genome.fa.s8027.2.7.7.80.10.50.1000.4.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  4  of  38  ( 4505 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)
535042--535088	12	3.7	12	81	15	58	17	19	17	46	1.84
535041--535080	15	2.9	14	85	14	57	20	17	15	47	1.83
567164--567224	14	4.1	14	82	12	77	75	0	13	11	1.05
567180--567251	14	5.3	14	75	11	60	73	0	15	11	1.09
567230--567345	17	6.5	17	69	20	51	75	0	17	6	1.01
567247--567275	12	2.5	12	94	5	51	72	0	20	6	1.07
567295--567340	6	7.8	6	86	13	69	82	0	17	0	0.67
567295--567345	23	2.2	23	89	6	77	82	0	15	1	0.76
568621--568735	37	3.1	37	84	5	151	38	18	20	23	1.93
568747--569104	55	6.5	55	87	1	450	27	15	25	31	1.95
568747--569104	165	2.2	163	87	2	509	27	15	25	31	1.95
572589--572660	29	2.5	28	75	8	72	19	19	11	50	1.77
572755--572829	31	2.4	31	97	0	141	44	18	18	18	1.88
573664--573708	17	2.7	17	89	3	65	31	17	4	46	1.68
574240--574315	35	2.2	35	92	4	127	51	1	0	47	1.09
574234--574305	2	37.0	2	91	5	121	50	1	0	48	1.09
574719--574765	13	3.5	13	82	11	51	29	27	4	38	1.76
575406--575463	20	2.7	20	81	10	62	27	22	17	32	1.96
575451--575612	64	2.5	63	78	7	166	26	24	17	32	1.97
578794--578840	13	3.5	13	82	11	51	29	27	4	38	1.76
579475--579532	20	2.7	20	86	10	71	27	22	18	31	1.97
580647--580689	20	2.2	20	82	0	50	69	6	4	18	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581347--581528	91	2.0	91	100	0	364	25	24	13	37	1.91
581883--581940	19	3.1	19	73	9	55	34	15	5	44	1.69
581904--581980	19	4.1	19	76	6	75	29	18	7	44	1.78
586075--586110	17	2.1	18	89	5	56	19	0	27	52	1.46
589189--589219	16	1.9	16	93	0	53	38	3	12	45	1.59
591486--591519	4	8.8	4	87	6	52	76	2	0	20	0.92
593410--593529	51	2.4	51	91	0	186	15	20	16	47	1.82
594194--594275	32	2.5	33	82	5	87	29	12	34	24	1.91
600497--600560	27	2.3	28	86	2	85	43	26	10	18	1.83
601597--601684	32	2.8	32	79	6	106	19	26	27	27	1.99
609145--609202	29	2.0	30	96	3	109	39	8	13	37	1.76
610534--610560	6	4.5	6	100	0	54	14	0	0	85	0.61
612227--612251	11	2.3	11	100	0	50	48	8	0	44	1.32
613023--613070	23	2.1	23	88	0	69	16	10	14	58	1.63
613115--613155	14	2.9	14	85	0	55	9	12	21	56	1.65
613558--613625	31	2.2	31	84	5	84	41	11	10	36	1.76
616783--616824	4	10.5	4	89	0	66	26	28	0	45	1.54
616783--616827	12	3.8	12	96	0	81	24	31	0	44	1.54
616826--616858	4	8.5	4	93	6	59	0	27	24	48	1.51
616828--616857	15	2.0	15	100	0	60	0	26	26	46	1.53
617011--617084	21	3.5	21	89	7	114	48	25	0	25	1.51
617025--617112	28	3.1	28	78	12	74	46	23	1	28	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618252--618285	2	17.0	2	93	0	50	50	5	0	44	1.26
622713--622763	23	2.2	23	82	10	59	31	3	1	62	1.24
623767--623800	3	11.0	3	87	6	50	32	0	2	64	1.08
623975--624020	2	23.0	2	100	0	92	50	0	0	50	1.00
630274--630308	16	2.2	16	94	0	61	25	0	22	51	1.48
630266--630354	24	3.7	24	75	3	81	32	1	25	40	1.63
631409--631587	86	2.0	88	87	3	254	36	12	22	28	1.90
632294--632438	21	6.8	21	74	4	130	23	16	24	35	1.95
632751--635219	6	418.2	6	93	5	4245	17	0	32	49	1.47
638401--638440	14	2.8	14	88	3	53	32	7	20	40	1.80
638666--638806	21	6.6	21	74	3	120	23	15	24	36	1.93
639131--639188	6	9.7	6	94	0	98	17	12	32	37	1.86
642287--642354	33	2.1	33	94	0	118	45	8	13	32	1.74
642336--642408	31	2.3	32	83	9	96	57	6	6	28	1.51
646517--646559	6	6.8	6	85	12	52	16	18	13	51	1.77
646517--646555	19	1.9	19	90	10	60	15	17	15	51	1.77
