genome.fa.s7936.2.7.7.80.10.50.1000.3.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: VEPZ01007936.1 Hibiscus syriacus cultivar Beakdansim tig00110346_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2869312

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

This is table  3  of  11  ( 1292 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)
518059--518122	18	3.3	19	79	16	60	65	0	25	9	1.22
518087--518128	9	4.9	9	88	8	61	69	0	21	9	1.17
518087--518128	17	2.4	18	88	7	61	69	0	21	9	1.17
522000--522072	33	2.2	34	80	7	87	46	1	1	50	1.18
527041--527083	20	2.2	20	86	0	59	32	23	13	30	1.93
527153--527202	24	2.1	24	100	0	100	24	32	12	32	1.91
538743--538791	23	2.1	23	85	7	64	57	12	2	28	1.46
542066--542126	26	2.3	26	100	0	122	62	0	24	13	1.31
542410--542459	5	10.0	5	97	0	64	80	0	12	8	0.92
542410--542458	15	3.3	15	91	0	71	81	0	10	8	0.87
546625--546666	21	2.0	21	90	0	66	26	19	23	30	1.98
548869--548917	23	2.1	23	81	7	55	57	14	4	24	1.55
553505--554011	272	1.9	273	88	2	770	31	13	17	37	1.88
559239--559280	21	2.0	21	100	0	84	14	28	23	33	1.94
561077--561163	35	2.5	34	80	12	97	55	10	8	26	1.61
561325--561349	3	8.3	3	100	0	50	0	36	32	32	1.58
561687--561721	18	1.9	18	100	0	70	22	17	28	31	1.96
563402--563442	18	2.3	18	91	4	66	63	2	4	29	1.28
567349--567376	2	14.0	2	100	0	56	50	0	0	50	1.00
568410--568788	190	2.0	189	98	0	740	21	24	21	32	1.98
568867--568905	2	20.0	2	94	5	71	48	0	0	51	1.00
568931--569108	37	4.8	36	87	8	250	44	2	5	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569070--569184	27	4.4	25	65	18	72	43	2	4	49	1.36
569083--569137	27	2.0	27	85	7	74	40	5	5	49	1.49
569141--569173	2	16.5	2	100	0	66	51	0	0	48	1.00
568926--569159	37	6.5	37	78	14	109	44	3	4	47	1.40
569155--569253	37	2.6	37	79	7	110	45	1	5	48	1.31
569261--569318	5	11.8	5	87	9	84	20	0	1	77	0.86
570470--570527	2	29.5	2	92	3	100	46	0	0	53	1.00
570589--570620	2	16.0	2	100	0	64	50	0	0	50	1.00
570627--570687	12	4.8	12	74	21	52	14	1	3	80	0.92
570623--570737	13	8.6	13	75	14	83	15	6	1	75	1.09
570623--570676	27	2.1	27	86	13	78	16	0	1	81	0.78
570623--570738	14	8.7	13	71	18	62	15	6	1	75	1.09
573371--573589	100	2.2	99	89	3	323	36	16	14	32	1.89
573371--573642	100	2.7	99	85	5	316	34	17	15	32	1.91
574731--575673	84	11.3	83	80	4	923	31	24	18	25	1.98
574727--575670	332	2.8	331	85	1	1246	31	24	18	25	1.98
574731--575672	416	2.3	413	81	3	1086	31	24	18	25	1.98
576363--576685	37	8.8	37	81	15	352	43	2	5	47	1.42
576515--576598	28	3.0	29	78	15	88	45	2	4	47	1.36
576557--576686	38	3.5	37	82	10	142	45	3	5	46	1.41
576683--576747	30	2.1	30	82	8	76	30	3	0	66	1.07
576727--576756	14	2.1	14	93	0	51	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578065--578196	22	5.9	21	74	17	99	18	3	0	76	0.98
578133--578196	7	8.4	7	78	14	65	17	3	0	79	0.85
578087--578197	8	13.5	8	71	19	77	17	4	0	77	0.98
578087--578197	15	6.8	15	76	19	91	17	4	0	77	0.98
578087--578197	23	4.5	23	69	23	75	17	4	0	77	0.98
578240--578269	11	2.7	11	94	0	51	30	0	0	70	0.88
582036--582081	17	2.6	17	82	3	56	34	4	0	60	1.16
584492--584534	14	3.1	14	80	9	52	11	4	16	67	1.38
584971--585058	10	8.5	10	77	7	95	12	9	17	61	1.56
584971--585047	23	3.0	24	76	23	93	11	9	16	62	1.53
584990--585058	30	2.3	30	92	2	113	11	10	17	60	1.57
588595--588661	21	3.2	21	84	0	89	37	8	23	29	1.86
589561--589753	97	2.0	96	90	1	305	41	13	22	21	1.88
592841--592913	31	2.4	31	83	0	92	27	28	12	31	1.93
