genome.fa.s9462.2.7.7.80.10.50.1000.46.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  46  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)
9616501--9616560	25	2.4	25	81	10	70	73	0	5	21	1.02
9616501--9616576	25	3.1	25	75	9	68	73	0	6	19	1.04
9616759--9616784	13	2.0	13	100	0	52	69	0	7	23	1.14
9619425--9619472	2	24.5	2	91	4	80	47	2	0	50	1.12
9632558--9632638	23	3.6	22	79	9	76	33	24	27	14	1.95
9639725--9639784	31	1.9	31	86	6	86	35	23	10	31	1.88
9665204--9665257	19	2.6	21	88	8	76	38	16	16	27	1.90
9665208--9665257	22	2.5	19	87	9	64	40	18	16	26	1.90
9665612--9665795	55	3.3	56	84	6	207	39	10	15	33	1.83
9665617--9665817	110	1.8	110	80	6	246	37	10	15	35	1.83
9665979--9666517	68	8.0	68	85	3	705	31	15	25	28	1.95
9666560--9666898	45	7.5	45	88	2	484	35	12	23	29	1.91
9678598--9678666	23	3.0	23	76	0	75	20	24	23	31	1.98
9682146--9682211	24	3.0	23	77	16	68	30	18	25	25	1.98
9682976--9683036	23	2.7	23	76	0	68	18	22	27	31	1.97
9686553--9686582	2	15.0	2	100	0	60	50	0	0	50	1.00
9694648--9694801	54	2.9	54	87	0	227	34	16	12	36	1.87
9695194--9695241	20	2.5	19	86	6	62	27	31	12	29	1.93
9699847--9699905	24	2.4	25	81	13	70	40	22	16	20	1.91
9704915--9705213	54	5.5	54	91	0	490	36	17	11	35	1.86
9706981--9707083	3	33.3	3	83	5	89	28	3	5	62	1.36
9707023--9707082	16	3.8	16	84	0	84	35	1	3	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9708334--9708396	24	2.6	24	84	2	72	36	14	15	33	1.88
9711403--9712218	408	2.0	408	96	0	1488	28	15	22	33	1.95
9713406--9713441	3	12.3	3	88	5	56	63	33	0	2	1.08
9713400--9713447	20	2.4	20	96	0	87	62	29	2	6	1.31
9714687--9714911	106	2.1	109	86	10	309	37	12	8	41	1.74
9716363--9716396	16	2.1	17	88	5	52	64	0	5	29	1.17
9722554--9722626	20	3.6	20	73	23	64	30	17	27	24	1.97
9722554--9722627	22	3.7	19	75	12	69	31	17	27	24	1.97
9722506--9722720	95	2.3	95	81	4	227	33	16	23	26	1.95
9723043--9723207	59	2.8	59	83	3	201	33	13	18	34	1.90
9723594--9723720	68	1.9	68	83	0	164	33	9	25	31	1.88
9723660--9724050	80	4.9	80	86	3	527	36	12	23	27	1.91
9724083--9724150	2	34.0	2	100	0	136	50	0	0	50	1.00
9727163--9727217	25	2.2	26	83	9	69	20	5	3	70	1.22
9728030--9728088	21	2.9	21	89	2	93	38	18	11	30	1.87
9728504--9728570	17	3.9	17	84	0	80	40	8	17	32	1.81
9730259--9730305	18	2.7	18	80	9	53	44	10	8	36	1.70
9730294--9730377	17	4.8	17	66	11	53	42	14	14	28	1.84
9731012--9731053	18	2.3	18	87	0	57	69	0	9	21	1.17
9731592--9731779	75	2.6	73	89	4	274	56	13	0	29	1.42
9731661--9731770	19	5.8	19	67	12	57	56	14	0	28	1.45
9731592--9731815	75	3.1	74	83	9	271	56	12	1	29	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9733440--9733554	5	22.8	5	73	13	76	71	1	3	23	1.11
9733500--9733554	16	3.5	16	85	2	76	76	0	1	21	0.88
9739173--9739220	18	2.6	18	86	3	60	68	2	6	22	1.23
9739682--9739711	12	2.5	12	100	0	60	70	0	23	6	1.11
9739878--9739988	19	5.8	19	71	16	61	57	13	0	28	1.37
9739890--9739937	25	2.0	24	83	4	60	60	14	0	25	1.34
9739852--9740021	76	2.2	77	81	8	224	58	10	1	30	1.38
9740670--9740727	29	2.0	29	96	0	107	34	12	20	32	1.90
9742593--9742630	7	4.9	8	84	15	53	21	2	0	76	0.91
9742593--9742629	15	2.4	16	95	4	67	18	2	0	78	0.87
9744079--9744151	17	4.2	16	78	13	74	39	8	13	38	1.75
9744107--9744150	18	2.5	18	85	10	56	45	9	9	36	1.68
9746349--9746387	9	4.3	9	90	9	62	10	10	0	79	0.94
9753007--9753038	15	2.1	16	94	5	57	37	6	12	43	1.68
9754227--9754454	55	4.2	55	86	1	325	32	11	17	37	1.86
9757717--9757777	23	2.7	23	84	0	86	29	26	26	18	1.98
