genome.fa.s7968.2.7.7.80.10.50.1000.2.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: VEPZ01007968.1 Hibiscus syriacus cultivar Beakdansim tig00110403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1361854

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 589 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)
303905--303952	22	2.2	20	85	10	60	75	6	0	18	1.01
304327--304382	19	2.9	20	73	7	53	50	3	1	44	1.29
315723--315763	15	2.8	15	92	3	66	51	0	0	48	1.00
315672--315771	28	3.6	28	72	9	96	52	0	2	46	1.12
320113--320144	2	16.0	2	100	0	64	50	0	0	50	1.00
322182--322233	2	26.0	2	100	0	104	50	0	0	50	1.00
328936--330006	109	9.8	109	84	2	1215	26	15	23	34	1.95
329955--330049	46	2.1	44	86	5	136	28	20	20	31	1.97
329857--330157	154	2.0	153	83	5	383	25	19	21	33	1.97
330880--331005	60	2.1	60	100	0	252	40	24	4	30	1.76
330916--331005	28	2.9	32	64	18	82	40	23	4	32	1.74
330888--330987	28	3.4	28	67	15	85	41	20	6	33	1.76
333951--333989	2	19.5	2	100	0	78	48	0	0	51	1.00
335152--335183	6	5.3	6	96	0	55	0	71	12	15	1.14
335177--335225	4	12.5	4	86	4	73	2	71	0	26	0.97
335344--335393	26	1.9	26	88	8	75	36	0	2	62	1.07
337523--337569	18	2.5	20	86	6	62	8	4	27	59	1.45
338484--338570	15	5.7	15	81	2	93	32	5	20	41	1.76
338481--338570	30	2.9	30	93	3	144	32	5	20	42	1.75
338674--338739	23	2.9	23	73	13	64	22	24	22	30	1.99
341989--342019	15	2.1	15	93	0	53	29	22	6	41	1.78
349151--349203	3	18.0	3	80	18	58	35	1	0	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349152--349225	38	2.0	36	84	5	94	43	1	0	55	1.08
350444--350489	21	2.2	20	85	11	58	30	2	2	65	1.16
350424--350489	10	6.3	10	81	16	64	30	3	1	65	1.17
350426--350489	31	2.0	33	82	11	80	31	3	1	64	1.19
350711--350757	10	4.5	10	84	7	58	29	2	2	65	1.15
350943--351151	115	1.8	116	84	1	285	40	8	7	43	1.64
350484--351140	270	2.5	268	85	6	721	39	6	7	46	1.58
352186--352346	80	2.0	80	100	0	322	31	16	14	37	1.89
360376--360410	10	3.6	10	84	7	54	71	0	0	28	0.86
367884--367924	21	2.0	21	90	0	64	36	4	26	31	1.78
375981--376053	33	2.2	33	79	16	80	32	13	6	46	1.70
376878--377019	21	6.8	21	77	12	148	21	21	23	33	1.97
376870--377019	42	3.7	40	83	8	169	22	22	22	33	1.97
376878--377019	63	2.3	61	88	4	212	21	21	23	33	1.97
377890--378089	42	4.7	42	85	9	255	36	24	18	21	1.95
377972--378018	24	2.0	24	91	0	76	34	23	19	23	1.97
377890--378089	87	2.4	83	82	9	253	36	24	18	21	1.95
377894--378089	21	9.3	20	66	16	69	36	23	18	20	1.95
380581--380636	21	2.8	20	79	15	78	35	14	7	42	1.73
383779--383803	2	12.5	2	100	0	50	52	0	0	48	1.00
385688--385712	10	2.5	10	100	0	50	44	16	8	32	1.76
388434--388472	18	2.2	18	90	4	62	30	2	2	64	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390261--390295	18	1.9	18	88	0	52	28	22	17	31	1.96
392463--392497	17	1.9	19	88	11	56	51	8	2	37	1.47
393048--393082	15	2.3	15	95	0	61	28	34	20	17	1.95
411618--411663	22	2.0	23	84	12	60	65	0	6	28	1.17
417615--417716	33	3.1	33	88	0	150	40	22	23	13	1.90
417690--417788	39	2.5	38	79	6	108	41	22	21	15	1.90
424651--424676	2	13.0	2	100	0	52	50	0	0	50	1.00
427158--427224	33	2.0	33	97	0	125	25	34	10	29	1.89
429125--429173	24	2.0	24	100	0	98	24	24	12	38	1.90
429724--429804	3	27.0	3	81	7	67	64	2	27	6	1.30
433017--433046	15	2.0	15	93	0	51	43	0	26	30	1.55
433184--433404	64	3.5	63	81	9	220	32	20	19	28	1.96
433724--433759	18	2.0	18	88	0	54	30	8	16	44	1.77
438378--438507	64	2.0	63	84	8	165	32	18	19	30	1.96
