30	20	32	1.94
547950--547993	15	2.8	16	79	10	54	20	25	29	25	1.99
554848--554891	18	2.5	17	89	7	70	31	2	4	61	1.28
557397--557467	37	2.0	34	89	8	106	46	18	5	29	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561818--561849	15	2.1	15	94	0	55	59	12	0	28	1.34
561790--561869	37	2.2	36	82	8	101	47	18	2	31	1.62
563354--563397	2	22.0	2	100	0	88	50	0	0	50	1.00
566018--566044	2	13.5	2	100	0	54	0	48	0	51	1.00
580977--581008	2	16.5	2	93	6	57	53	0	0	46	1.00
581385--581466	15	5.5	15	88	2	121	37	7	19	35	1.80
581385--581466	30	2.8	30	94	1	139	37	7	19	35	1.80
581380--581466	45	2.0	44	93	2	147	40	6	19	33	1.78
581449--581518	20	3.5	20	96	0	131	40	10	14	35	1.79
581686--581751	28	2.3	27	82	12	78	51	1	1	45	1.19
581702--581784	32	2.6	33	77	12	84	53	2	0	44	1.13
581744--581862	52	2.3	52	82	15	149	50	0	0	47	1.12
581782--581851	32	2.1	32	84	10	88	51	0	1	47	1.09
581801--581877	23	3.3	24	80	7	79	50	0	0	49	1.00
582051--582170	42	2.9	42	94	0	204	45	18	19	17	1.86
583708--583750	13	3.3	13	73	0	50	58	0	0	41	0.98
587404--587479	22	3.2	24	77	17	63	44	0	1	53	1.08
587435--587496	22	3.0	21	82	13	67	50	0	0	50	1.00
587444--587496	21	2.7	20	85	11	65	54	0	0	45	0.99
593897--593928	17	1.9	17	93	6	57	31	0	0	68	0.90
601805--601836	3	10.7	3	100	0	64	65	0	34	0	0.93
602612--602651	16	2.5	17	80	19	50	30	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604420--604483	13	4.8	12	74	22	56	79	3	3	14	0.97
604584--604625	2	21.0	2	100	0	84	50	0	0	50	1.00
604840--604871	3	11.3	3	87	12	50	68	0	0	31	0.90
606192--606755	164	3.4	164	90	2	853	25	18	24	31	1.98
610981--611038	14	4.2	14	68	18	50	77	5	1	15	1.02
610996--611051	8	7.1	8	75	18	55	75	5	0	19	1.00
610981--611038	23	2.6	23	83	2	64	77	5	1	15	1.02
613791--613830	12	3.6	12	74	19	50	70	0	2	27	1.01
613789--613847	21	2.9	21	90	7	86	67	1	3	27	1.16
613899--614016	44	2.8	44	92	3	188	69	6	3	20	1.26

Tables:   1   2   3   4   5   6   7   8