genome.fa.s8747.2.7.7.80.10.50.1000.45.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  45  of  51  ( 6054 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)
11217167--11217211	3	14.7	3	95	4	81	35	0	0	64	0.94
11227260--11227447	99	1.9	99	85	2	261	34	17	17	30	1.93
11229145--11229232	43	2.0	45	91	4	144	22	17	17	43	1.88
11229150--11229240	44	2.1	43	89	2	137	24	17	17	40	1.90
11230036--11230477	81	5.5	81	78	7	343	34	19	20	25	1.96
11230022--11230414	162	2.5	155	79	4	399	34	20	20	25	1.96
11230353--11230621	135	2.0	136	79	5	294	34	20	18	26	1.96
11230486--11230961	81	6.0	81	80	4	500	34	19	19	25	1.96
11230488--11231905	241	6.0	236	75	11	651	34	20	19	26	1.96
11230486--11231086	318	1.9	317	78	6	660	34	19	19	26	1.96
11231095--11231970	81	10.9	81	76	6	683	33	19	19	26	1.96
11231095--11231970	160	5.5	161	79	5	745	33	19	19	26	1.96
11231095--11231816	241	3.0	238	82	7	814	33	19	19	26	1.96
11232744--11232896	36	4.2	37	84	3	204	34	20	19	24	1.96
11232748--11232883	73	1.9	72	95	1	245	33	22	21	22	1.97
11233254--11234661	54	25.9	55	82	5	1427	33	17	23	24	1.96
11233254--11234738	55	27.4	55	81	6	1488	33	18	23	24	1.97
11233247--11234750	328	4.6	329	82	7	1564	33	18	23	24	1.97
11243851--11243918	34	2.0	34	91	0	109	38	7	29	25	1.83
11246383--11246465	3	29.0	3	77	9	84	40	1	0	57	1.06
11246390--11246497	26	4.3	26	79	17	104	46	1	0	51	1.11
11246580--11246620	16	2.6	16	96	0	73	9	56	17	17	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11248280--11248460	92	2.0	87	94	5	317	31	27	12	28	1.92
11248565--11248632	19	3.8	18	75	9	59	36	2	0	60	1.12
11255019--11255054	8	4.6	8	86	6	56	86	0	13	0	0.58
11255019--11255054	16	2.3	16	95	4	65	86	0	13	0	0.58
11255018--11255054	15	2.3	17	86	13	60	86	0	13	0	0.57
11256191--11256499	83	3.7	83	95	1	557	26	13	22	37	1.91
11257219--11257783	113	5.0	113	88	4	800	37	13	18	29	1.90
11257219--11257783	227	2.5	226	89	3	827	37	13	18	29	1.90
11258114--11258206	3	31.0	3	82	0	114	40	1	0	58	1.05
11258327--11258367	16	2.6	16	100	0	82	7	56	19	17	1.64
11264789--11264846	29	2.0	29	96	0	107	48	13	18	18	1.81
11270179--11270221	17	2.4	18	92	7	79	30	25	11	32	1.91
11290556--11290596	20	2.0	20	100	0	82	41	14	9	34	1.79
11302212--11302311	36	2.8	36	82	0	128	51	16	11	22	1.75
11303060--11303119	12	5.0	12	73	19	54	68	6	0	25	1.14
11303104--11303200	47	2.2	45	85	10	130	57	13	2	26	1.47
11303174--11303215	21	2.0	21	90	0	66	64	11	2	21	1.38
11303205--11303301	22	4.3	22	67	18	74	56	8	2	32	1.40
11303205--11303343	68	2.0	69	97	1	262	55	8	2	33	1.43
11307256--11307361	24	4.5	24	71	2	88	47	16	15	20	1.83
11307256--11307363	47	2.3	48	75	1	110	47	16	15	20	1.83
11309824--11309863	8	5.5	8	77	22	52	20	25	40	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11309858--11309903	18	2.6	18	96	0	83	10	19	52	17	1.74
11309829--11309893	26	2.5	27	74	23	68	18	21	44	15	1.86
11309824--11309881	13	4.3	13	88	4	80	18	22	43	15	1.88
11311964--11312070	24	4.5	24	72	0	88	46	16	14	21	1.83
11311964--11312072	48	2.3	48	75	0	110	46	16	15	21	1.83
11313194--11313229	18	2.0	18	88	0	54	22	22	5	50	1.70
11314527--11314581	12	4.2	12	86	11	65	20	23	41	14	1.89
11314561--11314606	18	2.6	18	96	0	83	10	19	52	17	1.74
11314528--11314584	13	4.3	13	86	8	71	19	22	42	15	1.89
11319832--11319870	20	1.9	21	94	5	71	17	20	23	38	1.93
11320748--11320806	27	2.2	28	87	6	86	47	20	13	18	1.82
11322738--11322823	44	2.0	44	83	4	111	30	23	17	29	1.97
11323479--11323556	20	3.8	20	82	16	97	28	32	10	29	1.90
11323889--11323936	25	1.9	25	82	0	60	35	25	0	39	1.56
11329861--11330186	140	2.3	141	85	3	415	28	13	20	37	1.91
