genome.fa.s1129.2.7.7.80.10.50.1000.83.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  83  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)
20023465--20023535	22	3.5	22	72	21	64	36	7	1	54	1.36
20023526--20023591	2	33.5	2	96	3	125	48	0	0	51	1.00
20023526--20023703	42	4.2	42	77	14	136	43	6	1	48	1.36
20023643--20023824	26	7.6	25	75	18	147	41	8	1	48	1.41
20023601--20023815	70	3.0	72	86	8	291	40	9	1	48	1.44
20023695--20023744	20	2.6	18	82	14	64	40	8	0	52	1.31
20023667--20023824	45	3.4	47	78	16	163	41	9	0	48	1.40
20023821--20023854	15	2.2	16	94	5	61	82	11	0	5	0.83
20023827--20023860	15	2.3	15	89	0	50	76	14	5	2	1.09
20026808--20026867	18	3.3	18	80	0	84	60	15	8	16	1.58
20026905--20026956	24	2.2	24	92	0	86	48	15	5	30	1.68
20027371--20027406	18	2.0	18	100	0	72	38	22	22	16	1.93
20028315--20028526	93	2.3	92	88	6	308	38	16	10	33	1.84
20029014--20029373	41	8.8	41	78	7	268	37	20	11	31	1.87
20029015--20029373	82	4.4	82	81	4	300	37	19	11	31	1.87
20029024--20029373	123	2.8	122	77	5	328	37	20	10	31	1.87
20037531--20037572	20	2.1	20	86	0	57	30	2	28	38	1.70
20042670--20042719	21	2.4	21	89	0	73	16	30	30	24	1.96
20043784--20043854	24	3.0	24	91	0	97	19	12	15	52	1.75
20043789--20043872	24	3.5	24	86	0	87	19	15	15	50	1.79
20047111--20047172	27	2.3	27	78	13	65	45	17	11	25	1.82
20047647--20047721	24	3.1	24	79	7	80	18	16	12	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20056518--20056573	16	3.4	16	90	2	85	58	16	1	23	1.47
20057682--20057880	55	3.6	54	80	8	215	30	23	15	30	1.95
20057682--20057982	51	5.6	56	83	6	234	29	23	15	30	1.96
20057791--20058102	51	6.0	51	91	1	471	27	25	16	30	1.96
20057744--20058107	153	2.3	154	86	4	478	29	23	15	31	1.96
20059227--20059279	16	3.3	16	86	5	72	7	15	0	77	0.98
20059273--20059358	19	4.7	19	70	20	67	4	22	1	72	1.10
20059264--20059363	26	3.6	29	74	22	83	5	22	1	72	1.10
20059231--20059365	16	8.3	16	70	19	68	5	20	0	72	1.10
20059232--20059375	17	8.1	18	71	25	78	5	20	0	72	1.09
20071087--20071142	16	3.4	16	83	11	69	60	16	1	21	1.44
20073531--20073651	35	3.4	34	76	13	120	28	19	18	33	1.96
20077862--20077910	24	2.0	24	100	0	98	44	20	12	22	1.84
20078019--20078058	18	2.2	18	95	0	71	42	40	2	15	1.60
20084620--20084650	2	15.5	2	100	0	62	48	0	0	51	1.00
20088983--20089041	30	1.9	31	86	10	86	23	22	32	22	1.98
20089000--20089059	30	2.0	30	83	0	75	21	25	33	20	1.97
20091517--20091575	25	2.4	25	97	0	109	23	27	16	32	1.96
20098332--20098370	20	2.0	20	94	0	69	35	20	10	33	1.86
20099054--20099225	86	2.0	84	88	2	254	27	13	29	29	1.95
20099801--20099865	27	2.4	28	94	2	114	44	35	7	12	1.71
20099794--20099873	27	2.6	31	75	22	87	45	36	8	10	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20099873--20099940	35	2.0	35	91	2	111	39	23	5	30	1.78
20099931--20100004	32	2.3	32	88	6	114	45	32	6	14	1.71
20099931--20100015	32	2.6	32	85	7	109	43	35	7	14	1.72
20100797--20100827	2	15.5	2	100	0	62	51	0	0	48	1.00
20101349--20101436	2	46.0	2	80	8	76	45	0	2	52	1.13
20105472--20105534	26	2.4	26	91	0	99	14	9	20	55	1.67
20110719--20110747	14	2.0	15	93	6	51	20	0	31	48	1.50
20113312--20113377	30	2.2	30	91	0	114	19	25	24	30	1.98
20116109--20116442	43	7.7	43	90	1	481	17	21	24	36	1.94
20116109--20116442	130	2.6	129	91	2	510	17	21	24	36	1.94
20121214--20121469	43	5.9	43	88	1	352	18	20	24	36	1.95
20122464--20122525	17	3.6	17	86	6	72	35	14	9	40	1.79
20127700--20127779	20	3.8	20	72	15	63	16	23	33	26	1.95
20131591--20131630	21	1.9	21	85	10	55	35	10	2	52	1.48
20136723--20136796	26	2.8	26	97	0	139	43	4	17	35	1.68
20154067--20154108	19	2.3	18	84	8	57	23	16	35	23	1.95
