genome.fa.s8193.2.7.7.80.10.50.1000.3.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: VEPZ01008193.1 Hibiscus syriacus cultivar Beakdansim tig00110812_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1025831

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 565 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)
366008--366070	28	2.1	31	85	8	87	41	4	3	50	1.39
371039--371066	2	14.0	2	100	0	56	50	0	0	50	1.00
372656--372796	70	2.0	71	91	6	234	36	14	12	36	1.84
377529--377644	60	2.0	61	94	5	211	37	11	14	36	1.82
378837--378868	2	16.0	2	100	0	64	50	0	0	50	1.00
378987--379063	39	2.0	39	97	2	147	58	7	2	31	1.40
386081--386131	18	2.8	18	85	5	59	25	7	1	64	1.31
385094--386327	626	2.0	624	92	0	2083	31	17	18	32	1.94
388547--388581	17	2.1	17	94	0	61	54	17	0	28	1.43
400179--401362	617	1.9	613	92	2	1973	31	17	17	33	1.93
401147--401183	18	2.1	17	90	5	56	29	5	2	62	1.31
403572--403606	17	2.1	17	94	0	61	54	17	0	28	1.43
407888--408311	215	2.0	209	95	3	760	23	21	19	35	1.96
414594--414621	3	9.3	3	100	0	56	32	0	0	67	0.91
416273--416309	18	2.1	17	90	5	56	29	5	2	62	1.31
415272--416506	626	2.0	624	91	1	2012	31	17	18	32	1.94
418722--418766	8	5.5	8	84	5	54	66	13	0	20	1.24
418736--418771	17	2.1	17	94	0	63	52	19	0	27	1.46
428531--428660	66	2.0	66	100	0	260	34	12	4	48	1.61
430283--430321	15	2.6	15	87	0	51	5	10	69	15	1.34
431022--431059	11	3.2	12	81	11	51	13	0	23	63	1.30
431224--431267	20	2.2	20	88	11	65	40	9	9	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441156--441405	128	2.0	127	84	4	333	38	5	7	48	1.55
447864--448067	110	1.9	110	88	0	309	35	23	19	22	1.96
447864--448102	110	2.2	110	83	3	306	34	24	17	23	1.96
448471--448645	67	2.7	65	85	5	246	30	22	12	34	1.91
448471--448645	63	2.7	64	84	5	244	30	22	12	34	1.91
448681--448852	84	2.0	84	85	0	227	31	27	18	22	1.97
459693--459799	52	2.0	53	94	5	191	36	18	11	33	1.87
465564--465633	30	2.3	30	77	18	74	57	5	12	24	1.57
466371--466453	3	27.3	3	85	2	112	60	0	4	34	1.18
466952--467067	43	2.7	43	90	0	169	24	20	26	28	1.99
467183--467274	43	2.1	43	87	0	130	20	16	32	30	1.95
467479--467582	43	2.4	43	83	3	138	21	17	32	28	1.96
467784--467958	61	2.8	64	81	6	230	31	11	20	37	1.88
469481--469513	14	2.4	14	90	5	50	0	15	3	81	0.80
470714--470914	65	3.1	64	76	10	187	31	22	18	26	1.97
479383--479525	65	2.2	64	85	6	191	32	23	18	25	1.97
485409--485472	22	2.9	22	81	9	76	20	34	25	20	1.96
485454--485493	21	1.9	21	89	0	62	25	40	25	10	1.86
488487--488632	46	3.2	46	65	19	131	19	15	19	46	1.84
488464--488652	93	2.0	94	96	3	355	19	14	17	47	1.82
491906--492001	30	3.3	30	72	18	78	58	9	10	21	1.59
492698--492764	3	23.3	3	82	8	86	62	0	4	32	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494531--494624	46	2.0	46	91	0	152	50	10	12	26	1.73
504464--504492	11	2.5	12	94	5	51	75	0	0	24	0.80
504464--504496	13	2.7	13	90	9	52	72	0	0	27	0.85
505885--505946	31	2.0	31	100	0	124	38	6	29	25	1.81
506627--506700	29	2.6	29	83	14	100	54	2	6	36	1.41
506680--506733	27	2.0	28	88	3	83	48	5	9	37	1.59
506651--506733	29	3.0	27	82	5	85	49	4	8	37	1.55
510147--510203	2	28.5	2	100	0	114	49	0	0	50	1.00
510911--510939	14	2.1	14	93	6	51	34	10	0	55	1.34
511275--511335	23	2.7	23	94	0	113	27	27	27	16	1.97
512881--512921	21	2.0	21	95	0	73	34	19	19	26	1.96
518165--518227	30	2.1	30	90	0	99	33	12	12	41	1.81
519111--519137	3	9.0	3	100	0	54	66	0	33	0	0.92