11330116--11330168	27	2.0	27	92	0	88	26	13	24	35	1.92
11329914--11330281	140	2.7	137	80	8	399	27	14	21	36	1.92
11335029--11335078	25	2.0	26	84	4	66	36	20	0	44	1.52
11335921--11335959	2	19.5	2	100	0	78	48	0	0	51	1.00
11338174--11338276	30	3.5	30	68	18	90	54	4	38	1	1.33
11338234--11338345	6	18.2	6	66	18	52	47	5	45	1	1.36
11338188--11338303	57	2.0	57	91	0	187	50	6	40	2	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11338210--11338336	30	4.3	30	76	9	129	47	6	44	2	1.41
11338329--11338439	21	5.2	20	81	8	107	47	9	42	0	1.41
11338329--11338450	42	2.9	43	82	6	133	48	9	41	0	1.40
11345693--11345807	56	2.1	56	88	3	169	21	20	24	33	1.97
11355287--11355338	13	3.8	13	75	12	50	76	0	13	9	1.01
11355297--11355335	20	2.0	20	85	10	53	79	0	10	10	0.94
11356779--11357413	55	11.5	55	88	3	786	33	14	23	28	1.94
11357214--11357647	56	8.0	55	81	10	484	36	15	21	26	1.93
11357372--11357514	55	2.9	46	79	16	178	36	13	21	27	1.92
11357214--11357624	213	1.9	212	87	5	598	36	16	21	26	1.94
11357418--11357647	55	4.2	56	85	4	290	37	15	20	26	1.93
11357260--11357561	157	1.9	158	90	3	484	36	15	20	27	1.93
11357418--11357647	58	4.2	56	85	6	283	37	15	20	26	1.93
11359972--11360021	22	2.3	21	80	10	55	12	32	32	24	1.91
11360041--11360196	61	2.6	59	89	5	235	38	7	23	30	1.83
11360041--11360205	90	1.8	89	90	1	267	38	7	23	30	1.82
11360041--11360205	29	5.6	29	88	5	242	38	7	23	30	1.82
11364205--11364636	217	2.0	214	97	1	819	23	18	22	34	1.96
11367667--11367837	29	5.9	29	81	5	184	39	7	19	34	1.79
11375417--11375458	22	1.9	22	85	9	59	23	0	4	71	1.05
11375470--11375537	26	2.6	26	76	0	73	33	1	4	60	1.26
11378665--11378717	27	2.0	27	84	0	70	32	1	5	60	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11380394--11380744	173	2.0	175	98	1	688	34	8	17	39	1.79
11381732--11381806	31	2.4	31	88	0	105	26	9	12	52	1.69
11381974--11382024	22	2.3	22	86	6	68	50	0	5	43	1.26
11381970--11382035	25	2.7	24	77	17	66	50	0	6	43	1.27
11385383--11385431	21	2.3	21	82	0	53	32	26	14	26	1.94
11386232--11386301	35	2.0	35	91	0	113	31	10	37	21	1.86
11386371--11386472	4	27.5	4	70	15	76	50	0	0	50	1.00
11386371--11386472	6	18.3	6	77	15	76	50	0	0	50	1.00
11386365--11386472	42	2.5	42	92	3	171	50	0	0	50	1.00
11391361--11391437	2	39.5	2	92	5	131	50	1	0	48	1.09
11395019--11395060	16	2.6	16	80	0	57	50	28	7	14	1.69
11395067--11395170	32	3.2	33	83	4	97	44	25	10	20	1.83
11395098--11395170	32	2.3	32	90	0	110	45	28	10	15	1.80
11399157--11399308	76	2.0	76	100	0	304	30	13	22	34	1.92
11407067--11407106	10	3.9	10	90	6	62	0	22	0	77	0.77
11407070--11407102	13	2.5	13	95	5	57	0	24	0	75	0.80
11407074--11407107	11	3.2	11	87	4	52	0	20	0	79	0.73
11407597--11407686	44	2.0	45	97	2	173	46	24	8	20	1.78
11409339--11409392	21	2.6	21	96	0	99	25	16	27	29	1.97
11409381--11409440	20	2.9	20	79	13	68	15	23	23	38	1.92
11409547--11409600	6	9.5	6	97	2	87	29	53	16	0	1.43
11410091--11410121	6	5.3	6	92	7	55	0	16	51	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11410221--11410294	22	3.4	22	88	1	114	35	27	17	20	1.95
11410286--11410310	13	1.9	13	100	0	50	36	32	24	8	1.84
11410299--11410352	21	2.6	21	100	0	108	29	29	16	24	1.97
11410586--11410677	30	2.9	32	74	19	95	35	31	13	19	1.90
11410798--11411102	152	2.0	153	98	0	594	27	22	21	27	1.99
11417317--11417413	42	2.5	39	77	11	92	46	6	7	40	1.56
11417390--11417715	34	9.7	35	76	15	228	43	3	7	44	1.52
11417379--11417735	35	10.4	34	76	16	260	43	3	8	44	1.52
11417566--11417628	27	2.3	28	88	2	92	47	3	7	41	1.48
11417533--11417662	62	2.1	62	83	8	158	46	4	6	43	1.49

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