9758295--9758417	64	1.9	64	85	6	169	25	17	21	34	1.96
9766601--9766642	21	2.0	21	85	4	57	14	14	9	61	1.55
9767486--9767533	14	3.5	13	77	8	51	81	2	2	14	0.88
9772412--9772460	19	2.5	20	78	21	59	24	8	0	67	1.18
9772956--9773003	23	2.1	23	96	0	87	27	25	29	18	1.98
9773698--9773817	64	1.9	63	84	1	159	25	16	22	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9783798--9783871	20	3.6	21	72	13	57	36	13	21	28	1.91
9784285--9784557	55	5.0	55	90	0	404	34	9	16	39	1.81
9786957--9787038	17	4.8	17	73	13	69	39	8	17	35	1.80
9788157--9788199	18	2.4	18	80	7	52	74	2	4	18	1.10
9789089--9789133	15	3.0	15	75	12	56	28	11	8	51	1.68
9792160--9792196	16	2.3	16	100	0	74	18	18	56	5	1.60
9792302--9792379	3	26.0	3	86	0	93	57	0	0	42	0.98
9792615--9792907	112	2.6	112	90	3	441	26	18	15	39	1.90
9792848--9793510	38	17.5	38	75	14	520	25	22	10	41	1.86
9792911--9793086	19	9.3	19	64	26	52	22	25	10	41	1.86
9792736--9793288	303	1.8	303	90	4	900	24	22	11	40	1.87
9793193--9793288	19	5.1	19	67	18	74	21	25	9	43	1.82
9792964--9793477	189	2.7	189	96	2	921	26	22	10	40	1.86
9793382--9793483	19	5.4	19	68	21	79	21	25	7	45	1.79
9793420--9793485	22	3.3	22	64	24	63	19	27	7	45	1.77
9793229--9794000	336	2.3	336	82	6	895	28	19	13	37	1.90
9793229--9793997	113	6.8	113	83	6	834	28	19	13	38	1.90
9794399--9794459	22	2.8	22	87	0	86	37	14	13	34	1.85
9799277--9799303	10	2.7	10	100	0	54	0	11	0	88	0.50
9799277--9799319	12	3.9	11	88	11	54	0	16	0	83	0.64
9813935--9813984	20	2.5	20	80	6	57	56	4	0	40	1.18
9815760--9815799	18	2.2	18	86	0	53	57	5	0	37	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9817394--9817435	22	1.9	22	90	0	66	11	38	7	42	1.69
9818083--9818750	132	5.1	132	78	7	567	30	16	20	32	1.95
9821868--9821950	23	3.6	23	95	0	139	19	27	26	26	1.99
9822876--9822911	14	2.6	14	100	0	72	52	0	13	33	1.41
9825748--9825812	24	2.9	23	75	8	64	29	18	27	24	1.98
9827144--9827204	23	2.7	23	94	0	113	16	27	27	27	1.97
9828163--9828615	45	10.1	45	84	0	521	43	19	16	20	1.88
9828657--9828728	37	1.9	37	83	5	92	44	18	13	23	1.85
9830056--9830090	3	11.7	3	87	0	52	2	34	0	62	1.10
9830115--9830157	14	3.0	14	82	3	50	9	11	0	79	0.95
9830118--9830165	19	2.6	18	87	12	62	6	12	0	81	0.87
9830116--9830194	33	2.4	34	80	18	94	6	12	0	81	0.88
9830116--9830176	15	3.8	15	78	18	52	6	13	0	80	0.90
9830141--9830191	12	4.5	12	78	11	63	5	9	0	84	0.78
9833147--9833176	15	1.9	16	93	6	53	46	0	0	53	1.00
9840786--9840834	25	1.9	26	87	4	73	38	22	16	22	1.92
9842188--9842540	119	3.0	119	92	0	573	33	13	18	35	1.89
9842475--9842529	20	2.8	20	85	0	74	27	18	21	32	1.96
9842666--9842700	12	3.0	11	88	12	52	40	0	0	60	0.97
9844009--9844066	6	9.8	6	75	15	50	43	0	3	53	1.17
9844024--9844087	18	3.6	18	83	8	69	42	0	6	51	1.27
9846693--9846717	12	2.1	12	100	0	50	8	8	32	52	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9848085--9848146	2	31.0	2	100	0	124	50	0	0	50	1.00
9852279--9852309	2	15.5	2	100	0	62	51	0	0	48	1.00
9853342--9853371	7	4.4	7	95	4	53	23	0	0	76	0.78
9855262--9855301	20	2.0	20	85	5	53	32	2	25	40	1.69
9855498--9855612	43	2.7	43	79	5	133	31	8	12	47	1.71
9856233--9856272	20	2.0	20	85	5	53	32	2	25	40	1.69
9854663--9856603	971	2.0	971	99	0	3801	33	7	19	39	1.81
9856473--9856591	43	2.8	42	80	3	139	28	10	11	49	1.72
9857962--9858004	22	2.0	22	95	0	77	39	6	13	39	1.72
9859543--9859597	2	30.0	2	77	17	57	52	0	0	47	1.00

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