genome.fa.s9175.2.7.7.80.10.50.1000.4.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  4  of  51  ( 6037 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)
550984--551034	18	2.7	20	74	25	56	62	0	0	37	0.95
551457--551530	27	2.6	27	83	14	87	54	31	0	14	1.41
551478--551524	20	2.3	21	82	10	62	51	34	0	14	1.43
551512--551565	28	1.9	27	82	14	65	46	25	0	27	1.53
553162--553201	2	20.0	2	100	0	80	50	0	0	50	1.00
555697--555914	57	3.8	57	93	0	355	24	27	21	27	1.99
571061--571096	2	19.5	2	83	16	51	52	0	0	47	1.00
571090--571146	3	18.7	3	85	10	71	38	0	0	61	0.96
571098--571146	17	2.9	17	88	11	75	36	0	0	63	0.95
572563--572598	18	2.0	18	100	0	72	22	33	27	16	1.95
574336--574363	6	4.7	6	100	0	56	28	0	0	71	0.86
576565--576603	19	2.1	19	85	9	53	38	15	15	30	1.88
578074--578828	147	5.1	147	89	0	1161	35	22	16	25	1.95
578928--579064	55	2.5	55	93	0	229	35	23	17	24	1.96
578811--579185	176	2.1	176	87	0	534	34	24	17	24	1.95
578983--579378	121	3.3	121	88	0	560	34	23	16	24	1.95
579433--579928	86	5.8	86	85	2	570	35	21	17	25	1.95
579434--579903	257	1.8	257	83	1	629	36	21	17	24	1.94
581409--581447	20	2.0	19	95	5	69	30	0	0	69	0.89
588898--588942	18	2.5	18	100	0	90	20	53	22	4	1.63
595427--595463	19	2.0	20	89	10	60	70	5	5	18	1.27
595634--595676	21	2.0	21	100	0	86	62	9	0	27	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596575--596607	17	1.9	17	93	0	57	3	18	0	78	0.87
600151--600219	23	3.0	22	83	8	93	31	26	24	17	1.97
601617--601673	30	1.9	30	100	0	114	35	26	14	24	1.93
605072--605140	23	3.0	23	78	0	84	33	24	23	18	1.97
605356--605418	23	2.8	23	92	2	101	33	23	11	31	1.90
605555--605598	2	22.0	2	100	0	88	50	0	0	50	1.00
612174--612306	67	2.0	67	86	5	189	24	15	13	45	1.83
614807--614994	94	2.0	94	93	0	322	22	13	16	47	1.82
617640--617671	15	2.1	15	94	0	55	25	0	6	68	1.12
622978--623021	20	2.1	22	88	12	67	2	22	4	70	1.17
623838--624192	131	2.7	133	83	4	439	25	17	30	26	1.98
624512--624638	37	3.6	36	69	14	104	41	14	15	27	1.87
624380--624691	65	4.7	66	84	5	360	40	13	16	28	1.87
624646--624791	37	3.9	36	79	8	141	41	12	16	30	1.85
625395--625447	23	2.3	23	83	0	70	28	26	26	18	1.98
626053--626089	19	1.9	19	88	0	56	10	29	35	24	1.89
626117--626159	21	2.0	21	81	0	50	18	20	25	34	1.96
632141--632195	23	2.4	24	81	9	69	29	25	23	21	1.99
632152--632201	23	2.2	23	85	0	64	26	22	30	22	1.99
632818--632854	19	1.9	19	88	0	56	10	29	35	24	1.89
632882--632924	21	2.0	21	90	0	68	16	23	27	32	1.96
633861--633932	36	2.0	36	100	0	144	25	25	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634899--634990	23	3.8	23	74	18	71	4	10	7	77	1.12
634899--634990	24	3.8	24	75	16	73	4	10	7	77	1.12
634930--634983	12	4.4	12	84	13	74	3	9	3	83	0.89
634908--634983	37	2.0	40	87	7	113	2	11	6	78	1.03
634932--634990	23	2.5	24	86	8	77	6	8	5	79	1.04
634956--635003	23	2.0	23	84	4	60	8	8	10	72	1.27
635287--635325	19	2.1	19	95	0	69	46	2	15	35	1.60
642339--642394	29	1.9	29	100	0	112	30	21	26	21	1.98
645061--645108	21	2.3	21	92	0	78	16	12	25	45	1.82
646534--646615	11	7.3	11	77	9	69	34	17	17	31	1.93
646542--646593	23	2.3	23	86	3	79	30	19	17	32	1.95
646540--646615	34	2.3	33	90	6	118	32	18	17	31	1.94
648006--648058	21	2.5	20	79	8	61	47	28	0	24	1.52
648900--648925	11	2.4	11	100	0	52	30	0	0	69	0.89
649490--649530	19	2.2	19	90	0	64	36	19	12	31	1.89
649640--649676	19	1.9	19	89	10	58	67	0	0	32	0.91