597466--597698	30	7.8	30	81	4	231	60	10	12	16	1.59
599139--599163	12	2.1	12	100	0	50	40	0	0	60	0.97
599121--599146	3	8.7	3	100	0	52	65	0	0	34	0.93
599352--599833	131	3.6	131	88	2	626	24	17	31	25	1.97
599874--600042	66	2.6	65	81	1	194	38	14	20	26	1.91
600013--600079	35	1.9	35	81	0	80	37	11	11	38	1.79
601277--601335	15	3.9	15	82	6	75	0	15	5	79	0.89
601268--601335	22	3.0	22	83	14	84	0	14	5	79	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601298--601337	20	2.0	20	85	9	55	0	15	7	77	0.98
603164--603225	30	2.1	30	87	6	90	61	9	14	14	1.57
605075--605246	30	5.7	30	93	1	281	58	9	14	17	1.63
605688--605719	16	2.0	16	93	0	55	15	31	0	53	1.43
606086--606152	28	2.4	29	76	14	70	52	1	5	40	1.35
606130--606163	2	17.0	2	100	0	68	50	0	0	50	1.00
606259--606383	63	2.0	63	96	0	232	40	7	15	36	1.74
608013--608068	3	18.7	3	78	7	60	60	0	1	37	1.07
609883--610208	134	2.4	134	86	2	440	30	16	20	31	1.95
610645--611057	233	1.8	224	80	8	501	34	15	15	34	1.89
610968--611064	42	2.3	41	78	5	106	36	21	19	22	1.95
613183--613222	21	1.9	21	84	0	53	15	10	2	72	1.21
613208--613258	27	2.0	27	88	7	79	5	15	0	78	0.93
613191--613314	21	5.7	21	75	17	94	4	16	0	78	0.92
613212--613263	13	3.9	14	79	18	58	5	13	0	80	0.88
613225--613316	34	2.7	35	80	12	104	1	18	0	80	0.77
614762--614808	19	2.5	19	80	13	60	57	0	19	23	1.41
619257--619722	45	10.4	45	90	1	675	24	22	12	40	1.88
619259--619722	224	2.1	224	90	2	736	25	22	12	40	1.88
619714--619821	46	2.4	45	86	6	146	24	19	8	48	1.76
620202--620363	57	2.9	57	80	1	166	38	16	8	37	1.78
620238--620363	56	2.2	57	85	1	164	39	18	8	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621989--622065	2	38.5	2	100	0	154	49	0	0	50	1.00
623829--623926	45	2.2	45	83	3	126	24	22	12	40	1.88
623921--624027	46	2.4	45	82	6	126	23	18	6	51	1.69
624062--624263	67	3.0	67	91	2	307	28	25	16	29	1.97
624419--624462	23	1.9	23	86	9	63	27	13	6	52	1.66
624443--624590	56	2.6	55	80	7	156	35	18	9	36	1.84
627597--627680	3	27.7	3	92	2	141	65	0	0	34	0.93
629275--629457	59	3.1	60	77	5	201	32	24	6	37	1.80
629275--629457	60	3.1	58	76	7	188	32	24	6	37	1.80
630198--630228	14	2.3	14	94	5	55	25	0	0	74	0.82
630255--630328	38	1.9	38	94	0	130	41	12	4	41	1.61
631450--631481	11	2.8	12	90	9	57	37	0	0	62	0.95
642620--642659	20	2.0	20	100	0	80	10	5	20	65	1.42
642617--642661	20	2.1	22	84	16	76	8	4	20	66	1.36
643078--643190	52	2.2	52	91	0	181	44	7	20	28	1.77
643714--643765	15	3.5	15	86	0	68	38	7	23	30	1.83
651158--651261	51	2.0	51	81	5	118	31	18	6	43	1.76
653907--653958	15	3.5	15	86	0	68	38	7	23	30	1.83
653907--653970	30	2.1	30	82	0	74	37	10	21	29	1.88
654105--654164	24	2.4	25	91	2	95	23	25	26	25	2.00
654160--654217	24	2.5	24	82	2	73	25	15	22	36	1.94
660845--660896	15	3.5	15	89	0	77	38	7	21	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660845--660921	30	2.6	30	85	0	91	33	12	20	32	1.91
661042--661102	24	2.5	25	86	5	88	24	26	22	26	2.00
661104--661155	24	2.2	24	82	0	59	25	13	23	38	1.91
662112--662167	27	2.1	27	89	0	85	51	8	10	28	1.66
663173--663344	74	2.4	72	88	3	256	50	4	7	37	1.50
664076--664106	6	5.2	6	100	0	62	48	16	35	0	1.46
673270--673316	21	2.3	20	82	13	60	44	17	17	21	1.86
673276--673318	21	2.0	22	90	4	70	44	16	16	23	1.86
677644--677668	12	2.1	12	100	0	50	52	8	0	40	1.31
677708--677762	20	3.1	17	76	19	58	56	0	5	38	1.23

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