genome.fa.s9634.2.7.7.80.10.50.1000.52.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  52  of  78  ( 9351 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)
10296953--10296987	9	3.9	9	92	0	52	82	0	5	11	0.82
10297027--10297173	9	16.6	9	66	21	55	71	2	4	21	1.17
10297027--10297173	14	10.0	14	69	24	51	71	2	4	21	1.17
10297064--10297104	22	1.9	21	95	5	73	68	0	2	29	1.03
10297064--10297114	22	2.3	22	86	6	68	66	3	1	27	1.20
10297027--10297225	23	8.6	23	67	21	87	71	2	6	20	1.17
10297134--10297208	21	4.0	20	71	15	61	73	0	8	18	1.07
10297131--10297265	50	2.7	50	80	12	129	72	0	11	16	1.11
10297203--10297260	18	3.2	18	78	4	55	74	0	13	12	1.08
10297470--10297499	8	3.8	8	95	0	51	43	0	6	50	1.28
10297520--10297607	3	28.7	3	75	17	58	65	0	3	30	1.09
10298848--10298885	19	2.0	20	84	5	51	39	2	7	50	1.46
10299949--10299977	6	4.8	6	100	0	58	34	0	13	51	1.42
10301065--10301161	21	4.6	21	81	0	104	40	14	14	30	1.86
10301065--10301159	42	2.3	41	83	5	118	41	14	13	30	1.85
10302101--10302197	51	1.9	51	82	0	122	27	13	13	45	1.81
10302100--10302208	51	2.1	51	79	0	119	26	11	14	46	1.79
10303626--10303673	21	2.3	21	85	0	60	45	10	12	31	1.76
10303640--10303680	21	2.0	21	85	0	55	43	12	14	29	1.82
10304662--10305004	111	3.1	111	88	1	483	32	17	24	25	1.97
10306937--10306976	19	2.0	22	85	14	59	47	5	0	47	1.24
10308894--10309022	54	2.4	52	83	8	147	46	8	1	43	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10309953--10309988	18	2.0	18	100	0	72	16	50	22	11	1.77
10309965--10310001	13	2.8	13	91	0	56	18	48	18	13	1.80
10309953--10310026	31	2.4	31	88	0	112	18	45	18	16	1.85
10311324--10311358	18	1.9	18	88	0	52	54	0	17	28	1.43
10315146--10315217	8	9.6	8	67	24	50	15	41	23	19	1.89
10315138--10315194	18	3.5	17	73	24	59	17	47	21	14	1.82
10315142--10315178	13	2.8	13	95	0	65	16	45	24	13	1.83
10315138--10315217	31	2.7	31	84	5	112	16	43	22	17	1.87
10315155--10315196	18	2.3	18	95	0	75	16	47	23	11	1.80
10315147--10315220	13	5.0	15	77	18	75	14	41	24	18	1.89
10322672--10322711	21	1.9	21	89	0	62	25	40	25	10	1.86
10328859--10328949	42	2.2	42	84	9	116	31	43	12	12	1.78
10332722--10332978	101	2.5	103	89	5	374	30	4	11	54	1.55
10335384--10335513	27	4.8	27	84	0	161	36	19	7	36	1.80
10335385--10335513	54	2.4	54	93	0	213	36	19	7	36	1.81
10338174--10338227	23	2.3	23	80	0	63	18	24	24	33	1.97
10338262--10338295	17	2.1	17	88	5	52	32	23	5	38	1.79
10345947--10345978	2	15.5	2	93	6	55	50	3	0	46	1.17
10347124--10347182	23	2.6	23	80	0	64	20	23	23	32	1.98
10350568--10350602	16	2.2	16	89	0	52	77	0	2	20	0.90
10350777--10350832	28	2.0	28	92	0	94	53	5	5	35	1.47
10351505--10351536	14	2.1	16	88	11	50	12	34	6	46	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10366570--10367726	579	2.0	577	97	0	2206	25	12	25	36	1.91
10368814--10369590	387	2.0	387	99	0	1536	33	17	20	27	1.96
10375797--10375851	20	2.8	20	94	0	92	21	30	29	18	1.97
10381140--10381214	21	3.5	20	78	8	62	24	32	22	21	1.98
10382936--10382968	17	2.0	17	94	5	59	36	0	42	21	1.53
10385163--10385244	29	2.8	29	69	14	69	60	4	14	19	1.51
10392496--10392668	3	58.0	3	66	14	81	56	4	6	32	1.45
10392587--10392678	23	4.0	23	77	14	82	55	4	5	34	1.43
10392661--10392716	23	2.5	22	85	8	69	48	3	8	39	1.52
10397632--10397662	3	10.7	3	93	6	55	35	0	0	64	0.94
10399025--10399111	30	2.9	30	84	5	86	24	11	8	56	1.61
10399047--10399126	30	2.7	30	86	0	106	25	12	11	51	1.72
10399088--10399151	30	2.1	30	85	0	83	25	17	6	51	1.68
10399102--10399193	30	3.1	30	82	3	96	19	14	7	58	1.59
10399152--10399197	24	2.0	24	86	4	67	19	6	8	65	1.43
