genome.fa.s9017.2.7.7.80.10.50.1000.2.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: VEPZ01009017.1 Hibiscus syriacus cultivar Beakdansim tig00112407_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1192163

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 626 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)
305363--305449	17	5.2	17	78	16	92	81	0	16	2	0.79
305363--305449	9	10.4	8	79	10	86	81	0	16	2	0.79
306114--306336	114	2.0	114	91	0	365	33	15	21	30	1.94
307194--307255	20	3.0	20	65	11	54	54	8	17	19	1.67
307085--307721	112	5.7	113	92	0	1003	40	15	18	25	1.90
307085--307721	225	2.8	224	92	1	1051	40	15	18	25	1.90
307545--307590	24	2.0	23	83	12	58	50	10	26	13	1.74
307085--307721	337	1.9	338	91	0	1035	40	15	18	25	1.90
307689--307873	84	2.2	83	86	2	255	38	17	16	27	1.91
308130--308219	9	9.8	9	72	24	57	31	1	0	67	0.98
308130--308219	18	4.8	18	78	13	78	31	1	0	67	0.98
308112--308218	21	5.1	21	73	17	80	28	0	1	69	1.05
311279--311317	21	1.9	21	89	5	62	17	25	23	33	1.96
311280--311378	10	10.3	9	77	12	81	17	26	26	30	1.97
311279--311372	19	4.8	19	82	8	100	18	24	26	30	1.97
311279--311353	29	2.5	31	80	10	102	16	24	28	32	1.96
318567--318602	19	1.9	20	100	0	58	13	25	33	27	1.94
318567--318614	9	5.2	9	80	5	51	14	31	31	22	1.94
318554--318611	28	2.0	29	83	3	73	17	25	29	27	1.97
318572--318628	18	3.1	18	82	2	51	17	36	28	17	1.93
318612--318656	22	2.0	22	95	0	81	17	48	22	11	1.78
328609--329038	191	2.3	189	83	3	551	32	18	16	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
332625--332683	21	2.8	21	81	0	82	10	28	40	20	1.85
334877--334915	20	2.0	20	85	10	53	28	0	43	28	1.55
339638--339693	3	19.0	3	85	10	80	62	0	0	37	0.95
339952--340674	113	6.3	112	84	6	459	27	19	14	38	1.90
340035--340672	113	5.7	112	87	3	843	27	19	13	38	1.90
341638--342108	83	5.7	83	95	0	852	38	21	12	27	1.90
341545--342108	166	3.3	166	92	2	912	37	21	12	27	1.90
341545--342108	249	2.2	253	93	3	947	37	21	12	27	1.90
347032--347068	18	2.0	19	89	5	58	62	0	13	24	1.31
350819--350850	15	2.1	15	94	0	55	46	9	18	25	1.79
356297--356350	3	18.0	3	100	0	108	66	0	0	33	0.92
358245--358330	34	2.8	29	71	26	70	43	5	6	44	1.55
360437--360579	27	5.3	25	71	25	80	4	18	0	76	0.97
360481--360563	21	3.7	23	82	9	82	6	16	0	77	0.97
360438--360533	33	2.9	31	77	13	104	5	19	0	75	1.00
360484--360586	11	9.7	10	72	19	59	4	16	0	78	0.91
360494--360576	44	1.9	43	83	11	107	6	15	0	78	0.94
360437--360586	16	8.9	16	69	21	85	4	19	0	76	0.97
364254--364357	37	2.8	37	85	0	127	41	13	13	31	1.83
365037--365081	11	4.1	11	83	8	56	22	4	6	66	1.33
365082--365130	2	24.5	2	100	0	98	48	0	0	51	1.00
365228--365261	10	3.3	11	88	12	54	20	5	0	73	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365226--365255	11	2.9	10	90	9	51	20	6	0	73	1.05
365321--365351	2	15.5	2	100	0	62	48	0	0	51	1.00
365506--365550	2	22.5	2	100	0	90	48	0	0	51	1.00
367078--367731	106	6.2	106	85	3	840	34	23	18	23	1.96
368463--368566	37	2.8	37	88	0	145	41	13	14	30	1.84
369119--369225	24	4.9	23	74	19	95	28	4	0	66	1.18
369115--369224	30	3.6	29	71	18	89	28	4	0	66	1.17
369122--369226	15	6.8	15	71	17	65	27	4	0	66	1.18
369825--369896	13	5.7	12	76	11	56	15	4	4	76	1.09
374502--374567	25	2.7	26	81	9	84	83	4	9	3	0.89
374509--374567	24	2.4	25	83	8	77	83	3	10	3	0.89
375170--375246	22	3.5	22	90	0	127	36	28	14	20	1.92
376037--377549	106	14.3	106	87	2	1976	34	23	17	23	1.96
