genome.fa.s1129.2.7.7.80.10.50.1000.85.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  85  of  89  ( 10573 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)
20470739--20471022	80	3.5	80	90	3	417	53	11	0	34	1.38
20470836--20471523	32	23.4	32	68	21	161	52	10	0	37	1.37
20470870--20470944	22	3.2	22	71	14	60	56	16	0	28	1.41
20470939--20470991	14	3.5	14	72	18	52	56	5	0	37	1.23
20471080--20471144	22	3.0	22	97	0	121	52	12	0	35	1.39
20471002--20471403	76	5.2	76	76	12	356	52	12	0	35	1.41
20470980--20471068	22	4.0	22	85	5	124	51	8	1	38	1.41
20471187--20471272	22	3.7	22	73	11	91	52	15	0	32	1.43
20471158--20471280	22	5.2	22	70	14	84	53	15	0	30	1.42
20471284--20471326	22	2.0	22	95	0	77	48	13	0	37	1.43
20471025--20471403	54	7.2	54	85	7	441	52	12	0	34	1.40
20471286--20471334	22	2.2	22	85	3	62	53	14	0	32	1.41
20471338--20471380	22	2.0	22	100	0	86	51	13	0	34	1.42
20471340--20471388	22	2.2	22	88	3	71	55	14	0	30	1.40
20471383--20471534	15	10.2	15	94	0	252	51	0	0	48	1.00
20476287--20476324	20	1.9	20	89	10	60	39	2	28	28	1.70
20480722--20480759	20	1.9	20	89	10	60	39	2	28	28	1.70
20481363--20481408	2	23.0	2	90	0	74	45	0	54	0	0.99
20481362--20481408	14	3.4	14	96	0	85	44	0	55	0	0.99
20484226--20484259	15	2.3	15	94	0	59	20	0	8	70	1.13
20484221--20484337	8	15.4	7	69	11	54	21	1	5	70	1.17
20484233--20484266	15	2.3	15	89	0	50	23	0	11	64	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20484268--20484348	15	5.4	14	80	14	81	24	1	4	69	1.16
20484223--20484336	23	5.1	22	70	21	69	21	1	6	70	1.19
20484280--20484347	8	7.2	9	76	20	52	22	0	5	72	1.06
20484256--20484348	30	3.0	31	85	4	127	24	2	5	67	1.22
20484223--20484389	19	8.6	18	70	15	84	22	2	7	67	1.29
20484241--20484348	23	5.0	22	74	13	84	24	1	6	67	1.24
20484268--20484366	30	3.3	30	84	7	85	24	2	6	67	1.24
20484256--20484336	4	21.0	4	75	7	78	23	2	4	69	1.21
20486112--20486152	15	2.6	16	81	14	50	78	0	7	14	0.96
20486093--20486167	12	6.0	13	71	13	50	73	0	9	17	1.09
20486500--20486548	23	2.1	24	81	11	57	57	0	8	34	1.29
20487012--20487116	37	2.8	36	84	5	138	31	15	14	39	1.87
20487848--20489537	106	16.0	107	89	2	2425	23	17	24	34	1.96
20490345--20490421	22	3.5	22	87	0	109	19	15	28	36	1.92
20490585--20490649	19	3.4	19	75	10	53	32	3	3	61	1.27
20490586--20490648	3	20.0	3	74	9	54	31	3	3	61	1.27
20491846--20491881	18	2.0	18	94	0	63	33	13	0	52	1.41
20491940--20492024	12	7.5	11	76	16	57	29	1	2	67	1.11
20491969--20492030	3	20.7	3	80	18	67	27	0	1	70	0.96
20492218--20492259	20	2.2	19	86	4	57	33	0	2	64	1.07
20493428--20493863	217	2.0	217	100	0	872	34	14	16	34	1.89
20493803--20493923	60	2.0	60	100	0	242	43	19	18	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20495305--20495387	43	1.9	44	85	2	114	28	10	21	38	1.87
20495462--20495502	6	6.0	7	81	16	50	14	14	9	60	1.57
20502662--20502816	54	2.9	54	91	0	238	36	15	22	25	1.93
20503176--20503255	22	3.6	22	68	6	72	33	11	12	42	1.78
20503915--20504373	76	6.0	76	95	0	810	22	22	21	33	1.97
20504545--20504595	16	3.0	16	76	15	57	39	1	0	58	1.09
20504529--20504594	3	21.0	3	75	9	60	33	1	1	63	1.13
20505785--20505820	18	2.0	18	100	0	72	33	11	0	55	1.35
20505898--20505962	3	22.0	3	75	20	57	30	0	1	67	1.00
20506142--20506183	20	2.2	19	86	4	57	33	0	2	64	1.07
20506915--20507261	172	2.0	173	91	3	565	25	17	20	36	1.94
20511921--20511963	10	4.6	10	77	16	56	79	0	2	18	0.85
20511974--20512010	2	18.5	2	100	0	74	51	0	0	48	1.00
20512028--20512081	21	2.8	18	81	15	56	62	1	3	31	1.23
20512028--20512082	18	2.8	19	81	8	58	63	1	3	30	1.22
20512291--20512328	19	2.0	19	85	10	51	65	0	2	31	1.06
