genome.fa.s9001.2.7.7.80.10.50.1000.3.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  3  of  24  ( 2777 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)
479647--479686	20	2.0	21	95	5	73	32	22	20	25	1.98
483486--483515	2	15.0	2	100	0	60	50	0	0	50	1.00
483815--483909	43	2.2	43	81	9	115	65	3	7	24	1.33
484937--484991	22	2.5	22	90	0	92	18	14	49	18	1.80
485708--486285	137	4.3	136	84	8	702	23	14	24	36	1.93
485961--486283	123	2.5	123	85	7	403	23	14	26	36	1.93
493530--493589	22	2.8	21	78	12	59	68	5	5	21	1.29
494605--494659	19	2.7	21	83	8	69	61	1	10	25	1.39
495292--495338	2	23.5	2	95	0	85	51	0	0	48	1.00
495393--495431	21	2.0	18	85	14	51	53	5	2	38	1.37
496763--496824	22	2.8	22	73	9	63	24	11	45	19	1.83
497066--497123	26	2.2	26	84	6	73	60	1	1	36	1.17
497081--497123	12	3.2	14	84	15	56	65	2	0	32	1.06
499461--499485	13	1.9	13	100	0	50	12	32	24	32	1.91
507371--507434	19	3.2	19	66	12	56	45	12	35	6	1.67
507353--507436	41	2.0	41	97	0	159	45	14	33	7	1.72
518537--518739	59	3.5	59	76	9	182	38	10	20	29	1.87
518730--518840	59	1.9	58	83	5	143	37	10	18	33	1.85
519430--519479	22	2.3	22	85	0	64	28	16	10	46	1.78
519803--520192	192	2.0	194	89	3	599	27	11	18	41	1.86
523190--523288	38	2.6	38	91	1	164	23	22	8	46	1.78
523809--523859	18	2.9	17	74	5	57	54	3	1	39	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524858--524918	21	2.7	23	72	12	54	22	18	26	32	1.97
527027--527060	11	2.8	13	91	8	54	52	0	11	35	1.38
533342--533402	21	2.7	23	70	12	54	19	14	27	37	1.91
535600--535644	23	2.0	23	86	0	63	66	8	4	20	1.36
535626--535701	4	18.0	4	75	10	53	68	5	2	23	1.23
536018--536187	91	1.9	90	88	1	259	34	15	21	28	1.94
551379--551414	2	18.0	2	100	0	72	50	0	0	50	1.00
551305--551450	66	2.2	64	89	5	222	47	4	2	46	1.33
552671--552751	28	2.9	28	92	0	126	33	28	20	17	1.95
556974--557082	28	3.9	28	97	0	200	33	28	21	17	1.96
564048--564143	32	3.0	32	87	0	147	30	15	17	36	1.91
568523--568580	29	2.1	29	87	6	84	22	6	8	62	1.48
568633--568686	17	3.2	17	84	7	67	16	5	11	66	1.40
572258--572353	8	11.8	8	71	16	72	80	2	16	1	0.87
572238--572366	56	2.2	56	77	20	133	75	1	19	3	1.01
572259--572353	24	3.5	26	76	13	86	80	2	16	1	0.88
572274--572358	43	2.0	44	83	2	109	80	1	18	0	0.79
572260--572358	15	6.9	15	74	11	66	79	2	17	1	0.88
572274--572358	41	2.1	40	85	12	111	80	1	18	0	0.79
572441--572465	11	2.3	11	100	0	50	84	0	8	8	0.79
573787--574247	73	6.3	73	87	4	599	29	20	13	36	1.91
573904--574029	38	3.3	39	72	10	134	31	19	12	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574633--574769	40	3.4	40	91	4	240	45	12	26	16	1.82
574833--575192	91	4.0	91	86	5	503	37	15	21	24	1.93
574939--575004	20	3.3	20	65	12	55	39	12	24	24	1.89
576491--576547	29	2.1	29	83	9	75	24	5	8	61	1.46
588705--588743	20	2.0	20	85	10	53	56	5	0	38	1.22
589216--589303	38	2.3	38	86	9	119	45	0	15	38	1.47
596219--596279	26	2.2	28	94	5	108	36	19	3	40	1.68
598482--598528	20	2.3	21	78	10	53	61	4	10	23	1.46
598804--598842	2	20.0	2	94	5	71	48	0	0	51	1.00
599183--599236	26	2.1	27	89	6	85	48	7	14	29	1.71
604114--604163	6	8.3	6	95	0	82	50	20	0	30	1.49
613548--613604	6	10.0	6	73	17	50	80	12	5	1	0.95
613548--613621	11	6.5	11	73	7	58	78	14	5	1	1.00
613550--613615	34	1.9	35	93	3	116	80	12	6	1	0.96
618107--618354	125	2.0	125	91	1	408	32	17	25	25	1.97