649849--649921	16	4.7	16	86	3	87	58	17	9	13	1.61
651018--651066	14	3.8	14	76	20	61	55	22	12	10	1.66
651011--651068	24	2.4	24	97	0	107	55	22	12	10	1.66
651956--652119	43	3.8	43	79	5	145	27	15	23	32	1.95
652088--652276	44	4.3	44	80	5	197	29	19	25	25	1.98
662616--662718	42	2.5	43	81	7	115	33	20	17	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664314--664434	42	2.9	41	75	8	127	25	19	23	32	1.97
664335--664434	42	2.4	42	81	3	130	22	19	25	34	1.96
664301--664484	83	2.2	82	78	6	185	25	19	22	33	1.97
666297--666333	2	18.5	2	100	0	74	48	0	0	51	1.00
669389--669438	21	2.4	21	93	0	82	44	10	26	20	1.82
672138--672418	140	2.0	140	99	0	553	37	29	9	23	1.86
673204--673242	17	2.3	17	100	0	78	28	38	15	17	1.91
673998--674104	44	2.4	43	77	9	110	59	14	10	14	1.60
678586--678638	24	2.2	24	82	0	61	66	15	7	11	1.44
680153--680203	7	7.0	7	80	12	59	15	3	0	80	0.86
680796--680835	19	2.1	19	100	0	80	27	42	5	25	1.75
686602--686635	14	2.4	14	100	0	68	47	5	17	29	1.71
688353--688378	5	5.2	5	100	0	52	23	57	19	0	1.40
689395--689442	19	2.5	19	86	10	62	29	12	2	56	1.48
691705--691740	2	18.5	2	94	5	65	47	0	0	52	1.00
695593--695653	21	3.2	21	65	29	64	31	4	21	42	1.74
695587--695701	35	3.3	35	92	3	187	29	5	20	45	1.72
698070--698094	6	4.2	6	100	0	50	16	36	16	32	1.90
741188--741231	23	1.9	23	100	0	88	9	22	36	31	1.86
741291--741321	3	10.3	3	100	0	62	32	0	0	67	0.91
753962--754076	57	2.0	57	100	0	230	27	8	24	39	1.85
760369--760422	25	2.1	26	89	3	83	5	3	18	72	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
762011--762234	64	3.5	64	83	2	245	32	21	19	26	1.97
762542--762577	12	3.0	12	87	0	54	30	8	25	36	1.85
762716--762748	15	2.2	15	94	0	57	15	21	33	30	1.94
768924--769147	64	3.5	64	80	2	227	33	20	18	27	1.96
769623--769655	15	2.2	15	100	0	66	15	18	33	33	1.92
770637--770832	47	4.2	47	97	1	358	23	22	10	42	1.84
770678--770925	20	10.7	23	73	22	166	23	23	10	42	1.85
770746--770904	73	2.2	73	94	2	275	24	22	10	43	1.83
770820--770936	46	2.5	46	95	0	216	23	21	10	44	1.83
771533--771597	17	3.8	17	95	0	121	30	18	10	40	1.85
772582--772612	2	15.5	2	100	0	62	48	0	0	51	1.00
775543--775614	32	2.4	30	79	9	83	41	0	9	48	1.36
776240--776272	11	3.1	11	91	4	50	30	12	6	51	1.63
779049--779156	30	3.6	30	72	5	101	26	17	18	37	1.93
783458--783576	30	4.0	30	80	2	132	26	20	21	31	1.98
786633--786749	23	5.1	23	73	6	94	36	21	20	21	1.95
786633--786749	46	2.5	46	72	8	112	36	21	20	21	1.95
793667--793770	23	4.5	23	79	2	102	34	24	23	18	1.96
793852--793907	16	3.6	16	85	7	71	37	19	10	32	1.86
795865--795911	20	2.3	20	81	0	58	44	23	21	10	1.83
807468--807542	7	10.4	7	72	16	55	77	6	14	1	1.04
807454--807511	30	2.0	28	83	10	71	74	6	18	0	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
807468--807542	24	3.4	23	83	10	70	77	6	14	1	1.04
807468--807528	12	5.0	12	74	21	56	78	6	14	0	0.94
807467--807542	20	3.5	21	82	10	91	76	7	14	1	1.07
808144--808187	22	2.0	22	90	0	70	40	22	11	25	1.87
809809--809958	43	3.5	44	65	18	116	34	24	20	20	1.97
809815--809994	88	2.0	88	97	0	342	33	25	20	21	1.97
809729--810257	194	2.6	200	89	5	773	34	24	18	22	1.96
809903--810257	106	3.3	106	91	0	584	34	24	18	22	1.96
815017--815127	35	3.1	35	89	6	161	44	19	4	31	1.71
815016--815161	35	4.1	36	82	13	135	41	19	6	32	1.76

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   39   40   41   42   43   44   45   46   47   48   
          49   50   51