genome.fa.s1129.2.7.7.80.10.50.1000.54.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  54  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)
12303921--12304008	36	2.5	36	77	1	88	50	2	4	43	1.35
12303891--12304153	64	4.0	64	76	13	255	47	2	6	42	1.43
12304068--12304111	22	2.0	22	90	0	70	50	2	6	40	1.42
12304090--12304277	42	4.5	41	87	5	236	48	3	4	43	1.42
12303991--12304195	106	1.9	107	88	3	306	48	3	6	41	1.46
12304201--12304278	14	5.8	13	73	11	50	52	2	1	43	1.23
12306917--12307375	14	33.4	14	65	15	104	42	6	3	47	1.45
12306903--12307380	42	11.3	42	82	8	366	42	6	3	48	1.44
12306987--12307190	106	1.9	106	89	2	320	41	6	3	47	1.48
12307071--12307237	22	8.0	22	67	23	101	41	6	2	48	1.44
12307093--12307288	81	2.4	83	89	2	288	42	6	3	47	1.45
12307221--12307358	70	2.0	70	92	0	231	42	7	2	47	1.46
12306914--12307376	28	16.9	27	69	14	191	42	6	3	48	1.44
12309419--12309443	13	1.9	13	100	0	50	56	16	4	24	1.57
12309709--12309734	13	2.0	13	100	0	52	53	23	0	23	1.46
12310117--12310160	20	2.2	20	87	0	61	20	43	13	22	1.87
12311946--12312053	4	25.8	4	75	10	51	73	3	6	16	1.19
12311971--12312054	5	17.6	5	83	8	54	77	4	2	15	1.04
12311971--12312054	9	9.3	9	80	15	63	77	4	2	15	1.04
12313158--12313206	3	16.0	3	79	12	55	69	0	0	30	0.89
12313158--12313209	13	4.2	13	82	7	72	69	0	0	30	0.89
12313577--12314352	36	22.1	36	67	20	342	42	12	18	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12313593--12313677	42	2.0	42	93	0	143	48	12	18	20	1.81
12313691--12313924	65	3.4	66	68	20	190	42	13	17	26	1.86
12313609--12313923	144	2.2	144	95	0	567	43	13	17	24	1.86
12313756--12313855	37	2.5	39	80	7	105	43	16	21	20	1.88
12313791--12314026	102	2.3	102	99	0	463	41	12	18	27	1.86
12313893--12314234	136	2.5	137	90	1	542	42	12	18	26	1.86
12313995--12314352	174	2.1	172	88	1	527	41	12	18	27	1.86
12314389--12314629	124	1.9	124	88	0	356	23	18	25	33	1.97
12314733--12314846	43	2.6	44	81	5	124	24	16	25	33	1.96
12314774--12314895	43	2.8	43	86	2	156	22	16	27	33	1.95
12316485--12316531	23	2.1	21	84	7	58	4	14	2	78	0.99
12318810--12318970	64	2.5	65	81	9	179	32	19	24	23	1.98
12318960--12319038	24	3.5	24	91	6	121	34	18	21	25	1.96
12319328--12319367	18	2.4	16	87	8	53	37	5	17	40	1.72
12319328--12319368	16	2.4	18	88	8	59	36	4	17	41	1.71
12319816--12319896	32	2.5	34	78	13	82	33	0	16	50	1.45
12321722--12321769	5	9.8	5	95	4	89	81	0	0	18	0.70
12323840--12323903	33	1.9	33	96	0	119	50	15	6	28	1.68
12326987--12327019	15	2.2	15	94	0	57	30	33	21	15	1.94
12327104--12327177	29	2.6	29	97	2	141	18	21	16	43	1.88
12327524--12327684	64	2.5	64	82	2	198	26	19	22	32	1.97
12327651--12327702	19	2.7	19	96	0	95	26	25	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12327587--12327748	83	2.0	83	85	4	220	27	20	19	32	1.97
12333894--12333941	15	3.2	15	90	0	78	31	31	20	16	1.95
12334025--12334097	28	2.6	28	97	2	137	19	21	15	43	1.87
12334444--12334669	64	3.5	64	80	4	188	27	19	20	32	1.97
12338220--12338293	30	2.5	30	82	2	96	39	9	6	44	1.63
12340246--12340712	231	2.0	231	95	0	835	42	10	13	34	1.78
12341964--12341990	11	2.5	11	100	0	54	40	18	22	18	1.91
12346359--12346820	229	2.0	233	91	3	754	37	10	11	40	1.76
12347476--12347509	3	11.3	3	93	0	59	64	35	0	0	0.94
12347646--12347680	4	8.8	4	100	0	70	74	0	0	25	0.82
12347691--12347715	13	1.9	13	100	0	50	24	24	12	40	1.88
12353501--12353538	20	1.9	20	94	0	67	36	28	13	21	1.91
12353528--12353578	20	2.5	20	71	9	50	37	19	15	27	1.92
12365166--12365467	45	6.7	45	88	1	410	40	12	23	23	1.89
12371452--12371489	20	1.9	20	100	0	76	31	15	36	15	1.90
