genome.fa.s8138.2.7.7.80.10.50.1000.3.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: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3838456

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2117 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)
520896--521031	60	2.3	60	84	6	177	32	25	5	36	1.80
520936--521026	29	3.1	29	69	12	85	30	25	5	38	1.78
520936--521071	60	2.3	60	83	2	157	31	27	7	33	1.84
521088--521235	60	2.5	60	84	3	172	37	4	26	31	1.75
526625--526676	12	4.4	11	76	13	50	19	1	1	76	0.97
527610--527652	18	2.4	18	92	0	68	20	6	0	72	1.08
527704--527810	20	5.1	21	70	18	73	19	5	0	73	1.08
527766--527796	10	3.2	10	95	4	55	25	0	0	74	0.82
529843--529889	23	2.2	23	85	11	64	21	17	10	51	1.75
533796--534004	86	2.4	86	86	0	283	29	23	23	22	1.99
533842--533975	44	3.1	44	66	12	114	27	23	26	23	2.00
534064--534445	202	1.9	202	82	1	478	33	19	21	25	1.97
534744--534776	9	3.8	9	88	8	50	48	0	0	51	1.00
534804--534844	21	1.9	22	85	5	57	39	2	2	56	1.26
534836--534892	22	2.6	21	81	15	62	17	7	1	73	1.14
535236--535260	12	2.1	12	100	0	50	28	8	0	64	1.22
535564--535606	18	2.4	18	88	3	61	18	6	0	74	1.04
535692--535739	23	2.0	23	84	11	62	18	10	0	70	1.15
535688--535809	63	1.9	64	86	5	176	24	7	0	67	1.22
535688--535829	63	2.2	63	84	8	173	22	8	1	67	1.25
541359--541422	19	3.2	20	72	14	53	43	1	1	53	1.19
541368--541417	20	2.5	20	78	12	59	40	2	2	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541335--541421	31	2.8	30	79	10	95	41	1	3	54	1.25
542145--542231	31	2.8	30	81	10	95	54	3	1	41	1.25
542140--542207	19	3.5	20	73	15	54	54	1	2	41	1.24
543147--543200	21	2.6	21	96	0	99	25	16	27	29	1.97
543191--543376	20	9.5	19	71	18	98	15	20	23	39	1.91
543232--543303	22	3.4	22	69	11	78	18	18	25	38	1.92
543253--543478	20	11.5	19	64	16	70	19	19	22	38	1.93
543212--543478	41	6.7	41	76	14	272	19	19	22	38	1.94
543209--543437	116	2.0	116	87	5	329	18	20	23	37	1.94
543189--543482	157	1.9	156	92	2	491	19	20	22	38	1.93
543389--543460	22	3.4	21	69	11	67	20	19	22	37	1.94
543551--543575	6	4.2	6	100	0	50	36	48	16	0	1.46
543572--543603	5	6.6	5	96	3	57	37	21	40	0	1.54
544088--544125	6	6.3	6	100	0	76	0	15	50	34	1.45
544198--544251	19	2.8	19	75	8	56	37	20	16	25	1.93
544245--544561	20	15.5	20	73	4	256	38	23	20	17	1.93
544196--544588	41	9.6	41	89	3	571	37	22	19	20	1.94
545150--545186	18	2.1	18	90	10	58	67	0	0	32	0.91
545740--545768	2	14.5	2	100	0	58	51	0	0	48	1.00
548331--548361	14	2.2	14	94	0	53	64	3	12	19	1.41
552081--552130	2	25.0	2	100	0	100	50	0	0	50	1.00
553308--553383	3	25.7	3	80	17	88	64	0	1	34	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553306--553391	27	3.4	25	82	16	106	66	0	1	32	1.00
553308--553377	30	2.4	30	93	6	119	62	0	1	35	1.04
553307--553395	18	5.2	17	74	14	67	68	0	1	30	0.97
554420--554466	19	2.6	18	86	3	58	48	4	0	46	1.21
554537--554698	57	3.1	48	70	19	121	53	2	1	41	1.25
555325--555469	60	2.4	59	77	8	141	35	22	4	37	1.74
556101--556161	25	2.5	25	78	21	67	72	1	11	14	1.20
556230--556285	26	2.2	26	87	6	78	76	1	5	16	1.05
556231--556310	12	6.5	12	72	23	51	78	2	3	15	0.99
556230--556309	14	5.5	14	72	25	51	77	2	3	16	1.02
556243--556309	7	9.9	7	71	12	50	79	2	2	14	0.98
556232--556308	17	4.3	17	79	14	75	77	2	3	15	1.02
556254--556311	21	3.0	20	85	7	66	79	3	1	15	0.95
556654--556683	14	2.1	14	100	0	60	13	50	16	20	1.78