378165--378267	37	2.8	37	87	0	143	41	13	14	30	1.84
378880--378921	13	3.5	13	81	12	54	33	0	4	61	1.17
378940--378979	12	3.4	12	86	3	55	25	2	5	67	1.23
378981--379005	2	12.5	2	100	0	50	48	0	0	52	1.00
379078--379156	32	2.6	29	79	16	79	30	5	0	64	1.15
379080--379157	20	3.7	22	70	13	56	29	5	0	65	1.14
379183--379217	2	17.5	2	100	0	70	48	0	0	51	1.00
379516--379586	12	5.8	12	75	9	63	14	2	4	78	1.01
379509--379588	22	3.6	21	76	17	74	15	2	5	77	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383756--383800	24	1.9	23	86	4	63	13	8	35	42	1.75
384384--384423	21	1.9	21	100	0	80	45	7	25	22	1.78
384402--384445	15	3.1	15	77	9	56	43	6	18	31	1.76
384570--384652	22	3.6	22	70	26	66	49	3	0	46	1.19
384595--384681	21	4.0	23	71	23	73	44	2	0	52	1.13
384809--384905	27	3.3	32	74	21	88	52	1	1	45	1.14
384877--384926	23	2.2	22	92	3	82	44	0	4	52	1.20
384912--384969	31	1.9	31	86	10	84	53	0	0	46	1.00
384919--384962	22	2.0	23	86	4	63	54	0	0	45	0.99
384873--384974	52	2.0	53	81	12	126	50	0	1	47	1.12
385148--385263	42	2.8	42	93	2	189	46	19	16	17	1.84
386442--386478	20	1.9	19	89	10	58	45	10	24	18	1.81
386628--386660	15	2.2	15	94	0	57	54	0	0	45	0.99
388794--388828	17	2.1	17	89	10	54	25	17	8	48	1.75
394307--394356	26	1.9	26	88	8	75	54	14	2	30	1.51
394459--394523	3	22.3	3	84	6	89	32	3	0	64	1.09
394460--394519	26	2.3	26	85	0	84	33	3	0	63	1.11
395949--396048	30	3.3	30	84	0	128	14	16	10	60	1.59
396772--396809	16	2.3	17	81	4	51	26	5	7	60	1.46
398009--398039	16	1.9	16	93	0	53	51	9	12	25	1.70
403014--403038	13	1.9	13	100	0	50	40	0	16	44	1.47
403191--403224	12	2.7	13	90	9	61	47	8	5	38	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405009--405090	28	2.9	28	85	3	92	17	13	7	62	1.53
406132--406173	21	2.0	21	85	0	57	71	2	2	23	1.10
406527--406654	37	3.6	34	76	13	107	53	1	0	44	1.09
406567--406696	42	3.1	42	74	12	108	53	3	0	41	1.24
406599--406654	17	3.2	17	74	16	60	53	1	0	44	1.11
406599--406686	40	2.3	37	82	7	97	55	4	1	38	1.28
406682--406723	21	1.9	23	85	9	61	40	2	7	50	1.43
417235--417304	16	4.5	15	70	13	52	31	4	4	60	1.36
424931--425114	43	4.3	43	80	4	140	27	16	24	31	1.96
424961--425157	85	2.3	86	83	5	247	25	17	24	31	1.97
424953--425163	43	4.9	43	78	5	203	26	17	23	32	1.97
425166--425313	44	3.4	44	86	5	194	33	18	20	26	1.96
434811--434864	22	2.5	22	84	6	65	29	20	5	44	1.74
444192--444240	21	2.4	21	75	3	55	46	20	0	32	1.51
444652--444695	21	2.0	21	82	4	52	56	13	0	29	1.38
448634--448719	44	2.0	44	88	0	127	32	17	12	37	1.88
448648--448736	44	2.0	44	86	0	124	32	17	13	35	1.89
453788--453841	24	2.2	24	100	0	108	18	14	14	51	1.76
456711--456756	18	2.6	18	78	0	56	54	39	2	4	1.32
458463--458499	13	2.8	13	91	0	65	29	21	16	32	1.95
468140--468181	17	2.5	17	85	11	52	30	19	16	33	1.94
479618--481024	6	239.7	6	95	4	2563	66	0	0	33	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481964--482784	136	6.1	135	82	3	930	36	17	18	27	1.93
481969--482730	408	1.9	406	86	3	1084	36	16	19	27	1.93
484460--484500	6	6.8	6	100	0	82	17	0	0	82	0.66
489022--489061	21	2.0	21	85	5	55	50	2	20	27	1.61
489079--489531	136	3.4	136	83	3	558	30	21	15	32	1.94
489500--489593	44	2.1	44	96	0	170	28	21	22	27	1.99
490222--490251	14	2.1	15	93	6	53	66	13	20	0	1.24
491986--492039	21	2.4	22	78	12	65	35	5	5	53	1.48
493118--493159	2	21.0	2	100	0	84	50	0	0	50	1.00
505791--506461	224	3.0	224	93	1	1168	32	15	17	33	1.92

Tables:   1   2   3   4   5   6