genome.fa.s9462.2.7.7.80.10.50.1000.75.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  75  of  91  ( 10815 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)
17071646--17071683	18	2.1	19	85	14	53	39	10	21	28	1.86
17075868--17076356	37	13.7	36	70	13	280	38	9	20	31	1.85
17075868--17076356	34	13.8	34	68	14	211	38	9	20	31	1.85
17075868--17076299	71	6.1	71	78	8	407	37	9	20	31	1.86
17076247--17076314	17	4.1	17	70	10	52	44	5	14	35	1.70
17076256--17076362	36	3.0	36	84	2	126	43	6	14	34	1.72
17075978--17076354	71	5.2	70	80	6	294	39	9	19	31	1.84
17075978--17076356	108	3.5	105	71	11	302	39	9	19	31	1.83
17083234--17083339	52	2.0	52	98	0	203	36	16	16	30	1.91
17083950--17083983	2	17.0	2	100	0	68	50	0	0	50	1.00
17085013--17085079	23	2.9	23	84	0	89	19	26	23	29	1.98
17085192--17085267	30	2.5	30	93	2	125	35	2	21	40	1.67
17085211--17085263	16	3.4	16	76	10	65	35	3	20	39	1.71
17089325--17089360	2	18.0	2	94	0	63	2	0	47	50	1.15
17095957--17096021	3	21.7	3	93	0	103	63	1	3	32	1.19
17098328--17098398	23	3.0	23	72	13	65	45	5	4	45	1.46
17138591--17138669	23	3.4	23	75	13	65	44	3	0	51	1.19
17138659--17138711	26	2.0	25	86	13	72	33	3	0	62	1.13
17138695--17138727	16	2.1	16	88	5	50	33	3	0	63	1.10
17138751--17138791	12	3.4	12	82	0	55	63	0	0	36	0.95
17138797--17138845	20	2.4	22	77	19	61	57	0	4	38	1.18
17139578--17139643	31	2.2	31	86	7	93	46	6	6	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17139668--17139878	38	5.6	38	77	16	215	43	2	9	44	1.50
17139682--17139798	37	3.4	34	89	5	155	41	3	11	43	1.57
17139678--17139884	114	1.8	111	87	8	310	43	2	10	43	1.51
17139839--17139898	30	2.0	30	87	6	86	43	5	8	43	1.56
17141319--17141362	22	2.0	22	95	4	81	20	9	0	70	1.14
17141401--17141442	13	3.2	13	77	12	50	16	4	2	76	1.07
17144770--17144863	3	31.7	3	87	6	138	65	1	0	32	0.99
17145216--17145663	123	3.7	122	90	1	666	25	19	14	40	1.89
17146052--17146114	22	2.9	22	82	0	72	34	12	15	36	1.86
17147048--17147085	18	2.1	18	95	0	67	55	5	7	31	1.51
17154823--17154854	15	2.1	15	94	0	55	53	6	15	25	1.65
17156045--17156081	15	2.5	15	100	0	74	5	70	18	5	1.27
17160647--17160678	16	1.9	17	93	6	57	6	34	3	56	1.40
17161440--17161541	3	34.0	3	86	7	145	64	1	0	33	1.05
17162501--17162556	26	2.2	26	93	0	94	44	5	3	46	1.43
17162501--17162564	26	2.5	26	87	5	76	42	6	3	48	1.44
17169370--17169425	26	2.2	26	90	0	85	44	1	3	50	1.29
17171732--17171807	2	38.0	2	100	0	152	50	0	0	50	1.00
17182974--17183046	18	4.1	18	100	0	146	27	16	27	28	1.97
17182982--17183058	36	2.1	36	92	0	127	31	18	23	27	1.97
17199036--17199104	23	3.0	23	80	0	75	21	23	23	31	1.98
17202118--17202199	29	2.8	29	73	12	78	46	2	17	34	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17205520--17205568	21	2.3	21	100	0	98	51	8	8	32	1.61
17205615--17205656	19	2.2	19	95	0	75	38	9	19	33	1.84
17206518--17206578	22	2.8	22	92	0	104	26	22	19	31	1.98
17207901--17207926	3	8.7	3	100	0	52	65	0	34	0	0.93
17225303--17225361	21	3.0	20	85	7	84	28	10	8	52	1.64
17226024--17226094	34	2.1	33	84	2	88	36	15	25	22	1.93
17235661--17235710	23	2.2	23	85	7	66	38	8	16	38	1.78
17235757--17235830	23	3.2	23	92	0	112	36	9	18	35	1.84
17235661--17235906	110	2.2	109	91	1	393	40	11	15	33	1.82
17235858--17235917	23	2.6	23	81	0	66	40	10	16	33	1.82
17236300--17236664	111	3.3	109	87	3	502	44	11	12	32	1.77
17237109--17237444	111	3.0	111	90	0	510	44	12	10	33	1.76
17237373--17237511	72	1.9	72	91	0	224	41	12	13	31	1.83
17237501--17237739	111	2.1	112	89	0	363	44	9	12	33	1.73
17249095--17249119	12	2.1	12	100	0	50	72	8	20	0	1.10
17254256--17254311	18	3.1	17	84	5	67	44	26	10	17	1.82