527031--527104	3	24.7	3	91	0	121	35	2	0	62	1.10
527034--527115	12	6.7	12	84	8	103	37	2	0	59	1.11
528479--528524	14	3.3	14	78	9	58	19	0	4	76	0.96
528537--528579	22	2.0	21	86	4	59	37	2	2	58	1.24
529212--529255	23	1.9	23	85	0	61	29	6	0	63	1.20
530915--530968	14	3.8	14	81	11	56	25	14	9	50	1.73
530930--530968	15	2.7	15	88	4	53	20	15	12	51	1.76
534231--534281	6	8.3	6	85	10	68	80	0	19	0	0.71
535240--535280	16	2.5	17	84	7	50	85	4	7	2	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536448--536703	83	3.1	83	96	0	458	28	14	20	36	1.92
538868--538946	40	2.0	40	94	0	140	34	15	21	29	1.94
539286--539353	33	2.1	33	100	0	136	25	32	14	27	1.95
539369--539423	22	2.5	22	82	5	67	32	12	16	38	1.86
539860--540268	112	3.6	113	94	1	653	39	12	19	29	1.88
540377--540925	113	4.8	113	91	1	803	37	13	19	28	1.90
541242--541318	3	25.7	3	91	0	127	35	2	0	62	1.09
541245--541329	12	6.7	12	82	10	98	37	2	0	60	1.10
542692--542738	14	3.3	14	77	11	51	21	0	4	74	0.99
542751--542793	22	2.0	21	86	4	59	37	2	2	58	1.24
543834--544271	227	1.9	225	93	3	747	45	7	7	39	1.61
544336--544379	19	2.3	18	85	11	61	54	9	18	18	1.69
546744--546784	21	1.9	22	90	5	66	41	14	24	19	1.89
546822--546884	31	2.0	32	84	3	83	30	1	44	23	1.63
548649--548688	19	2.1	19	95	0	71	35	2	10	52	1.48
548812--550553	201	8.9	198	92	4	2920	37	15	15	31	1.89
548812--550553	389	4.4	392	93	5	2904	37	15	15	31	1.89
548812--550553	198	8.9	196	92	5	2858	37	15	15	31	1.89
550201--550242	21	2.0	21	86	9	59	45	16	14	23	1.84
551983--552050	21	3.4	18	69	21	55	36	8	35	19	1.83
551983--552077	6	15.3	6	76	6	64	37	6	34	21	1.79
551998--552070	3	24.7	3	76	2	67	35	5	35	23	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553525--553864	183	1.9	183	90	1	547	36	14	16	32	1.89
556298--556361	23	2.8	23	87	0	92	35	6	20	37	1.78
556298--556370	23	3.2	23	82	7	85	34	5	20	39	1.76
556514--556579	30	2.2	30	82	12	75	53	4	0	42	1.21
556721--556781	21	2.8	23	80	14	74	34	6	21	37	1.79
556726--556782	22	2.7	20	81	8	60	33	7	21	38	1.80
556721--556795	21	3.5	20	80	14	71	33	5	21	40	1.76
557146--557208	22	2.8	23	87	4	92	36	6	20	36	1.78
557170--557222	22	2.5	20	77	19	54	35	1	20	41	1.64
557507--557552	22	2.1	22	84	8	58	41	10	8	39	1.71
556200--558720	425	5.9	428	95	2	4469	39	8	12	39	1.73
557570--557633	23	2.8	23	87	0	92	35	6	20	37	1.78
557570--557642	23	3.2	23	82	7	85	34	5	20	39	1.76
557998--558055	22	2.6	22	81	10	57	44	6	12	36	1.68
558070--558108	20	2.0	20	89	0	60	25	15	10	48	1.76
558420--558482	22	2.8	23	85	4	83	34	6	20	38	1.78
558420--558496	23	3.5	22	79	13	77	33	5	20	40	1.75
558755--558805	25	2.0	25	92	0	84	33	7	19	39	1.81
559010--559038	11	2.6	11	100	0	58	34	20	0	44	1.52
559033--559087	24	2.3	25	81	9	69	32	5	14	47	1.67
559052--559088	18	2.1	18	89	0	56	32	5	10	51	1.60
559347--559433	39	2.2	39	93	0	147	48	19	13	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559755--559818	23	2.8	23	87	0	92	35	6	20	37	1.78
559755--559827	23	3.2	23	82	7	85	34	5	20	39	1.76
560534--560561	2	14.0	2	100	0	56	50	0	50	0	1.00
560710--560739	5	5.8	5	96	4	51	0	20	0	80	0.72
585173--585228	28	1.9	29	85	7	78	64	1	0	33	1.04
585190--585250	16	3.9	15	73	12	52	62	3	0	34	1.12
586613--586668	29	1.9	29	89	7	87	12	35	28	23	1.91
586672--586746	33	2.3	33	88	9	109	8	38	25	28	1.84
586757--586809	10	5.4	10	79	20	67	9	30	37	22	1.86
586738--586821	14	6.2	14	73	22	65	8	29	36	25	1.85

Tables:   1   2   3   4   5