genome.fa.s8110.2.7.7.80.10.50.1000.3.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: VEPZ01008110.1 Hibiscus syriacus cultivar Beakdansim tig00110646_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  844371

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 535 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)
423221--423921	6	120.8	6	90	7	1123	33	16	0	49	1.46
427591--427630	2	20.0	2	100	0	80	50	0	0	50	1.00
428221--428461	45	5.4	44	85	4	286	30	21	9	39	1.84
428243--428461	90	2.4	90	87	3	316	29	21	9	39	1.85
428243--428498	90	2.8	90	81	5	304	30	22	9	38	1.85
428243--428498	135	1.9	135	83	6	331	30	22	9	38	1.85
428949--429007	21	2.7	21	78	14	66	25	27	15	32	1.95
432145--432178	17	2.0	17	88	0	50	73	2	0	23	0.97
437864--437932	35	2.0	35	82	5	86	23	17	17	42	1.89
439092--439127	18	2.0	18	88	0	54	27	16	0	55	1.42
444535--444595	11	6.0	10	88	9	88	78	1	1	18	0.91
444535--444595	5	12.0	5	86	10	88	78	1	1	18	0.91
444535--444595	16	4.0	15	87	10	88	78	1	1	18	0.91
444535--444595	21	3.0	20	90	4	88	78	1	1	18	0.91
446686--446743	20	2.6	22	86	10	75	31	18	22	27	1.97
451483--451523	13	3.2	13	80	13	50	34	0	19	46	1.50
454468--454508	17	2.4	16	92	8	64	14	31	36	17	1.90
454639--454755	35	3.3	34	78	11	137	34	19	17	28	1.95
454663--454774	35	3.2	34	72	9	109	35	18	17	27	1.94
454636--454774	71	2.0	71	88	8	212	33	20	18	27	1.96
455855--455906	27	1.9	27	92	0	86	32	7	15	44	1.75
456520--456568	19	2.6	19	86	0	62	28	22	32	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457888--457946	29	2.0	29	96	0	109	45	13	15	25	1.82
461596--461644	20	2.4	21	82	3	64	16	22	8	53	1.69
461612--461671	28	2.1	29	78	9	70	18	23	11	46	1.81
462932--463012	30	2.8	28	83	12	94	76	3	16	3	1.07
462960--463008	9	5.2	9	78	7	53	79	0	18	2	0.83
462928--463008	18	4.3	19	71	15	62	75	3	17	3	1.10
465261--466012	136	5.5	135	79	7	680	35	16	22	25	1.95
465261--466012	275	2.7	275	88	2	1023	35	16	22	25	1.95
467513--467592	15	5.6	14	70	22	51	26	3	8	61	1.42
470682--470714	17	1.9	17	88	11	50	63	3	0	33	1.10
472049--472193	2	74.0	2	68	18	74	47	3	3	45	1.36
472514--472630	2	59.0	2	70	14	73	48	1	5	44	1.35
472550--472632	9	10.0	8	75	16	62	53	2	2	42	1.27
473198--473258	25	2.4	25	91	0	95	45	18	11	24	1.82
475028--475078	23	2.2	24	92	3	86	50	5	0	43	1.26
475118--475161	13	3.2	13	81	12	52	36	4	0	59	1.18
475126--475163	13	2.8	13	92	8	58	42	2	0	55	1.14
475101--475169	13	5.3	12	74	17	50	40	4	0	55	1.20
476605--476664	2	30.5	2	77	15	63	51	1	1	45	1.21
476605--476733	11	11.5	11	68	28	64	50	4	1	43	1.32
476605--476743	13	9.9	14	77	14	112	50	5	2	42	1.36
476605--476723	15	8.2	15	68	22	76	50	4	1	43	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476605--476664	23	2.6	24	82	12	72	51	1	1	45	1.21
477138--477190	24	2.2	25	89	3	81	49	5	3	41	1.44
477373--477425	23	2.3	23	93	3	90	49	5	1	43	1.37
477399--477434	15	2.4	15	100	0	72	47	11	0	41	1.39
477513--477552	21	1.9	21	90	10	64	52	25	2	20	1.59
477722--477811	22	4.2	21	75	14	69	41	6	10	42	1.65
477737--477817	22	3.9	21	77	16	80	43	6	7	43	1.57
477817--477845	14	2.0	15	93	6	51	48	6	6	37	1.57
477899--477947	22	2.1	22	85	7	62	38	2	8	51	1.43
477952--478019	21	3.2	21	74	2	64	44	4	5	45	1.48
478001--478127	64	1.9	64	83	10	159	46	3	3	46	1.37
478076--478173	15	6.7	14	75	15	76	47	2	2	47	1.25
478084--478169	6	15.3	6	75	18	71	48	2	1	47	1.22
478076--478109	16	2.2	15	89	5	50	47	2	5	44	1.42
