genome.fa.s8092.2.7.7.80.10.50.1000.3.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: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2324158

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1399 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)
315179--315375	98	2.0	98	98	0	385	28	23	24	23	1.99
324453--324568	53	2.2	51	90	6	180	28	5	13	52	1.62
324522--324561	20	2.0	20	90	0	62	37	2	12	47	1.55
329138--329177	20	2.0	20	95	0	71	37	5	17	40	1.72
338916--339447	176	3.0	176	100	0	1064	40	17	12	29	1.86
341557--341623	32	2.1	32	85	2	89	14	11	29	43	1.82
341572--341633	32	1.9	32	90	0	97	19	9	24	46	1.79
342162--342210	17	2.9	17	96	0	89	32	26	0	40	1.56
342169--342227	17	3.4	17	90	2	73	32	30	1	35	1.68
343477--343515	18	2.2	17	86	4	51	76	5	2	15	1.06
343664--343739	28	2.7	29	83	8	93	71	7	3	17	1.26
344903--344973	19	4.2	17	72	25	53	56	1	2	39	1.23
344931--344973	20	2.4	17	81	14	50	55	0	2	41	1.12
346936--346968	6	5.7	6	92	3	50	0	3	9	87	0.63
352853--352897	21	2.1	21	87	0	63	31	28	24	15	1.96
354229--354325	32	3.1	32	77	14	119	29	17	17	35	1.93
354228--354328	31	3.2	31	79	10	116	29	18	17	33	1.95
354316--354389	30	2.4	30	95	2	130	22	21	24	31	1.99
354324--354412	30	3.0	30	90	1	108	21	20	26	31	1.98
357107--357151	21	2.1	21	87	0	63	31	28	24	15	1.96
358481--358577	32	3.1	32	77	14	119	29	17	17	35	1.93
358480--358580	31	3.2	31	79	10	116	29	18	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358568--358661	30	3.1	30	89	3	127	20	20	27	31	1.97
364569--364626	27	2.1	28	84	9	75	48	15	15	20	1.81
364655--364679	13	1.9	13	100	0	50	20	16	16	48	1.82
367032--367073	21	2.0	21	95	0	75	30	14	7	47	1.71
367068--367166	33	3.0	32	91	4	153	33	7	14	45	1.71
367152--367206	13	4.2	13	75	13	58	34	3	12	49	1.59
367882--367937	15	3.6	15	79	9	67	32	12	12	42	1.80
367901--367934	18	1.9	18	94	5	61	38	11	11	38	1.79
377100--377394	146	2.0	147	98	1	574	29	23	17	29	1.97
381561--381590	2	15.0	2	100	0	60	50	0	0	50	1.00
388403--388435	15	2.1	16	88	5	50	9	24	15	51	1.72
389185--389219	16	2.1	17	94	5	63	34	25	8	31	1.86
390487--390557	35	2.0	35	88	0	106	28	9	11	50	1.70
396838--396908	36	2.0	36	97	0	133	52	9	9	28	1.66
400770--400811	21	2.0	21	85	4	57	28	33	19	19	1.96
400780--400820	19	2.0	20	86	9	57	29	31	17	21	1.96
401570--401740	31	5.5	31	68	10	114	33	15	16	34	1.91
401604--401721	32	3.8	32	72	13	111	33	16	16	33	1.92
401552--401730	63	2.9	62	83	7	227	32	17	16	32	1.93
402942--403006	24	2.9	23	75	8	64	29	18	27	24	1.98
403662--403726	31	2.1	31	82	5	78	23	20	21	35	1.96
403712--403775	30	2.2	29	85	2	83	18	18	26	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403723--403783	29	2.1	30	93	3	106	16	16	29	37	1.91
411608--411647	20	2.0	20	85	9	55	20	32	25	22	1.98
411610--411669	23	2.7	23	80	7	72	20	35	25	20	1.96
411651--411690	21	1.9	21	89	0	62	25	40	25	10	1.86
411848--411888	20	2.0	20	85	0	55	43	24	4	26	1.74
416888--416963	29	2.6	29	79	10	82	25	15	22	36	1.93
418607--418641	2	17.5	2	100	0	70	51	0	0	48	1.00
418807--418894	24	3.7	24	71	6	70	48	17	11	22	1.78
420956--420999	23	1.9	23	85	0	61	11	15	50	22	1.76
420968--421015	18	2.7	18	93	0	78	10	14	54	20	1.70
424417--424454	20	1.9	20	88	0	58	21	26	10	42	1.85
424677--424722	23	2.0	23	100	0	92	39	17	0	43	1.49
426518--426559	21	2.0	21	85	0	57	38	0	11	50	1.40
435067--435093	3	9.0	3	100	0	54	0	33	0	66	0.92