442605--442660	14	4.3	14	76	17	66	10	12	23	53	1.69
442612--442681	24	2.9	24	87	4	97	12	10	18	58	1.62
443405--443479	10	7.7	10	69	21	61	9	12	21	57	1.62
443411--443475	16	4.1	16	95	0	121	7	12	23	56	1.61
443545--443577	16	2.1	16	100	0	66	6	12	24	57	1.57
456913--456973	20	3.0	20	90	0	95	27	19	14	37	1.91
457586--457625	14	3.0	14	79	20	50	70	10	20	0	1.16
458851--458877	4	6.8	4	100	0	54	51	25	0	22	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459238--459579	105	3.3	105	89	4	469	33	15	11	39	1.83
459755--459842	26	3.2	27	78	15	108	32	6	14	45	1.72
459757--459842	29	3.1	28	80	10	113	33	6	13	45	1.71
459813--460224	62	6.5	62	70	15	249	30	13	13	42	1.83
460063--460164	30	3.3	30	81	9	109	33	15	10	40	1.82
460004--460164	30	5.1	29	74	17	108	32	15	11	40	1.84
460200--460268	27	2.5	26	84	9	93	24	7	15	52	1.68
460668--460746	31	2.7	29	84	9	99	25	11	11	51	1.71
460723--460883	63	2.5	63	88	4	223	27	13	14	44	1.83
460840--460903	29	2.2	30	85	2	85	21	17	14	46	1.83
460920--461269	134	2.6	134	86	1	452	27	31	17	23	1.97
464582--464606	2	12.5	2	100	0	50	48	0	0	52	1.00
467310--467339	3	10.0	3	100	0	60	66	0	33	0	0.92
474305--474378	37	2.0	37	94	0	130	25	9	33	31	1.88
480753--480788	12	3.1	12	84	8	56	16	8	41	33	1.78
480753--480806	23	2.3	23	87	0	72	20	7	42	29	1.79
480753--480786	11	2.9	12	86	8	52	17	8	44	29	1.79
480833--480888	23	2.4	23	96	0	103	33	26	14	25	1.94
480833--480897	23	2.8	23	92	0	94	35	26	12	26	1.91
487260--487326	34	1.9	34	85	14	93	20	11	17	49	1.79
508305--508387	25	3.2	25	64	29	64	44	15	9	30	1.79
508282--508389	54	2.0	54	98	0	207	45	13	9	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508288--508376	29	3.2	29	65	28	84	46	16	8	28	1.78
509717--509743	8	3.4	8	100	0	54	11	0	37	51	1.37
514339--514395	29	2.0	29	96	0	105	28	12	14	45	1.80
523517--523599	40	2.1	39	86	2	112	34	26	15	22	1.94
528269--528352	40	2.1	40	86	2	116	33	25	16	25	1.96
528349--528382	17	2.0	17	88	0	50	26	29	11	32	1.92
535891--535931	15	2.8	14	85	10	55	19	12	2	65	1.36
537731--537786	24	2.3	24	90	0	85	26	21	30	21	1.98
545038--545063	12	2.2	12	100	0	52	57	34	0	7	1.27
546307--546352	13	3.4	13	79	8	56	4	26	0	69	1.07
546302--546360	28	2.1	27	84	9	75	5	32	0	62	1.17
547324--547419	48	2.0	49	93	2	167	47	18	4	29	1.67
547685--547723	21	1.9	19	90	10	60	58	0	30	10	1.31
549396--549535	60	2.3	60	82	8	153	34	22	4	39	1.74
550162--550186	3	8.3	3	100	0	50	68	0	0	32	0.90
550561--550624	31	2.1	31	91	5	103	40	18	7	32	1.80
553416--553473	23	2.5	23	83	5	73	25	15	5	53	1.63
561369--561414	14	3.1	14	87	6	65	17	15	15	52	1.76
561677--561757	10	8.1	10	72	20	62	9	8	19	61	1.53
561668--561747	27	3.1	26	77	14	85	11	7	18	62	1.51
561687--561747	13	4.8	13	72	22	58	9	9	19	60	1.56
561674--561730	23	2.6	23	88	5	82	12	7	17	63	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561684--561757	37	2.0	36	89	7	114	10	9	18	60	1.56
564299--564339	21	2.0	21	95	0	73	26	12	14	46	1.80
575635--575998	180	2.0	180	98	1	712	32	9	14	43	1.77
579561--579858	40	7.3	40	74	13	191	49	5	18	26	1.70
579580--579805	82	2.8	82	76	13	225	50	6	19	24	1.70
579559--579867	122	2.5	123	81	7	326	49	5	18	26	1.69
579576--579867	123	2.4	123	82	6	326	48	5	18	26	1.70
580091--580127	19	1.9	19	94	0	65	32	29	16	21	1.95
580153--580340	20	9.2	20	76	10	123	27	23	21	27	1.99
580153--580226	21	3.6	19	78	8	67	25	22	21	29	1.99

Tables:   1   2   3   4   5