478090--478174	29	3.0	29	81	11	104	49	2	1	47	1.22
478893--478919	13	2.1	13	100	0	54	44	0	0	55	0.99
480351--480400	23	2.1	23	85	10	66	52	2	2	44	1.24
480430--480502	27	2.6	27	82	6	74	49	1	0	49	1.09
502283--502360	37	2.1	37	97	0	147	44	14	10	30	1.78
503561--503599	15	2.6	15	87	0	60	20	12	2	64	1.40
507757--507801	20	2.2	20	88	0	63	33	4	17	44	1.69
512806--513164	18	19.9	18	88	1	459	44	13	9	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515060--515104	18	2.5	18	96	0	81	37	20	8	33	1.83
519221--519283	30	2.1	30	93	0	108	15	26	9	47	1.76
526421--526592	62	3.0	56	84	15	253	31	13	18	37	1.89
528560--528602	20	2.2	20	86	0	59	2	25	0	72	0.97
528567--528605	17	2.2	18	90	4	62	0	23	0	76	0.78
529534--529708	87	2.0	88	98	1	343	42	21	10	25	1.84
534378--534439	19	3.4	18	78	8	63	33	12	3	50	1.57
536401--536479	22	3.6	22	84	5	106	26	16	22	34	1.95
536407--536494	45	2.0	45	88	4	133	26	18	22	32	1.97
536407--536476	23	3.1	23	85	2	97	25	17	25	31	1.97
544370--544418	21	2.3	21	79	6	64	22	24	18	34	1.96
544408--544522	21	5.5	21	86	1	142	38	14	22	24	1.92
544514--544619	20	5.2	20	77	6	106	33	28	15	22	1.94
544508--544645	41	3.4	41	79	2	161	36	24	14	23	1.93
545232--545288	25	2.3	24	80	14	62	19	8	17	54	1.68
546410--546457	18	2.7	18	90	0	78	27	43	12	16	1.84
546992--547087	19	5.6	18	66	22	64	47	21	18	11	1.80
546992--547082	33	2.8	33	91	0	155	49	21	17	10	1.77
547094--547218	20	6.7	19	81	11	80	13	22	23	40	1.89
547132--547218	20	4.4	20	88	1	122	14	24	24	36	1.93
547143--547240	20	4.9	19	87	3	97	19	21	24	34	1.96
547145--547238	40	2.4	40	83	5	111	18	21	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547593--547661	21	3.3	20	74	6	66	24	40	15	18	1.90
547583--547673	41	2.2	42	88	2	139	21	41	15	20	1.89
547586--547691	41	2.5	41	84	3	131	22	40	16	19	1.91
548490--548620	19	7.7	18	67	25	88	44	19	24	12	1.84
548490--548616	33	3.8	33	96	0	227	44	18	24	12	1.85
548616--548678	19	3.3	19	84	6	83	15	15	22	46	1.84
548650--548776	33	3.8	33	94	0	218	15	20	18	45	1.85
548626--548776	19	8.7	19	70	21	109	14	19	19	46	1.84
548704--548758	14	3.6	14	73	21	56	14	20	20	45	1.85
548883--548921	14	2.8	13	88	11	60	46	17	0	35	1.49
550306--550385	42	1.9	42	84	0	106	22	17	38	21	1.93
550607--550791	91	2.0	90	88	6	273	48	18	10	22	1.79
551533--551592	30	2.0	30	96	0	111	30	5	20	45	1.72
551676--551733	21	2.8	21	97	0	107	22	34	18	24	1.96
551796--551858	8	8.8	8	69	22	50	20	34	17	26	1.95
551803--551855	13	3.9	13	79	18	63	20	35	16	26	1.94
551796--551858	28	2.2	29	97	2	119	20	34	17	26	1.95
555090--555149	30	2.0	30	96	0	111	30	5	20	45	1.72
555232--555289	21	2.8	21	97	0	107	20	34	18	25	1.96
555255--555414	8	20.8	8	64	25	51	26	31	17	25	1.97
555359--555415	20	2.8	20	84	7	71	24	33	15	26	1.95
555768--555838	34	2.1	33	87	7	99	29	15	33	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556454--556565	20	5.6	20	81	4	73	21	21	20	36	1.95
556451--556703	41	6.2	41	72	8	149	28	18	19	32	1.96
556474--556606	61	2.2	61	79	5	144	27	21	18	33	1.96
556555--556627	21	3.5	21	79	3	76	38	16	20	24	1.93
556637--556688	20	2.5	21	81	3	61	21	21	17	40	1.91
561713--561772	17	3.4	17	65	17	50	70	3	10	16	1.29
561701--561778	36	2.2	35	95	4	138	69	2	7	20	1.26
562391--562431	21	2.0	21	90	9	66	17	24	9	48	1.76
563010--563066	25	2.2	24	80	17	62	63	0	1	35	1.05
563079--563373	38	7.8	38	87	5	402	44	7	2	46	1.42

Tables:   1   2   3   4   5