438006--438061	19	2.9	19	81	7	60	39	8	28	23	1.85
438831--438879	20	2.5	19	83	6	62	44	6	2	46	1.39
438837--438874	20	1.9	20	94	0	67	42	7	0	50	1.31
440612--440644	11	2.9	12	86	13	52	45	0	0	54	0.99
458065--458140	39	1.9	40	86	7	111	30	14	13	42	1.84
458482--458514	7	4.7	7	100	0	66	0	57	12	30	1.35
461939--461964	7	3.7	7	100	0	52	46	23	0	30	1.53
466051--466085	19	1.9	17	88	11	52	57	5	31	5	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468026--468051	6	4.3	6	100	0	52	34	34	15	15	1.89
471131--471188	19	3.1	19	74	0	62	29	0	1	68	0.99
475525--475599	38	2.0	37	82	5	89	49	1	2	46	1.24
479459--479515	18	3.1	18	84	5	69	78	14	1	5	0.99
483152--483215	22	2.9	22	76	6	58	51	0	4	43	1.22
485184--485229	2	23.5	2	95	4	85	50	0	0	50	1.00
485704--485749	23	2.0	23	91	0	74	50	15	19	15	1.79
495940--495982	20	2.2	20	86	0	59	32	9	20	37	1.85
498080--498126	21	2.2	21	85	7	69	21	23	19	36	1.95
498079--498156	21	3.7	21	74	6	59	26	20	20	32	1.97
498151--498208	21	2.8	21	94	0	98	22	27	18	31	1.97
498889--498941	21	2.5	21	93	0	97	28	22	26	22	1.99
498931--498987	21	2.7	21	80	0	69	29	19	21	29	1.97
511782--511837	28	2.0	28	92	0	94	30	19	30	19	1.97
514671--514707	18	2.1	18	94	0	65	24	27	8	40	1.83
519448--519474	2	13.5	2	100	0	54	51	0	0	48	1.00
519690--519804	24	4.8	24	88	4	160	40	20	14	24	1.90
519721--519821	48	2.1	48	83	7	125	42	19	14	22	1.88
523443--523782	168	2.0	171	97	2	641	37	12	16	34	1.85
524975--525084	46	2.4	46	83	14	138	50	10	0	39	1.42
525780--525853	23	3.2	23	82	1	94	63	21	6	8	1.45
525778--525825	10	4.4	10	76	19	51	62	20	8	8	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526109--526146	14	2.7	14	100	0	76	57	15	13	13	1.65
527047--527088	21	2.0	21	90	0	66	45	2	2	50	1.27
529992--530044	21	2.5	21	81	6	72	20	26	18	33	1.96
530034--530085	21	2.5	21	87	3	70	38	17	23	21	1.93
530074--530168	20	4.7	20	78	7	84	33	24	18	23	1.97
530355--530417	22	2.9	22	95	0	108	22	44	14	19	1.86
530685--530743	20	3.0	20	84	0	64	18	18	22	40	1.91
532063--532110	18	2.7	18	90	0	78	27	43	12	16	1.84
532652--532697	20	2.3	20	88	0	65	36	26	21	15	1.93
532709--532791	33	2.5	33	94	0	139	10	15	21	51	1.74
532728--532846	19	6.4	19	79	12	113	13	20	22	43	1.86
532761--532866	20	5.4	19	87	3	113	16	19	24	39	1.91
533213--533303	41	2.2	42	86	2	130	21	40	15	21	1.90
534712--534750	14	2.8	14	84	0	51	35	0	17	46	1.49
534890--534940	19	2.7	19	100	0	102	45	17	21	15	1.86
534937--535015	20	4.0	20	94	0	131	13	21	29	35	1.92
534936--535031	40	2.6	36	80	11	97	13	22	28	35	1.92
536806--536949	72	2.0	72	100	0	288	30	27	11	30	1.91
537354--537378	12	2.1	12	100	0	50	0	28	0	72	0.86
537551--537604	24	2.2	24	87	6	74	40	20	14	24	1.90
538360--538438	20	4.0	20	94	0	131	27	20	27	24	1.99
538346--538480	20	6.7	20	83	7	130	23	18	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538371--538501	41	3.2	41	81	3	122	23	19	25	30	1.98
538469--538520	20	2.5	21	87	3	70	21	23	17	38	1.93
538510--538562	21	2.5	22	81	6	74	33	18	26	20	1.96
539489--539643	60	2.6	59	79	8	179	19	20	34	25	1.96
543271--543337	21	3.0	22	76	14	75	71	5	0	22	1.07
543363--543486	48	2.7	44	78	9	158	66	8	4	20	1.35
543380--543483	48	2.2	49	91	3	167	67	8	3	20	1.34
544263--544291	11	2.6	11	100	0	58	48	10	24	17	1.78
550985--551032	18	2.6	19	83	6	55	45	22	29	2	1.64
551000--551035	18	1.9	19	94	5	65	44	25	30	0	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12