genome.fa.s8356.2.7.7.80.10.50.1000.43.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  43  of  56  ( 6656 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)
10027111--10027135	13	1.9	13	100	0	50	32	0	44	24	1.54
10028163--10028201	21	1.9	21	89	5	62	17	23	23	35	1.95
10028250--10028290	5	7.8	5	84	10	55	19	53	21	4	1.63
10028260--10028297	17	2.2	17	100	0	76	18	47	23	10	1.79
10029095--10029119	13	1.9	13	100	0	50	32	0	24	44	1.54
10035332--10035411	10	8.3	9	71	13	52	13	28	31	26	1.94
10035331--10035405	30	2.6	29	85	8	107	14	26	32	26	1.95
10035423--10035450	12	2.3	12	100	0	56	17	42	25	14	1.87
10039114--10039161	23	2.1	23	85	14	64	54	18	2	25	1.55
10048272--10048337	31	2.1	31	81	15	75	31	22	10	34	1.88
10048672--10048725	20	2.7	20	82	0	72	38	5	14	40	1.70
10060155--10060450	46	6.4	46	92	0	466	43	13	20	21	1.86
10060215--10060431	20	9.6	20	65	23	85	41	13	23	21	1.89
10060234--10060660	72	6.1	72	69	18	290	43	12	21	22	1.86
10060328--10060568	118	2.0	118	94	0	419	44	12	20	22	1.85
10060282--10060615	164	2.0	164	92	1	562	43	12	20	22	1.86
10060446--10060692	46	5.4	46	86	0	323	43	12	20	23	1.85
10060243--10060660	210	2.0	210	91	0	674	43	12	21	22	1.87
10060453--10060706	138	1.8	138	87	0	382	43	12	20	23	1.86
10066981--10067339	37	9.7	37	78	11	360	45	7	4	43	1.51
10066971--10067291	76	4.4	72	83	7	321	46	6	3	43	1.46
10066981--10067311	36	8.9	37	76	15	303	45	6	3	43	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10067047--10067341	76	4.0	73	80	5	200	44	6	4	43	1.51
10067324--10067366	2	22.0	2	90	4	70	48	0	2	48	1.14
10067982--10068603	84	7.4	84	80	4	666	24	18	25	30	1.98
10068711--10069350	219	3.0	217	88	5	898	23	17	24	34	1.96
10068870--10069350	110	4.4	109	93	1	788	23	17	24	34	1.96
10068760--10069358	329	1.9	316	86	5	855	23	18	23	34	1.96
10070550--10070589	19	2.1	19	100	0	80	37	22	10	30	1.87
10072293--10072366	8	8.9	8	72	16	53	74	4	1	20	1.06
10072298--10072358	28	2.2	27	83	13	72	72	4	1	21	1.13
10072291--10072365	37	2.1	34	83	11	89	73	4	1	21	1.07
10072334--10072366	16	2.1	16	94	5	59	81	0	0	18	0.68
10072341--10072420	32	2.5	30	80	13	90	75	1	7	16	1.10
10072405--10072465	26	2.3	27	86	11	81	72	0	6	21	1.07
10073763--10073802	3	13.3	3	84	10	55	70	0	2	27	1.01
10073861--10074219	37	9.7	37	78	10	333	45	7	4	43	1.51
10073815--10074177	112	3.3	113	81	7	329	46	6	3	43	1.46
10073993--10074018	12	2.2	12	100	0	52	46	7	7	38	1.61
10073815--10074217	148	2.7	144	78	11	393	45	7	4	42	1.51
10073800--10074177	37	10.3	36	77	12	301	46	6	3	43	1.45
10073867--10074216	184	1.9	184	85	2	479	45	7	4	42	1.51
10073900--10074191	73	4.0	73	84	8	236	45	6	4	44	1.48
10074204--10074360	2	79.0	2	88	1	235	45	0	4	49	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10073815--10074219	149	2.7	149	76	9	373	45	7	4	42	1.50
10075406--10075472	18	3.4	19	79	10	64	8	16	19	55	1.67
10075722--10075834	37	3.1	37	98	0	217	36	14	17	31	1.90
10075979--10076035	28	2.0	28	100	0	114	21	14	38	26	1.91
10080518--10080563	19	2.3	20	81	7	58	28	23	17	30	1.97
10080690--10080769	20	4.0	20	77	9	72	33	27	16	22	1.95
10080735--10080778	20	2.2	20	91	0	70	25	27	18	29	1.98
10081001--10081048	20	2.4	20	92	0	78	37	25	20	16	1.93
10081001--10081056	20	2.8	20	88	0	76	42	21	19	16	1.89
10081075--10081139	19	3.7	19	80	13	77	13	18	18	49	1.80
10081145--10081183	20	2.0	20	94	0	69	12	10	30	46	1.75
10082726--10082813	42	2.1	42	89	2	133	21	13	42	22	1.88
10082753--10082813	21	2.9	21	73	9	70	21	13	42	22	1.87
10083154--10083206	20	2.7	20	87	0	70	33	28	13	24	1.93
10083160--10083266	20	5.4	20	86	1	108	35	25	22	16	1.95