619543--620709	151	7.7	151	92	2	1882	36	13	14	34	1.86
619543--620700	603	1.9	603	94	1	2025	36	13	14	34	1.86
620841--621247	115	3.5	115	90	0	598	29	23	15	31	1.95
623280--623370	42	2.2	42	89	0	137	18	16	18	46	1.85
623578--623623	10	4.6	10	77	17	51	43	0	0	56	0.99
623584--623629	22	2.1	22	84	8	58	45	0	0	54	0.99
623579--623626	14	3.2	14	77	11	51	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623619--623671	23	2.3	23	87	6	72	52	1	1	43	1.23
623655--623700	22	2.0	24	84	16	62	43	0	2	54	1.12
623584--623765	22	8.4	21	66	21	56	47	0	1	51	1.12
623699--623765	26	2.5	27	83	9	75	47	0	1	50	1.10
623660--623774	28	4.0	29	73	14	89	46	0	1	51	1.11
623917--623975	22	2.6	23	81	7	59	50	0	1	47	1.11
624145--624211	15	4.5	15	79	3	73	35	17	5	40	1.75
624145--624221	30	2.6	29	91	4	127	35	18	6	40	1.76
627680--628051	55	6.8	54	88	1	399	31	20	21	26	1.98
627773--628076	164	1.9	164	82	4	389	31	19	22	25	1.98
628233--628400	45	3.7	45	95	0	291	45	7	24	23	1.78
633825--633865	17	2.4	17	100	0	82	19	29	17	34	1.94
640750--640798	4	12.2	4	82	0	62	46	32	2	18	1.60
640750--640798	16	3.1	16	90	0	71	46	32	2	18	1.60
642303--642341	18	2.0	20	85	9	55	64	0	2	33	1.08
645289--645314	13	2.0	13	100	0	52	46	15	15	23	1.83
661399--661452	22	2.5	22	78	0	63	38	22	9	29	1.85
666524--666591	3	22.0	3	83	5	64	57	1	0	41	1.08
667062--668410	113	12.0	113	96	1	2485	27	17	16	39	1.90
668202--668257	20	2.8	20	69	28	55	17	21	10	50	1.77
668810--668864	22	2.5	22	87	0	83	40	12	12	34	1.82
669236--669442	54	3.9	54	81	6	219	26	21	14	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669236--669442	104	2.0	104	84	7	274	26	21	14	37	1.92
671557--671897	114	3.0	114	95	0	592	31	20	15	32	1.94
674149--674181	17	1.9	17	88	11	50	0	18	0	81	0.68
674487--674517	2	15.5	2	100	0	62	51	0	0	48	1.00
677471--677524	14	3.8	14	85	2	63	51	9	14	24	1.71
679978--680010	15	2.3	15	89	5	50	57	0	0	42	0.98
680073--680118	21	2.2	20	85	11	58	71	2	4	21	1.14
681349--681416	3	22.0	3	85	5	82	60	0	0	39	0.97
685831--685967	73	1.9	74	89	4	215	20	18	34	27	1.96
687181--687339	65	2.4	65	81	9	171	39	8	13	38	1.74
687247--687433	94	2.0	92	84	6	243	37	7	15	39	1.76
687193--687535	159	2.2	153	87	6	480	37	7	16	38	1.77
687464--687612	80	1.9	77	84	4	199	38	9	17	34	1.82
687406--687722	91	3.8	78	73	19	214	36	9	15	38	1.80
687527--687731	91	2.3	89	92	3	331	35	10	14	39	1.80
689731--689824	40	2.3	40	81	0	107	42	8	19	29	1.80
689730--689824	20	4.8	19	82	8	82	42	8	20	29	1.81
689999--690072	37	2.0	37	84	2	96	47	5	0	47	1.25
690344--690387	21	2.1	21	86	0	61	40	4	0	54	1.21
693805--693883	31	2.5	31	87	0	104	44	13	17	24	1.85
694769--694801	14	2.4	14	100	0	66	24	6	12	57	1.57
696056--696123	31	2.2	31	83	0	82	27	20	11	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
696070--696129	31	1.9	31	89	0	93	25	20	15	40	1.90
698241--698611	138	2.7	136	93	2	609	46	7	8	36	1.63
698722--698778	23	2.7	23	82	17	63	66	1	0	31	1.02
700232--700292	3	19.7	3	80	6	50	60	0	0	39	0.97
700225--700274	26	1.9	26	95	0	91	48	0	0	52	1.00
705666--705703	16	2.3	16	86	13	51	36	0	0	63	0.95
705658--705708	26	2.0	26	84	7	68	37	0	0	62	0.95
706636--706670	3	11.7	3	100	0	70	31	0	0	68	0.90
710742--710767	2	13.0	2	100	0	52	50	0	0	50	1.00
723066--723103	19	2.0	20	89	5	60	44	0	5	50	1.24

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