genome.fa.s8245.2.7.7.80.10.50.1000.29.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  29  of  33  ( 3922 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)
5775290--5775457	14	12.1	14	70	18	66	45	0	8	45	1.38
5775282--5775392	25	4.6	25	79	15	119	38	0	11	49	1.39
5775409--5775459	10	5.2	10	79	11	52	52	1	1	43	1.23
5775441--5775466	11	2.4	11	100	0	52	57	0	0	42	0.98
5775496--5775534	16	2.4	16	86	0	51	41	5	7	46	1.55
5778175--5778214	21	1.9	21	100	0	80	57	15	0	27	1.38
5778266--5778299	17	1.9	18	94	5	61	61	2	0	35	1.11
5781979--5782020	22	1.9	22	90	9	68	14	11	4	69	1.34
5782589--5782630	22	1.9	22	90	9	68	14	11	4	69	1.34
5784413--5784452	21	1.9	21	89	0	62	35	17	20	27	1.95
5786695--5786944	124	2.0	124	100	0	500	32	24	10	33	1.89
5787399--5787470	19	3.6	20	73	5	65	19	18	29	33	1.95
5790013--5790059	17	2.8	17	96	0	85	34	10	27	27	1.90
5790452--5790519	35	1.9	35	87	0	100	41	36	7	14	1.74
5798632--5798724	21	4.5	21	78	4	100	39	18	24	17	1.91
5798713--5798827	20	5.7	20	82	2	113	33	25	17	24	1.96
5798632--5798724	41	2.3	41	100	0	186	39	18	24	17	1.91
5799015--5799058	22	2.0	22	90	0	70	20	43	15	20	1.88
5799322--5799359	20	1.9	20	88	0	58	13	15	21	50	1.78
5800679--5800723	18	2.5	18	81	0	63	28	44	13	13	1.81
5801199--5801265	20	3.4	20	81	2	73	38	23	22	14	1.92
5801254--5801311	14	3.9	14	81	16	71	50	22	17	10	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5801238--5801328	32	2.8	33	93	3	157	48	20	18	12	1.80
5801340--5801411	19	3.7	19	85	3	99	13	23	23	38	1.91
5803429--5803477	19	2.6	19	96	0	89	51	16	18	14	1.77
5803429--5803484	19	2.9	19	86	5	78	51	16	19	12	1.75
5803515--5803572	20	2.9	20	94	0	98	17	22	22	37	1.93
5805326--5805452	33	3.8	33	82	4	166	43	18	22	15	1.88
5805326--5805456	19	7.7	19	66	23	76	43	19	22	15	1.87
5805335--5805459	66	1.9	66	93	0	214	42	18	22	16	1.89
5805452--5805494	20	2.2	20	83	4	52	18	18	20	41	1.90
5805461--5805528	20	3.8	19	72	21	74	13	22	19	45	1.84
5805635--5805671	14	2.6	14	91	0	65	45	24	0	29	1.53
5807027--5807093	21	3.2	21	68	4	55	19	20	35	23	1.95
5807027--5807149	42	2.9	41	80	7	113	22	17	36	22	1.95
5809177--5809276	33	3.0	33	89	1	146	40	26	23	11	1.87
5809152--5809336	19	10.1	19	75	14	165	44	22	21	11	1.85
5809247--5809336	39	2.3	38	92	1	144	47	22	18	11	1.80
5809335--5809398	19	3.3	19	80	8	58	10	14	25	50	1.75
5809343--5809395	19	2.7	19	88	2	70	11	16	24	47	1.80
5809914--5809966	20	2.7	20	93	0	88	26	20	28	24	1.99
5809977--5810089	41	2.8	41	89	2	129	20	21	19	38	1.93
5810002--5810072	21	3.4	21	76	3	90	15	22	18	43	1.87
5810016--5810089	20	3.7	20	76	3	85	17	21	18	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5811036--5811114	30	2.7	30	86	5	108	44	3	13	37	1.63
5813702--5813726	3	8.3	3	100	0	50	68	32	0	0	0.90
5819453--5819478	12	2.2	12	100	0	52	69	0	0	30	0.89
5819442--5819474	17	1.9	17	100	0	66	69	0	0	30	0.88
5820150--5820386	115	2.0	119	83	5	304	37	11	8	42	1.72
5821006--5821142	60	2.3	60	81	7	154	34	16	17	31	1.93
5821608--5821642	5	7.0	5	100	0	70	20	20	0	60	1.37
5824571--5824607	13	2.9	13	84	15	51	54	2	13	29	1.53
5825113--5825187	23	3.3	23	90	0	114	24	26	25	24	2.00
5825311--5825338	2	14.0	2	100	0	56	50	0	0	50	1.00
5825305--5825372	10	6.4	11	75	14	54	42	0	13	44	1.43
5833831--5834218	54	7.2	54	89	2	550	37	16	15	31	1.90
5835080--5835119	21	2.0	20	85	5	53	27	30	2	40	1.70
5839245--5839430	54	3.5	54	87	2	187	39	16	11	32	1.85
5839278--5839448	54	3.2	54	92	0	270	38	17	12	31	1.87
