genome.fa.s7932.2.7.7.80.10.50.1000.3.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: VEPZ01007932.1 Hibiscus syriacus cultivar Beakdansim tig00110342_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1116633

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 634 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)
512974--513172	83	2.4	83	83	7	244	28	22	22	27	1.99
516583--516615	5	6.6	5	86	13	50	78	3	0	18	0.87
516583--516615	11	3.3	10	88	12	50	78	3	0	18	0.87
517800--517832	15	2.3	15	89	5	50	0	3	48	48	1.17
518029--518410	136	2.8	136	89	0	568	26	22	17	33	1.96
518433--518749	39	8.2	39	90	1	487	34	16	16	32	1.92
518433--518749	77	4.1	78	92	0	496	34	16	16	32	1.92
518761--519010	136	1.8	136	94	0	446	26	21	16	36	1.94
520557--520609	28	2.0	24	82	13	61	20	3	33	41	1.70
523490--523544	28	1.9	29	85	3	76	45	7	18	29	1.76
529417--529513	3	32.7	3	91	2	160	62	0	2	35	1.07
529848--530349	129	3.9	129	84	3	607	26	18	29	26	1.98
529874--530338	46	10.7	45	68	13	253	25	18	30	25	1.98
530399--530484	32	2.6	33	81	7	95	19	13	27	38	1.90
532573--532715	52	2.8	52	82	7	177	24	20	18	37	1.94
534207--534239	12	2.8	12	100	0	66	12	9	0	78	0.95
534236--534329	5	19.8	5	77	20	96	0	19	0	80	0.70
534231--534331	37	2.8	37	80	15	79	0	18	0	81	0.70
534222--534309	23	4.0	22	80	15	92	2	15	0	81	0.78
534231--534331	18	5.4	18	81	13	109	0	18	0	81	0.70
534236--534331	16	5.9	15	79	17	95	0	18	0	81	0.70
534205--534329	42	3.0	41	82	10	137	3	16	0	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540443--540528	3	28.7	3	92	0	136	61	0	2	36	1.09
543042--543563	6	88.0	6	96	3	961	33	0	16	49	1.48
565715--565824	57	1.9	57	92	0	184	22	28	16	32	1.96
569833--569909	39	2.0	39	86	0	109	16	23	23	36	1.94
580196--580229	18	1.9	18	88	5	52	50	0	20	29	1.49
581532--583125	795	2.0	794	97	0	3010	28	14	19	37	1.91
584464--584497	18	1.9	18	88	5	52	29	20	0	50	1.49
590322--590356	12	2.9	12	95	0	61	0	48	2	48	1.16
590921--591000	3	26.7	3	84	5	108	66	0	2	31	1.05
591103--591164	20	3.0	20	79	6	54	48	1	4	45	1.33
591113--591157	19	2.4	18	85	10	63	48	2	2	46	1.26
600023--600068	6	7.8	6	84	15	53	69	2	13	15	1.28
600028--600077	25	2.0	26	84	11	68	64	4	16	16	1.44
601593--601650	25	2.3	25	100	0	116	20	15	24	39	1.91
607421--607457	14	2.4	16	82	13	51	56	8	8	27	1.56
608643--608675	14	2.3	15	89	5	50	24	30	3	42	1.70
610550--610624	31	2.4	32	84	2	89	14	28	33	24	1.94
613532--613567	4	9.2	4	93	6	65	0	25	0	75	0.81
614503--614552	21	2.4	21	93	0	82	28	28	22	22	1.99
614565--614653	21	4.2	21	76	13	76	24	23	21	30	1.99
615259--615309	6	8.5	6	97	0	84	0	15	54	29	1.41
615395--615476	21	4.0	21	78	9	96	31	21	23	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615402--615495	41	2.3	41	96	0	170	34	21	22	22	1.97
615423--615495	20	3.6	20	78	10	94	35	20	21	21	1.96
620938--620974	13	2.8	13	95	0	65	29	13	27	29	1.94
622314--622351	18	2.1	19	95	5	69	57	0	0	42	0.98
622502--622542	21	2.0	21	95	0	73	41	17	0	41	1.49
625481--625511	12	2.7	11	90	9	53	25	0	3	70	1.02
631214--631244	15	2.1	15	93	0	53	45	0	0	54	0.99
632884--632944	22	2.8	22	92	0	95	31	19	18	31	1.96
634557--634617	29	2.1	29	93	0	104	34	13	11	40	1.80
634702--634738	15	2.5	15	87	12	58	67	0	24	8	1.17
634705--634747	15	2.7	16	82	7	52	62	0	25	11	1.29
637445--637525	30	2.7	30	88	0	117	46	7	8	37	1.63
637593--637745	76	2.0	76	96	0	279	41	5	12	40	1.65
637878--637920	19	2.3	19	84	8	52	53	2	0	44	1.13