20512844--20512948	37	2.8	36	81	5	129	31	15	14	39	1.87
20513711--20513771	28	2.2	28	90	0	95	19	14	6	59	1.58
20513814--20513864	18	2.9	17	77	5	57	37	5	3	52	1.44
20516911--20516952	2	21.0	2	100	0	84	50	0	0	50	1.00
20517123--20517172	23	2.2	23	100	0	100	54	12	18	16	1.72
20537249--20537274	13	2.0	13	100	0	52	30	46	0	23	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20544054--20544562	127	4.0	127	96	0	937	38	25	12	24	1.90
20547414--20547459	19	2.4	19	92	0	74	47	10	17	23	1.79
20548128--20548153	12	2.2	12	100	0	52	38	26	7	26	1.83
20555647--20555688	13	3.4	12	87	6	50	33	19	14	33	1.91
20555654--20555688	13	2.7	13	95	0	61	34	20	11	34	1.88
20555851--20555893	2	21.5	2	100	0	86	48	0	0	51	1.00
20563650--20563752	32	3.3	31	79	1	107	40	15	17	26	1.89
20567022--20567219	36	5.4	36	92	5	319	45	20	15	18	1.85
20567424--20567467	3	15.3	3	82	17	58	34	0	0	65	0.93
20577357--20577518	64	2.5	64	83	2	200	30	16	22	29	1.96
20578573--20578624	21	2.5	21	96	0	95	30	15	38	15	1.88
20586015--20586193	64	2.8	64	82	3	218	29	17	24	29	1.97
20592606--20592643	15	2.5	15	87	8	51	18	34	10	36	1.85
20593129--20593228	45	2.2	45	96	0	182	36	17	20	27	1.94
20594113--20594152	21	1.9	21	89	0	62	32	7	20	40	1.80
20597065--20597134	21	3.3	20	84	4	77	22	15	24	37	1.93
20601260--20601310	22	2.2	24	83	16	63	29	13	9	47	1.75
20603428--20603499	26	2.7	27	83	12	96	25	0	2	72	0.98
20603416--20603500	26	3.2	26	77	14	93	24	0	3	71	1.01
20603404--20603515	27	4.0	28	71	21	83	25	0	4	69	1.12
20608683--20608720	20	1.9	20	94	0	67	26	18	28	26	1.98
20613373--20613409	17	2.2	17	95	0	65	16	18	16	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20615310--20615338	3	9.7	3	100	0	58	31	0	34	34	1.58
20619541--20619584	21	2.1	21	91	4	72	34	18	25	22	1.96
20620408--20620449	21	2.0	21	95	0	75	14	19	21	45	1.85
20627583--20627632	21	2.4	21	96	0	91	40	24	8	28	1.83
20627669--20627726	20	2.9	20	97	0	107	36	24	13	25	1.92
20631968--20632013	21	2.2	21	88	0	65	34	8	26	30	1.86
20636047--20636099	23	2.3	23	87	6	72	28	20	32	18	1.97
20642169--20642349	60	3.0	59	88	4	254	35	12	22	28	1.91
20643622--20643849	38	5.9	38	75	9	167	29	13	13	44	1.81
20643785--20643863	37	2.1	38	81	11	92	27	10	16	45	1.79
20645473--20645549	5	16.0	5	74	17	65	45	1	0	53	1.08
20645487--20645545	25	2.5	23	83	5	73	49	1	0	49	1.11
20645434--20645585	64	2.3	70	80	12	169	46	1	1	50	1.21
20645907--20645982	29	2.5	31	80	14	88	34	13	7	44	1.72
20647533--20647632	28	3.3	29	87	9	130	13	8	36	43	1.73
20647533--20647642	32	3.6	32	86	10	158	11	9	36	42	1.73
20648256--20648342	44	2.1	39	81	12	95	35	24	14	25	1.94
20648148--20648386	114	2.1	114	97	0	451	35	25	12	26	1.91
20651362--20651408	24	2.0	24	91	8	78	34	38	8	19	1.82
20663595--20663620	5	5.2	5	100	0	52	0	0	19	80	0.71
20667290--20667477	39	4.9	38	81	5	200	29	12	13	44	1.81
20667407--20667468	19	3.3	19	68	8	54	25	12	17	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20671608--20671831	96	2.3	96	83	2	272	34	15	21	28	1.94
20672163--20672267	55	1.9	56	88	5	160	35	12	19	33	1.89
20672491--20672665	68	2.6	68	84	1	217	35	12	21	30	1.91
20672551--20673182	150	4.3	150	80	9	721	34	12	22	30	1.92
20672696--20673101	68	5.8	67	71	14	244	32	13	23	30	1.93
20672846--20673101	136	1.9	136	86	1	370	32	14	23	29	1.94
20672846--20673101	68	3.8	68	87	1	325	32	14	23	29	1.94
20673056--20673292	81	2.9	81	91	0	357	39	11	22	26	1.88
20673346--20673372	2	13.5	2	100	0	54	51	0	0	48	1.00
20673435--20673552	45	2.6	45	94	0	200	44	10	22	22	1.82

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89