557675--557699	2	12.5	2	100	0	50	48	0	0	52	1.00
557638--557735	47	2.2	46	83	9	121	46	4	2	46	1.33
557683--557998	37	8.7	37	77	13	302	43	5	5	46	1.48
557852--557921	27	2.5	28	79	4	79	45	4	4	45	1.42
557880--557998	39	3.1	39	70	15	102	46	5	5	42	1.50
558509--559655	84	13.8	82	81	4	1137	24	20	23	31	1.98
558509--559939	249	5.8	246	82	5	1500	24	20	24	31	1.98
558499--559939	330	4.4	329	81	5	1481	24	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559658--559939	84	3.4	84	84	1	377	24	19	24	31	1.98
561054--561316	95	2.7	94	88	4	348	31	15	17	34	1.92
563624--563670	24	2.0	24	87	8	69	59	4	8	27	1.45
563685--563735	18	2.9	17	85	5	57	80	3	1	13	0.94
563719--563778	23	2.8	20	74	16	57	73	0	8	18	1.08
565133--565188	29	1.9	29	85	0	76	73	3	3	19	1.13
565222--565699	36	13.0	37	78	12	384	45	5	3	44	1.45
565398--565459	12	5.2	12	73	7	54	41	1	8	48	1.42
569110--569152	18	2.4	18	84	11	61	30	0	16	53	1.43
569865--569908	21	2.1	21	86	0	61	54	0	11	34	1.36
570295--570327	16	2.0	17	88	5	50	39	9	18	33	1.82
576411--576462	23	2.3	23	80	6	72	21	40	21	17	1.91
576443--576482	21	1.9	21	89	0	62	25	40	25	10	1.86
580896--581027	29	4.7	28	76	10	117	41	22	5	30	1.76
580915--581021	54	1.9	56	88	7	166	39	21	6	32	1.79
581073--581104	13	2.5	13	94	0	55	12	21	46	18	1.82
583413--583617	64	3.2	63	78	6	191	35	19	17	27	1.94
583931--583966	18	2.0	18	88	0	54	30	8	16	44	1.77
585122--585164	22	2.0	20	90	9	59	27	20	30	20	1.98
588418--588629	64	3.3	62	77	8	212	34	20	17	27	1.95
588938--588973	18	2.0	18	88	0	54	30	8	16	44	1.77
596308--596460	29	5.3	29	75	7	98	40	22	7	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596329--596484	85	1.8	85	90	0	249	41	22	7	28	1.81
596349--596455	56	1.9	57	92	1	180	40	19	7	32	1.80
603374--603414	6	6.8	6	94	0	55	48	9	2	39	1.49
604932--604970	11	3.5	11	86	6	53	61	0	2	35	1.10
610128--610444	157	2.0	158	97	0	600	34	10	27	27	1.89
617553--617582	14	2.1	14	93	0	51	46	13	0	40	1.43
617865--618066	55	3.7	55	84	4	237	28	21	15	33	1.95
617865--618105	55	4.4	55	81	6	224	28	21	16	34	1.95
617861--618105	110	2.2	110	84	5	307	27	22	15	33	1.95
618130--619087	54	17.9	54	89	2	1434	23	24	17	34	1.95
622269--622333	16	4.1	16	78	13	71	3	24	0	72	0.99
622266--622307	11	3.9	11	76	17	52	0	19	0	80	0.70
622266--622336	31	2.2	32	85	2	90	2	23	0	73	0.97
623004--623050	21	2.3	21	92	3	78	68	10	10	10	1.41
624858--624931	21	3.5	21	85	5	96	18	20	18	41	1.90
624896--624938	21	2.0	21	90	0	68	13	27	18	39	1.89
629253--629316	29	2.2	29	83	5	76	43	1	0	54	1.09
629986--630028	18	2.5	17	84	3	50	46	4	6	41	1.51
630324--630367	19	2.4	18	85	7	61	13	0	20	65	1.26
630330--630367	19	2.0	19	94	0	67	15	0	18	65	1.27
630360--630398	17	2.2	18	90	4	62	7	5	28	58	1.47
631435--631535	50	2.0	50	98	0	193	41	8	13	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632953--633006	23	2.4	22	77	17	56	70	5	3	20	1.23
632942--633046	55	1.9	54	81	11	124	69	2	5	21	1.23
634389--634428	3	13.7	3	94	5	73	70	0	0	30	0.88
634383--634477	17	5.5	17	79	15	83	73	0	4	22	1.00
634376--634483	6	17.8	6	80	12	80	75	0	3	20	1.02
634388--634486	26	3.7	26	79	18	91	73	0	4	22	0.99
634398--634482	16	5.1	16	78	16	61	74	0	4	21	1.00
634480--634538	13	4.2	14	74	10	50	47	10	3	38	1.54
634549--634786	37	6.5	38	82	11	259	45	6	3	44	1.48
634549--634825	37	7.6	37	78	13	238	44	6	3	44	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18