640471--640532	26	2.4	26	83	5	81	77	1	1	19	0.94
640481--640529	12	3.8	13	82	10	57	81	0	2	16	0.78
640489--640530	20	2.1	20	86	0	57	83	0	2	14	0.75
647038--647079	22	1.9	22	95	0	75	30	21	19	28	1.97
647034--647087	22	2.4	22	84	3	72	29	24	22	24	1.99
648616--648642	2	13.5	2	100	0	54	48	0	0	51	1.00
648793--648817	12	2.1	12	100	0	50	8	0	0	92	0.40
651621--651753	20	6.5	21	69	17	82	36	23	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651684--651969	20	14.5	20	75	10	194	38	22	19	19	1.93
651745--651969	40	5.7	41	84	7	238	38	22	19	20	1.94
651784--651924	74	1.9	75	89	4	223	40	21	19	19	1.92
652828--652881	24	2.2	24	93	0	90	20	18	20	40	1.91
654136--654194	30	2.0	30	89	0	91	16	59	11	11	1.61
656655--656762	19	5.8	20	73	15	88	39	19	21	19	1.92
656682--656832	19	8.7	18	68	21	92	43	19	23	13	1.87
656696--656730	14	2.5	14	95	0	61	42	17	22	17	1.88
656682--656748	34	2.0	33	85	2	89	41	19	22	16	1.90
656662--656795	53	2.5	53	86	3	182	41	19	22	16	1.90
656735--656828	33	2.8	33	96	0	170	43	18	24	13	1.86
656828--656917	33	2.7	33	87	0	117	14	17	22	45	1.85
657024--657060	14	2.6	14	91	0	65	45	21	0	32	1.52
658410--658503	42	2.2	42	81	7	102	22	21	34	22	1.97
658449--658528	42	1.9	42	82	5	99	23	17	37	21	1.94
660499--660595	20	5.2	20	70	20	84	45	17	24	12	1.83
660500--660638	19	7.7	19	71	17	118	46	19	21	12	1.82
660526--660621	33	2.9	33	90	1	138	43	21	21	12	1.86
660655--660692	14	2.7	14	95	0	67	10	23	23	42	1.85
660684--660755	20	3.5	20	84	5	92	12	18	19	50	1.78
661292--661441	74	2.0	75	89	1	230	17	19	21	42	1.90
661258--661480	20	11.4	20	80	7	188	19	19	22	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661258--661480	40	5.7	40	85	6	242	19	19	22	39	1.93
661368--661502	41	3.3	41	88	5	159	17	20	25	37	1.94
661366--661503	61	2.3	61	83	5	172	18	19	24	37	1.94
661488--661582	42	2.3	42	76	5	95	24	17	23	34	1.96
661571--661624	20	2.7	19	75	8	63	16	18	31	33	1.93
662511--662586	27	2.9	27	84	5	93	44	2	0	52	1.14
662494--662745	63	4.2	61	74	15	188	40	3	0	54	1.22
662571--662817	30	8.2	29	71	18	143	39	5	1	54	1.31
662534--662729	91	2.2	93	79	8	224	41	4	0	53	1.24
662511--662750	31	8.0	31	73	14	182	40	4	0	54	1.23
662567--662829	122	2.2	122	92	3	444	38	5	1	54	1.32
662841--662902	19	3.4	19	78	19	78	51	4	0	43	1.23
669895--669927	13	2.6	13	85	4	50	84	3	0	12	0.72
670875--670961	15	6.2	14	68	17	56	45	0	0	54	1.00
671019--671132	36	3.2	36	88	0	165	18	36	11	33	1.87
672823--672934	33	3.4	33	92	0	188	27	12	30	29	1.93
673281--673346	33	2.0	33	100	0	132	45	6	9	39	1.61
689804--689836	16	2.1	16	100	0	66	57	24	12	6	1.57
689900--689940	13	3.1	13	82	3	55	63	19	7	9	1.48
715846--715901	19	2.6	23	81	16	66	50	1	1	46	1.22
721621--721706	38	2.3	38	92	6	140	10	11	39	38	1.76
721398--722014	253	2.4	253	90	5	950	23	12	29	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
721874--721965	38	2.4	38	89	5	143	14	11	36	36	1.83
722543--722587	18	2.6	18	82	6	58	31	28	4	35	1.77
723705--723818	45	2.5	45	89	2	165	41	0	13	45	1.43
723891--723927	7	5.7	7	81	18	53	27	0	13	59	1.35
737029--737073	23	2.0	23	100	0	90	28	17	26	26	1.98
737071--737120	21	2.4	21	89	0	73	40	30	10	20	1.85
737421--737745	160	2.0	163	95	4	588	39	15	4	40	1.68
744703--744737	12	2.8	13	91	8	63	37	5	8	48	1.58
745021--745063	15	2.9	15	82	0	59	60	27	0	11	1.31
745021--745069	15	3.3	15	79	0	53	59	26	0	14	1.36

Tables:   1   2   3   4   5   6