genome.fa.s9585.2.7.7.80.10.50.1000.3.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  3  of  35  ( 4106 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)
522727--522903	43	4.1	43	88	2	230	28	23	20	27	1.99
525915--525965	12	4.3	12	76	18	54	31	0	1	66	1.03
525979--526181	64	3.2	63	86	7	252	39	0	2	56	1.18
525948--526125	24	7.0	27	68	16	98	41	0	2	55	1.18
525915--526129	100	2.2	99	85	7	312	38	0	2	58	1.16
526078--526162	38	2.2	37	85	12	109	43	0	1	55	1.07
525990--526157	88	1.9	87	85	9	234	40	0	2	55	1.19
526179--526238	19	3.2	19	77	15	54	36	1	0	61	1.06
526691--526750	31	1.9	31	89	0	93	43	11	5	40	1.63
531658--532194	182	2.9	181	83	6	717	28	18	14	38	1.90
532284--532329	23	2.0	23	95	0	83	23	13	21	41	1.88
545879--545992	54	2.1	54	85	8	151	76	0	15	7	1.01
545887--546001	31	3.7	31	79	15	132	76	0	16	6	0.99
545894--546013	16	7.8	16	83	5	124	76	0	16	6	0.99
547141--547554	51	8.0	51	93	1	648	29	15	27	27	1.96
547141--547661	153	3.3	153	86	5	661	29	15	25	28	1.96
547144--547653	102	4.9	105	87	6	467	29	15	25	29	1.96
547159--547663	51	9.6	55	88	4	221	29	15	26	28	1.96
547415--547681	55	4.9	55	78	10	171	29	16	24	29	1.96
549276--549328	19	2.8	18	76	15	54	30	9	3	56	1.49
568324--569158	416	2.0	416	99	0	1661	36	17	15	30	1.91
572866--572905	20	2.0	20	85	0	53	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572922--573017	38	2.5	40	76	13	101	51	3	1	44	1.24
572942--573040	52	1.9	51	81	6	119	49	4	1	45	1.27
573006--573036	3	10.7	3	93	6	55	35	0	0	64	0.94
574724--574876	64	2.4	65	80	8	163	22	22	20	34	1.97
578671--578776	32	3.4	32	75	18	107	33	17	16	31	1.93
582314--582366	23	2.3	23	83	0	61	16	18	26	37	1.93
583238--583291	2	27.0	2	96	0	99	50	1	0	48	1.11
583565--583744	30	6.0	30	97	0	317	31	24	22	21	1.98
583733--583830	31	3.2	30	78	13	117	32	18	19	29	1.96
584664--584708	21	2.1	21	87	0	63	15	24	28	31	1.96
585957--585994	17	2.2	18	95	4	69	26	18	26	28	1.98
587253--587287	2	17.5	2	93	0	61	48	2	0	48	1.16
587677--587745	23	3.0	23	71	0	66	21	23	21	33	1.97
588938--588997	19	3.2	19	97	0	111	40	0	31	28	1.57
591224--591271	19	2.5	19	100	0	96	31	22	29	16	1.96
591238--591399	64	2.5	64	83	7	195	34	19	22	23	1.96
593552--593589	20	1.9	20	88	0	58	23	21	21	34	1.97
597666--597703	20	1.9	20	94	0	67	21	23	23	31	1.98
599746--599805	23	2.6	23	83	0	75	18	23	26	31	1.97
602794--602860	2	33.5	2	100	0	134	49	0	0	50	1.00
602854--603692	417	2.0	417	96	0	1536	33	18	14	33	1.91
603750--603882	3	43.7	3	87	3	176	37	0	1	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604363--604400	17	2.2	18	95	4	69	73	13	13	0	1.09
604662--604690	13	2.2	13	100	0	58	0	31	62	6	1.22
605959--606010	20	2.6	21	74	14	56	26	5	0	67	1.13
610669--610706	10	3.7	10	96	3	67	86	0	13	0	0.56
610672--610706	11	3.3	11	92	4	54	88	0	11	0	0.51
612867--613061	93	2.1	93	82	3	232	27	13	21	37	1.91
614908--615080	54	3.3	53	84	4	188	41	15	19	24	1.90
614944--615080	54	2.5	54	89	0	193	39	15	18	26	1.91
615446--615498	22	2.4	22	83	0	70	33	15	16	33	1.90
616169--616959	76	10.4	76	98	0	1501	21	21	21	36	1.95
617092--617215	3	40.7	3	86	3	158	37	0	2	60	1.10
620336--620372	20	1.9	19	89	10	58	45	10	24	18	1.81
622896--622938	23	1.9	22	95	4	77	39	9	0	51	1.34
622944--622989	19	2.5	19	89	6	69	28	6	2	63	1.31
623366--623415	25	2.0	26	84	11	68	36	6	20	38	1.77