10083239--10083304	19	3.7	19	71	19	70	46	19	19	13	1.83
10083311--10083374	19	3.6	19	76	20	84	14	20	20	45	1.85
10083934--10083981	18	2.7	18	93	0	78	16	12	41	29	1.85
10085299--10085341	20	2.2	20	86	0	59	53	20	16	9	1.70
10085619--10085662	22	2.0	22	95	0	79	18	15	45	20	1.85
10085863--10086007	21	7.0	22	83	8	96	20	19	25	35	1.96
10085848--10085961	20	5.7	20	85	6	149	21	18	28	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10085828--10085963	41	3.3	41	85	6	195	22	17	26	33	1.96
10085848--10086025	41	4.3	41	86	4	175	20	20	24	34	1.97
10085951--10086027	21	3.7	21	100	0	154	16	23	20	38	1.92
10092544--10092603	25	2.4	26	83	10	72	75	5	18	1	1.07
10092558--10092607	11	4.0	12	80	15	57	76	2	22	0	0.89
10092556--10092609	27	2.0	26	89	10	83	74	1	24	0	0.92
10092583--10092632	18	2.5	20	75	15	50	72	0	28	0	0.86
10094704--10094735	8	4.0	8	95	0	55	9	25	15	50	1.74
10095110--10095245	37	3.8	36	79	3	148	29	16	13	39	1.88
10095140--10095235	36	2.6	37	85	1	131	31	16	13	38	1.88
10095445--10095547	37	2.8	36	82	7	118	32	15	13	38	1.86
10095457--10095547	37	2.5	37	85	1	121	27	16	14	41	1.87
10095511--10095785	99	2.7	100	78	8	267	34	14	12	38	1.84
10095781--10096002	67	3.3	67	87	2	313	30	16	12	40	1.86
10095888--10096008	36	3.5	35	67	18	92	29	18	10	41	1.84
10096007--10096419	138	3.0	138	85	1	549	28	28	15	27	1.97
10096011--10096470	138	3.3	137	83	2	413	29	27	16	27	1.97
10096667--10096716	3	16.7	3	100	0	100	34	0	0	66	0.92
10098390--10098431	16	2.6	16	84	0	57	11	11	9	66	1.44
10100554--10100582	15	1.9	15	100	0	58	20	6	41	31	1.79
10102846--10103104	146	1.8	140	87	8	387	49	8	6	35	1.59
10102959--10103195	128	1.8	128	82	7	289	49	7	6	36	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10103096--10103137	17	2.4	17	84	11	50	52	0	4	42	1.22
10103277--10103336	22	2.8	21	80	10	68	70	1	1	26	1.07
10103704--10103768	6	10.8	6	100	0	130	49	0	16	33	1.47
10104633--10104676	22	2.0	22	86	0	61	22	18	34	25	1.96
10104948--10104993	18	2.4	18	89	10	65	54	0	0	45	0.99
10104948--10104996	21	2.3	22	86	13	68	55	0	0	44	0.99
10105246--10105359	45	2.5	45	84	2	129	30	17	23	28	1.97
10105153--10105596	121	3.7	121	93	0	728	32	18	22	26	1.97
10105367--10105475	45	2.4	45	87	3	146	31	21	22	24	1.98
10105498--10105668	45	3.8	45	88	1	245	30	19	23	25	1.98
10105498--10105668	90	1.9	90	93	0	297	30	19	23	25	1.98
10106325--10106390	22	3.0	22	81	0	78	33	10	18	37	1.85
10109577--10109631	27	2.0	27	96	0	101	20	23	27	29	1.99
10109861--10109903	20	2.2	20	86	0	59	34	20	13	30	1.92
10114501--10114554	27	2.0	27	92	0	90	20	20	27	31	1.97
10114785--10114827	20	2.2	20	86	0	59	34	20	13	30	1.92
10117494--10117628	72	1.9	72	92	3	227	34	17	20	27	1.95
10122491--10122752	146	1.8	143	89	5	411	49	8	6	35	1.59
10122744--10122785	17	2.4	17	84	11	50	52	0	4	42	1.22
10122925--10122984	22	2.8	21	80	10	68	70	1	1	26	1.07
10123352--10123386	6	5.8	6	100	0	70	48	0	17	34	1.47
10125449--10125491	13	3.2	13	83	3	50	51	16	2	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10128108--10128158	18	2.9	18	80	5	61	13	13	1	70	1.25
10128461--10128714	67	3.8	67	80	3	242	34	24	15	26	1.95
10132686--10132719	18	1.9	17	88	5	50	35	2	0	61	1.11
10132854--10132892	2	19.5	2	100	0	78	48	0	0	51	1.00
10133759--10133791	14	2.4	14	94	0	57	30	21	18	30	1.97
10135942--10136016	3	25.0	3	97	0	123	33	4	0	62	1.14
10135946--10136041	15	6.4	15	92	0	111	33	9	0	57	1.31
10135991--10136037	18	2.6	18	93	0	76	34	19	0	46	1.50
10143668--10143881	106	2.0	106	91	0	347	37	11	20	31	1.87
10147046--10147100	21	2.5	23	85	5	69	23	34	18	23	1.96

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56