10412355--10412419	21	3.1	22	76	8	64	78	0	13	7	0.95
10413263--10413914	105	5.9	106	88	6	738	36	16	23	23	1.94
10413585--10413916	117	2.8	116	93	1	515	37	13	24	24	1.92
10415489--10415664	30	5.9	30	74	10	101	19	11	10	58	1.61
10415577--10415663	30	2.9	30	83	6	104	17	11	8	63	1.51
10422404--10422489	20	4.3	19	77	15	75	25	30	27	16	1.97
10422950--10422978	15	1.9	15	100	0	58	37	6	0	55	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10424898--10424922	13	1.9	13	100	0	50	44	8	8	40	1.63
10425981--10426013	12	2.7	12	95	4	57	48	6	3	42	1.43
10425981--10426041	18	3.4	18	74	14	56	42	4	3	49	1.40
10426016--10426053	15	2.4	16	91	4	60	36	5	2	55	1.37
10436303--10436339	14	2.5	15	87	12	51	59	13	13	13	1.62
10437385--10437420	15	2.3	16	90	4	56	38	5	0	55	1.23
10441757--10441813	21	2.6	21	84	15	64	47	5	0	47	1.24
10442648--10443122	193	2.4	194	86	7	671	41	14	1	42	1.55
10442983--10443017	12	2.8	12	91	4	52	2	37	0	60	1.12
10443168--10443247	3	25.7	3	76	20	76	0	36	0	63	0.94
10443168--10443247	10	7.5	10	80	16	90	0	36	0	63	0.94
10443167--10443245	24	3.5	22	89	10	99	0	36	0	63	0.95
10443704--10443818	53	2.2	53	87	0	167	21	13	20	44	1.86
10444515--10444578	28	2.3	28	97	0	119	23	17	20	39	1.92
10445229--10445292	23	2.8	23	97	0	119	34	23	6	35	1.80
10445711--10445783	23	3.2	23	90	0	110	38	20	5	35	1.76
10446199--10446271	23	3.2	23	92	0	119	38	21	5	34	1.77
10446289--10446333	22	2.1	22	87	4	65	40	8	6	44	1.62
10446645--10446689	22	2.1	21	83	4	54	51	6	13	28	1.66
10446689--10446761	23	3.2	23	92	0	119	38	21	5	34	1.77
10447170--10447242	23	3.2	23	90	0	110	38	20	5	35	1.76
10447660--10447723	23	2.8	23	92	0	110	34	21	6	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10448140--10448212	23	3.2	23	90	0	110	38	20	5	35	1.76
10444826--10448636	489	7.8	489	96	1	6751	40	11	7	41	1.69
10448874--10448899	11	2.4	11	100	0	52	34	23	11	30	1.90
10449089--10449122	17	2.0	17	94	0	59	20	17	26	35	1.95
10450084--10450126	16	2.6	16	81	3	50	39	2	0	58	1.11
10456904--10456990	37	2.3	37	92	2	138	36	5	31	26	1.80
10464259--10464323	27	2.4	27	84	5	78	70	0	4	24	1.06
10465015--10465122	5	20.8	5	71	9	56	22	4	4	68	1.27
10466640--10466865	76	3.1	71	82	9	265	30	1	12	56	1.44
10467556--10467610	15	3.1	19	73	21	57	25	3	0	70	1.03
10467584--10467631	24	2.0	24	83	0	60	31	6	0	62	1.20
10471273--10471299	11	2.5	11	100	0	54	62	0	0	37	0.95
10471244--10471313	35	2.0	36	81	18	85	54	1	1	42	1.18
10476704--10476788	29	2.9	29	87	1	116	23	21	4	50	1.67
10477366--10477415	20	2.4	22	75	21	54	60	6	6	28	1.44
10479102--10479174	31	2.5	29	79	14	87	34	16	5	43	1.71
10479950--10480071	9	13.2	9	68	14	61	20	3	0	75	0.99
10479857--10480062	92	2.3	88	80	8	220	25	2	1	69	1.10
10479864--10480061	49	4.2	47	77	13	169	25	3	1	70	1.07
10479941--10480007	32	2.1	33	86	5	93	25	2	0	71	1.00
10479857--10480123	88	2.9	90	79	12	224	23	4	1	69	1.16
10479950--10480099	23	6.5	23	70	17	71	20	6	0	73	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10483185--10483233	13	3.7	14	81	13	68	77	4	16	2	1.01
10483185--10483234	26	1.9	26	92	8	84	76	4	16	4	1.10
10483306--10483443	69	2.0	69	91	0	222	37	23	14	24	1.92
10484382--10484487	32	3.3	32	82	0	113	33	13	15	38	1.86
10485064--10485386	106	3.0	106	87	0	448	33	22	19	24	1.97
10485703--10485825	47	2.5	47	84	7	149	34	17	9	37	1.83
10485801--10485888	37	2.4	37	84	1	106	26	20	14	38	1.91
10485864--10485902	15	2.6	15	87	0	51	33	20	10	35	1.86
10485917--10486004	37	2.4	36	81	3	113	27	17	11	44	1.82
10485932--10486002	37	1.9	37	91	0	115	26	18	12	42	1.86

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