649357--649410	26	2.1	26	82	6	65	37	16	11	35	1.84
649388--649778	66	5.9	66	84	2	455	26	21	12	39	1.89
649399--649778	131	2.9	132	81	4	437	26	22	12	39	1.89
649393--649778	197	1.9	199	86	3	555	26	22	12	39	1.89
649662--649781	36	3.5	36	70	15	117	25	21	13	39	1.90
650324--650362	13	3.0	13	88	7	53	28	2	2	66	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651848--651872	5	5.0	5	100	0	50	20	0	0	80	0.72
652703--652733	5	6.2	5	92	0	53	22	54	19	3	1.58
655849--655983	16	8.5	15	67	18	62	72	1	5	20	1.13
655848--656028	11	16.2	11	66	20	65	72	1	6	19	1.15
655957--656033	21	3.8	20	75	21	70	74	1	6	18	1.11
655950--656034	20	4.2	20	72	14	66	74	1	5	18	1.09
656843--656905	28	2.2	29	75	13	69	4	4	28	61	1.36
657520--657893	37	10.3	37	81	11	345	44	7	2	45	1.45
657520--657893	75	5.2	71	82	11	365	44	7	2	45	1.45
657618--657925	144	2.1	142	78	13	310	46	6	2	43	1.45
657890--657937	24	1.9	26	84	16	66	64	2	2	31	1.16
658426--659825	165	8.5	165	84	4	1308	24	18	23	32	1.97
658426--659851	84	17.2	84	77	6	1195	24	18	23	32	1.97
660978--661178	95	2.1	95	87	0	285	33	16	15	33	1.91
664587--664747	16	10.2	16	68	15	52	72	1	6	19	1.15
664586--664763	21	8.4	20	66	24	71	73	1	6	19	1.11
664689--664747	31	1.9	31	82	0	73	72	3	5	18	1.17
664592--664755	17	9.6	16	63	19	55	72	1	6	19	1.13
664720--664763	19	2.2	21	92	8	74	79	0	4	15	0.89
665580--665644	33	2.0	33	82	11	80	1	6	33	58	1.32
673121--673591	37	13.0	36	77	13	357	43	7	4	44	1.51
673117--673589	75	6.5	73	79	11	417	43	6	4	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673439--673463	11	2.3	11	100	0	50	44	8	8	40	1.63
673819--673875	2	29.5	2	92	7	100	50	0	0	49	1.00
675539--675593	27	2.0	27	100	0	110	61	3	20	14	1.47
676118--676179	2	32.0	2	90	6	101	50	1	0	48	1.10
677823--678895	249	4.3	247	86	2	1387	24	19	24	31	1.98
677813--678895	165	6.5	166	78	6	874	24	19	24	31	1.98
677813--678897	84	13.1	84	77	5	898	24	19	24	31	1.98
683956--683988	13	2.6	13	85	4	50	78	0	0	21	0.75
683967--684012	23	2.0	24	87	12	69	73	2	2	21	1.04
684067--684120	2	27.0	2	100	0	108	50	0	0	50	1.00
684234--684264	2	16.0	2	93	6	55	51	0	0	48	1.00
685609--685636	2	14.0	2	100	0	56	50	0	0	50	1.00
686093--686147	11	5.2	11	77	16	53	76	0	5	18	0.97
687272--687542	33	7.9	34	75	19	228	46	5	2	46	1.39
687263--687542	66	4.1	67	78	18	251	46	5	2	46	1.38
687529--687558	2	15.5	2	93	6	53	46	0	0	53	1.00
687290--687864	38	15.3	39	75	19	391	45	5	3	46	1.40
687499--687595	49	2.0	49	88	7	146	43	4	2	50	1.33
687736--687862	36	3.5	35	76	13	105	48	6	3	42	1.44
687845--687885	2	21.0	2	95	5	75	51	0	0	48	1.00
688629--689266	85	7.5	85	85	1	792	24	17	21	36	1.94
688628--689266	171	3.7	171	87	0	866	24	17	21	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688661--689266	256	2.4	256	86	1	820	24	16	22	36	1.94
697339--697382	21	2.0	22	83	12	56	52	6	6	34	1.55
697369--697393	3	8.3	3	100	0	50	64	0	0	36	0.94
697547--697853	110	2.8	111	88	2	465	28	17	23	30	1.97
697739--698102	134	2.7	134	89	0	557	30	16	21	32	1.95
698106--698259	79	1.9	79	84	0	200	24	19	24	31	1.98
710665--711048	38	10.2	38	89	7	536	45	4	2	47	1.36
710635--711084	37	12.2	35	83	13	343	45	5	2	46	1.38
710864--711082	38	6.0	34	79	16	144	44	5	2	47	1.40
711918--711976	19	3.2	19	79	13	70	77	0	8	13	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38