12371526--12371597	19	3.5	20	76	9	74	29	13	27	29	1.95
12372851--12372898	20	2.5	20	82	3	62	25	25	18	31	1.98
12373075--12373126	21	2.5	21	96	0	95	26	15	23	34	1.94
12377788--12377837	20	2.4	21	80	12	59	32	10	30	28	1.89
12380661--12380769	30	3.6	30	92	1	182	27	12	24	34	1.92
12380661--12380794	30	4.5	31	87	5	143	28	14	20	36	1.92
12380661--12380793	60	2.2	60	85	5	171	28	13	21	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12381442--12381543	31	3.4	31	72	14	104	33	23	4	38	1.76
12387686--12387726	10	4.2	10	87	3	57	0	17	17	65	1.27
12388385--12388442	14	4.1	14	79	18	66	39	1	0	58	1.08
12388390--12388444	2	30.5	2	74	20	50	41	1	0	56	1.10
12388342--12388444	25	4.2	25	71	9	79	35	2	0	61	1.11
12388635--12388679	18	2.6	17	83	13	56	15	13	0	71	1.15
12388633--12388679	17	2.7	17	81	12	60	14	12	0	72	1.13
12388741--12388805	26	2.6	25	69	11	60	13	4	6	75	1.15
12388740--12388778	19	2.2	17	86	9	51	12	0	7	79	0.93
12391897--12391954	27	2.2	26	85	8	82	77	5	15	1	1.02
12391897--12391960	12	5.0	13	80	16	71	76	4	17	1	1.03
12391910--12391961	27	2.0	25	92	7	86	75	3	17	3	1.11
12391897--12391961	26	2.5	26	85	9	89	75	4	16	3	1.10
12392033--12392170	69	2.0	69	94	0	240	37	22	13	26	1.91
12393003--12393074	37	1.9	37	88	0	108	26	20	13	38	1.90
12393090--12393180	36	2.5	36	89	0	146	29	21	10	37	1.88
12393168--12393237	29	2.4	29	97	0	131	38	4	11	45	1.60
12393178--12393230	15	3.6	15	71	5	54	32	1	13	52	1.51
12393226--12393344	36	3.3	36	82	4	141	27	18	14	39	1.89
12393302--12393475	65	2.6	64	82	8	206	33	21	9	36	1.85
12393302--12393473	67	2.6	67	84	5	190	32	21	9	36	1.85
12394193--12394445	110	2.3	108	84	6	309	33	24	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12395873--12395919	2	24.0	2	81	12	53	42	4	2	51	1.33
12395924--12396014	39	2.3	40	83	7	114	28	7	1	62	1.30
12396175--12396222	18	2.7	17	78	15	53	14	12	0	72	1.11
12396265--12396299	10	3.6	10	92	3	54	20	8	0	71	1.11
12396286--12396347	26	2.4	26	79	12	67	12	6	6	74	1.21
12399797--12399837	20	2.0	20	85	0	55	29	12	24	34	1.91
12405595--12405644	19	2.5	19	77	6	55	12	2	4	82	0.90
12409451--12409498	24	2.0	23	88	4	69	62	12	18	6	1.50
12413333--12413377	23	2.0	23	86	0	63	64	13	13	8	1.49
12417005--12417047	22	2.1	20	87	12	61	58	13	20	6	1.59
12426113--12426160	24	2.0	23	88	4	69	62	12	18	6	1.50
12430001--12430048	24	2.0	23	88	4	69	62	12	18	6	1.50
12442251--12443766	511	3.0	503	93	1	2640	29	21	8	39	1.84
12443970--12444015	23	1.9	23	82	8	56	43	21	0	34	1.53
12456260--12456328	6	11.5	6	86	6	68	73	0	26	0	0.83
12456251--12456334	20	4.0	20	71	15	71	75	0	25	0	0.81
12456244--12456334	27	3.2	27	73	21	78	74	0	24	1	0.88
12456253--12456342	32	2.8	31	76	14	103	74	0	24	1	0.89
12457080--12457159	36	2.3	33	80	18	83	61	11	22	5	1.49
12458065--12458126	2	30.5	2	96	3	115	48	0	1	50	1.10
12469475--12469524	18	2.7	18	90	3	73	32	8	16	44	1.76
12470092--12470158	33	2.0	33	100	0	134	46	23	5	23	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12470468--12470501	2	17.5	2	93	6	61	50	0	0	50	1.00
12475222--12475269	17	2.8	17	84	6	53	56	10	12	20	1.65
12475252--12475328	38	2.0	39	85	7	104	54	11	15	18	1.70
12479966--12480129	45	3.7	45	88	2	242	40	7	21	31	1.80
12482969--12483027	16	3.6	15	77	18	55	83	1	11	3	0.85
12482979--12483037	9	6.8	9	76	7	68	84	0	11	3	0.73
12482972--12483037	17	3.9	16	77	13	69	84	1	10	3	0.79
12482969--12483036	25	2.7	24	82	8	82	83	1	11	2	0.82
12485922--12485976	20	2.8	20	82	0	65	29	12	36	21	1.91
12486420--12486561	55	2.6	55	93	0	239	30	13	18	37	1.89

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