20156247--20156281	13	2.7	13	91	8	54	42	2	14	40	1.60
20160162--20160238	9	8.4	9	78	13	59	71	1	6	20	1.16
20160159--20160215	22	2.7	20	82	17	71	68	1	1	28	1.09
20160522--20160700	89	2.0	89	100	0	358	35	39	7	17	1.78
20161358--20161440	5	17.4	5	73	24	65	60	1	1	37	1.12
20161348--20161413	21	3.2	21	73	26	61	66	1	0	31	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20161349--20161440	8	10.3	9	72	18	59	61	1	1	35	1.10
20161360--20161464	25	3.9	28	72	17	82	60	1	0	37	1.15
20161398--20161445	20	2.4	20	83	16	64	54	0	2	43	1.12
20161349--20161438	32	2.7	35	76	13	91	62	1	1	35	1.10
20161532--20161664	36	3.8	35	83	11	157	42	9	6	41	1.62
20161532--20161664	73	1.9	69	84	9	178	42	9	6	41	1.62
20161631--20161687	21	2.6	23	80	5	64	42	10	5	42	1.62
20161699--20161781	39	2.2	37	85	12	107	42	8	3	45	1.52
20162939--20162973	14	2.6	14	95	4	63	40	0	8	51	1.33
20166584--20166685	54	1.9	53	90	5	163	24	22	12	40	1.89
20166583--20166697	54	2.2	51	85	4	158	24	20	11	43	1.85
20168576--20168604	8	3.8	8	95	4	51	82	6	10	0	0.83
20169575--20169620	16	2.9	16	80	6	58	17	0	6	76	1.00
20169652--20170023	97	3.8	96	83	4	404	24	18	17	39	1.92
20170267--20170302	14	2.6	14	90	0	54	25	13	2	58	1.49
20170413--20170766	177	2.0	177	100	0	708	30	10	13	45	1.78
20175583--20175851	96	2.8	96	89	4	389	31	16	10	41	1.82
20177747--20177800	5	10.6	5	78	9	56	14	1	5	77	1.03
20177832--20178180	96	3.6	96	85	3	329	25	18	16	40	1.90
20177917--20178199	96	2.9	97	87	4	392	24	17	16	41	1.90
20181789--20181824	19	1.9	18	88	5	54	27	0	2	69	1.02
20188343--20188370	14	2.0	14	100	0	56	42	0	14	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20191270--20191342	17	4.2	17	82	3	83	39	9	13	36	1.78
20193832--20194269	182	2.4	180	80	7	467	42	10	11	36	1.75
20194183--20194935	416	1.8	415	87	2	1118	38	9	8	43	1.68
20198666--20198719	17	3.2	16	82	12	65	9	1	5	83	0.88
20198683--20198712	8	3.6	8	95	4	51	10	0	10	80	0.92
20198665--20198712	9	5.8	8	83	13	53	10	2	6	81	0.95
20200191--20200262	17	4.2	17	82	3	81	40	6	13	38	1.72
20200191--20200262	34	2.1	35	86	2	101	40	6	13	38	1.72
20202219--20202308	29	3.0	29	74	4	90	31	14	5	48	1.66
20203963--20204021	3	19.7	3	100	0	118	0	33	0	66	0.92
20206657--20206725	27	2.5	28	76	17	74	46	0	4	49	1.21
20207797--20207833	12	3.0	13	84	11	51	27	0	0	72	0.84
20207958--20208033	31	2.4	33	82	10	88	50	3	19	26	1.65
20207958--20208046	31	2.8	32	81	5	83	49	3	20	26	1.64
20215064--20215100	2	18.5	2	100	0	74	51	0	0	48	1.00
20216006--20216036	15	2.1	15	93	0	53	25	19	12	41	1.87
20217366--20217407	18	2.3	19	76	12	52	71	2	21	4	1.16
20217883--20217927	19	2.5	17	89	10	72	51	2	13	33	1.53
20227093--20227146	26	2.1	26	85	0	72	33	3	16	46	1.65
20228119--20228159	16	2.6	16	100	0	82	36	24	24	14	1.93
20228119--20228159	7	5.0	9	77	22	54	36	24	24	14	1.93
20229597--20229923	21	15.8	20	88	3	354	21	22	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20229597--20229920	63	5.2	62	88	3	447	21	22	23	33	1.98
20229597--20229920	42	7.8	42	90	2	467	21	22	23	33	1.98
20230029--20230059	6	5.2	6	92	0	53	38	48	12	0	1.42
20230003--20230034	16	2.0	16	100	0	64	31	31	18	18	1.95
20230534--20230558	6	4.2	6	100	0	50	0	16	48	36	1.46
20230645--20230691	21	2.2	21	92	0	76	29	21	25	23	1.99
20230828--20230906	41	2.0	40	85	7	106	27	27	13	30	1.95
20237028--20237071	23	1.9	23	95	0	79	25	27	22	25	2.00
20237065--20237113	21	2.3	21	92	0	80	32	30	10	26	1.89
20237247--20237328	21	3.9	21	91	0	137	30	19	10	39	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   79   80   
          81   82   83   84   85   86   87   88   89