5839494--5839549	20	2.8	19	80	17	69	32	16	28	23	1.96
5839578--5839624	22	2.3	21	89	10	71	38	17	14	29	1.89
5839973--5840241	58	4.6	58	96	0	484	34	10	20	34	1.87
5840476--5840846	68	5.5	68	87	1	519	31	14	23	30	1.95
5840925--5841149	45	5.0	45	87	0	351	34	11	25	28	1.90
5840923--5841173	135	1.9	135	88	1	387	36	9	24	28	1.88
5843100--5843160	30	2.1	29	84	3	77	32	18	8	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5845532--5845579	23	2.1	23	84	0	60	43	4	16	35	1.67
5845610--5845680	23	3.1	23	83	0	88	36	11	16	35	1.85
5845698--5846393	199	3.5	198	83	8	780	31	14	14	39	1.87
5852123--5853291	402	2.9	396	83	6	1367	31	15	13	39	1.86
5852123--5853291	200	5.8	199	82	5	1286	31	15	13	39	1.86
5855598--5855627	2	15.0	2	100	0	60	50	0	0	50	1.00
5855991--5857073	200	5.4	198	83	5	1272	32	16	13	37	1.88
5855986--5857070	402	2.7	397	83	5	1343	32	16	13	37	1.88
5857477--5857525	19	2.6	19	90	0	80	55	8	2	34	1.41
5858878--5858910	13	2.5	13	100	0	66	18	27	21	33	1.96
5859092--5859130	18	2.2	18	95	0	69	2	41	0	56	1.13
5859305--5859369	33	2.0	33	96	0	121	24	44	0	30	1.54
5859313--5859366	18	3.2	18	64	15	51	25	40	0	33	1.56
5859405--5859448	21	2.1	21	91	0	70	15	34	9	40	1.79
5859836--5859891	24	2.4	23	80	8	69	51	3	0	44	1.18
5862783--5863637	182	4.7	181	85	3	1058	27	16	14	40	1.88
5864267--5864340	15	4.9	15	81	3	85	44	2	5	47	1.40
5864270--5864340	31	2.3	30	87	2	97	45	2	5	46	1.41
5866856--5866891	13	2.8	13	91	4	56	41	0	0	58	0.98
5866857--5866896	13	3.3	12	89	6	55	45	0	0	55	0.99
5878889--5878933	21	2.1	22	83	4	56	17	22	8	51	1.73
5879724--5879768	14	3.1	14	84	6	54	26	35	20	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5879776--5879834	23	2.6	23	88	0	82	27	22	20	30	1.98
5881909--5881970	24	2.6	23	79	5	70	29	12	16	41	1.85
5881996--5882462	153	3.0	153	85	4	609	19	13	29	37	1.90
5884825--5884888	21	3.1	21	75	4	76	17	18	26	37	1.93
5885539--5885575	6	6.5	6	90	3	51	2	16	51	29	1.58
5885647--5885729	19	4.2	19	77	8	85	43	20	16	19	1.88
5885684--5885731	19	2.5	19	100	0	96	41	18	20	18	1.90
5886756--5886870	11	9.9	11	66	10	50	76	3	6	13	1.11
5886897--5886932	15	2.5	15	90	4	56	77	0	8	13	0.98
5886896--5886932	14	2.4	16	82	13	51	78	0	8	13	0.96
5888273--5888298	13	2.0	13	100	0	52	76	7	0	15	0.99
5888345--5888443	31	3.2	31	84	8	130	47	4	3	45	1.37
5888470--5888623	35	4.5	34	79	15	149	43	3	5	48	1.41
5888470--5888625	70	2.3	68	82	12	178	43	3	5	48	1.41
5889253--5890006	84	9.2	82	79	7	712	23	20	25	29	1.99
5889253--5890006	246	3.1	244	84	5	912	23	20	25	29	1.99
5893208--5893248	19	2.2	19	95	4	75	70	9	9	9	1.34
5894915--5894985	23	3.1	23	76	9	58	76	2	8	12	1.12
5896379--5896404	13	2.0	13	100	0	52	76	7	0	15	0.99
5896455--5896555	31	3.2	31	83	10	125	47	3	2	45	1.36
5896495--5896744	35	7.0	35	77	14	210	43	3	4	48	1.41
5896493--5896739	71	3.5	69	76	16	238	43	3	4	48	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5897616--5897730	24	4.4	26	73	23	91	33	1	1	62	1.16
5900907--5900979	21	3.5	21	98	0	137	17	16	9	56	1.66
5901347--5901401	21	2.6	21	85	0	74	34	25	12	27	1.92
5902275--5902348	19	3.7	19	76	15	69	31	13	27	28	1.94
5902772--5903174	59	6.8	59	95	0	682	34	12	19	33	1.89
5912330--5912575	31	8.0	31	89	2	352	22	18	20	38	1.93
5913353--5913405	22	2.4	22	84	6	63	26	22	26	24	2.00
5913826--5913881	16	3.2	17	82	12	62	48	1	0	50	1.11
5921587--5921642	15	3.6	15	79	9	67	42	12	12	32	1.80
5921590--5921640	17	3.1	17	77	11	61	43	11	9	35	1.75

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33