623429--623468	21	1.9	21	84	0	53	12	5	7	75	1.18
623762--623806	22	2.0	22	100	0	90	57	0	4	37	1.19
624001--624394	195	2.0	195	88	9	586	42	15	11	30	1.83
627859--628002	77	1.9	76	86	1	207	43	6	9	39	1.65
629880--629918	4	9.8	4	100	0	78	25	0	23	51	1.49
630911--630969	27	2.2	27	84	6	75	15	25	11	47	1.79
632343--632386	2	22.5	2	95	4	81	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632344--632391	8	6.4	7	95	4	53	52	0	0	47	1.00
633308--633337	14	2.1	14	100	0	60	53	0	26	20	1.46
638234--638305	37	1.9	37	97	0	135	18	8	22	51	1.72
644802--644826	3	8.3	3	100	0	50	68	32	0	0	0.90
650572--650686	57	2.0	57	93	0	194	34	21	13	30	1.91
650959--651053	31	3.1	31	89	0	145	48	15	11	24	1.78
654857--654917	31	2.0	31	83	0	77	45	8	9	36	1.67
658452--658481	2	15.0	2	100	0	60	50	50	0	0	1.00
664225--664251	14	1.9	14	100	0	54	44	29	7	18	1.77
664378--664764	183	2.1	184	92	2	638	43	2	7	46	1.47
665015--665066	15	3.4	15	68	5	50	34	38	5	21	1.77
665006--665068	31	2.0	31	96	0	117	39	31	6	22	1.79
667486--667537	24	2.2	24	85	0	68	21	36	23	19	1.95
677228--677272	24	2.0	22	84	16	58	42	6	2	48	1.41
678782--678839	3	19.7	3	96	3	109	67	0	0	32	0.91
679513--679557	22	2.0	23	95	4	83	66	4	2	26	1.22
679513--679558	13	3.8	13	75	24	55	67	4	2	26	1.21
680960--680988	14	2.1	14	100	0	58	31	13	20	34	1.92
681555--681623	32	2.2	32	86	0	93	37	1	7	53	1.38
682748--682782	15	2.3	15	95	0	61	62	2	0	34	1.10
682748--682790	15	2.9	15	89	3	52	60	2	0	37	1.10
686087--686258	85	2.0	85	97	0	326	19	18	13	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
700933--700990	30	1.9	30	96	0	107	15	8	24	51	1.71
701363--701405	16	2.6	16	85	3	50	30	2	2	65	1.18
701379--701416	8	4.8	8	81	12	51	31	0	0	68	0.90
703600--703654	23	2.4	23	77	14	60	18	10	5	65	1.42
714501--714561	20	2.9	21	87	7	79	18	26	32	22	1.97
718275--718314	21	1.9	21	89	0	62	10	25	40	25	1.86
718295--718357	20	2.9	21	79	9	65	15	25	34	23	1.95
721668--721714	20	2.2	21	78	17	53	44	6	12	36	1.68
723809--723852	22	2.0	22	100	0	88	13	27	40	18	1.88
727589--727628	21	1.9	21	85	10	55	35	10	2	52	1.48
742478--742596	36	3.3	37	78	9	104	30	16	13	39	1.87
742499--742596	35	2.7	37	76	7	103	30	15	13	40	1.85
742939--743056	36	3.4	36	67	13	113	27	19	14	38	1.90
742930--743055	66	1.9	66	98	0	243	26	18	15	39	1.90
745183--745245	23	2.7	23	80	0	63	20	11	44	23	1.83
745962--746129	91	1.8	91	92	0	282	26	22	13	38	1.90
747082--747152	11	6.1	12	84	11	78	14	9	0	76	1.03
747081--747167	6	14.8	6	73	13	56	12	10	0	77	1.01
747127--747181	8	6.9	8	76	15	60	12	14	0	72	1.12
747080--747169	11	8.4	11	75	17	73	12	10	0	77	0.98
747127--747181	17	3.4	16	78	11	60	12	14	0	72	1.12
747084--747195	52	2.2	52	81	12	133	13	13	0	73	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
749641--749773	66	2.0	66	97	0	248	30	27	11	30	1.91
750780--750825	7	6.9	7	80	5	51	67	0	15	17	1.24
750780--750825	21	2.3	19	88	7	65	67	0	15	17	1.24
757973--758260	137	2.1	137	85	1	380	28	27	16	27	1.97
758465--758497	3	11.3	3	93	6	59	33	0	0	66	0.92
759579--759636	31	1.9	29	89	6	89	20	8	20	50	1.75
760114--760147	12	2.8	12	90	0	50	55	29	0	14	1.40
762925--763089	64	2.6	64	95	0	285	52	17	2	27	1.57
764429--764506	21	3.7	21	84	6	95	21	21	33	23	1.97
764431--764523	42	2.2	42	84	3	116	22	21	32	23	1.98

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