17256827--17256866	21	1.9	21	94	0	71	52	2	7	37	1.43
17260640--17260698	23	2.6	23	86	0	82	23	25	25	25	2.00
17261160--17261193	13	2.6	13	95	0	59	35	14	5	44	1.70
17271836--17271876	20	2.0	21	85	4	57	41	24	0	34	1.55
17277543--17277630	18	4.9	17	83	8	95	26	32	21	19	1.97
17277543--17277630	36	2.4	36	84	3	115	26	32	21	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17287929--17288051	63	2.0	62	82	7	151	34	12	17	36	1.87
17288041--17288095	20	2.6	21	77	8	58	43	18	16	21	1.88
17300378--17300426	23	2.1	23	85	7	64	57	12	2	28	1.46
17309047--17309085	14	2.5	15	84	16	53	53	0	0	46	1.00
17310840--17310886	2	24.0	2	95	4	87	48	0	0	51	1.00
17311444--17311532	45	2.0	45	100	0	178	35	17	8	37	1.82
17312491--17312548	3	19.0	3	75	3	53	37	0	1	60	1.07
17314285--17314329	24	1.9	23	86	4	63	42	0	2	55	1.12
17314699--17314742	2	22.0	2	100	0	88	50	0	0	50	1.00
17315248--17315303	26	2.2	26	84	12	71	32	7	1	58	1.35
17317487--17317554	7	10.0	7	77	15	63	16	13	10	60	1.59
17317479--17317577	47	2.1	47	83	7	121	20	13	9	57	1.62
17320804--17320867	32	2.0	32	90	0	101	50	15	14	20	1.78
17323196--17323365	75	2.3	75	80	2	189	32	14	20	32	1.93
17324657--17324713	22	2.6	22	88	0	87	35	15	10	38	1.82
17325554--17325974	113	3.7	113	92	2	666	37	15	19	26	1.92
17325540--17326080	113	4.6	116	83	10	517	39	15	19	26	1.91
17326024--17326120	38	2.5	40	96	3	180	49	10	20	19	1.77
17325900--17326241	161	2.1	162	87	1	490	41	13	19	25	1.88
17325782--17326365	284	2.1	280	89	2	893	40	14	19	26	1.90
17326055--17326376	123	2.6	124	86	1	443	40	13	18	26	1.89
17326704--17326772	3	23.0	3	76	5	68	34	0	1	63	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17328060--17328084	11	2.3	11	100	0	50	20	0	0	80	0.72
17328775--17328804	2	15.0	2	100	0	60	50	0	0	50	1.00
17330074--17330114	18	2.3	18	87	8	57	78	4	14	2	1.03
17331508--17331543	15	2.4	15	95	0	63	16	22	25	36	1.94
17341319--17341379	23	2.9	21	85	11	72	22	32	26	18	1.97
17341362--17341401	21	1.9	21	84	0	53	25	37	25	12	1.91
17343335--17343376	17	2.7	15	82	13	57	14	0	28	57	1.38
17343339--17343372	17	2.0	17	94	0	59	11	0	32	55	1.36
17361306--17361893	55	10.7	55	80	5	440	31	19	20	27	1.97
17361413--17361892	164	2.9	164	77	6	416	31	19	21	28	1.97
17361369--17361893	219	2.4	218	76	7	495	32	19	20	28	1.97
17364383--17364539	65	2.4	66	82	5	194	29	19	18	32	1.96
17370323--17370401	23	3.5	22	74	19	83	25	25	22	26	2.00
17370304--17370399	44	2.2	43	85	12	126	28	23	20	27	1.99
17372755--17372797	20	2.2	20	86	0	59	34	20	13	30	1.92
17373352--17373378	2	13.5	2	100	0	54	48	0	0	51	1.00
17377722--17377764	20	2.2	20	86	0	59	34	20	13	30	1.92
17383403--17383440	18	2.1	19	90	5	60	18	7	2	71	1.23
17383410--17383451	18	2.3	18	84	8	50	23	4	2	69	1.20
17399665--17399729	20	3.2	20	89	4	87	29	21	16	32	1.96
17402362--17402389	2	14.0	2	100	0	56	50	0	0	50	1.00
17404513--17404619	8	13.4	8	77	10	112	82	1	1	14	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17404513--17404619	15	7.2	14	80	11	81	82	1	1	14	0.84
17404529--17404619	15	5.9	15	86	8	103	83	2	0	14	0.74
17404566--17404619	1	54.0	1	77	0	54	88	0	0	11	0.50
17405770--17405809	3	12.3	3	89	10	53	67	0	2	30	1.04
17406302--17406804	65	7.8	65	89	3	707	27	14	19	38	1.91
17408401--17408456	19	2.9	19	97	0	103	17	26	17	37	1.93
17408555--17408657	51	2.0	51	92	0	170	26	18	18	36	1.94
17408662--17408754	11	8.1	11	71	17	64	2	18	3	76	1.02
17408659--17408703	13	3.4	14	79	17	51	4	17	0	77	0.92
17408659--17408741	25	3.4	24	72	9	60	2	18	2	77	0.99

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   90   91