genome.fa.s9634.2.7.7.80.10.50.1000.66.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  66  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)
13378547--13378582	18	2.0	18	94	0	63	36	16	25	22	1.94
13378593--13380656	371	5.6	371	76	7	1145	36	14	14	34	1.87
13379091--13380655	371	4.2	370	78	6	1152	36	13	15	34	1.87
13389937--13389968	2	16.0	2	100	0	64	50	0	0	50	1.00
13394522--13394564	22	1.9	23	85	4	61	39	4	9	46	1.57
13394691--13394741	22	2.3	21	80	9	57	37	9	7	45	1.67
13395097--13395169	23	3.2	23	92	0	119	38	21	5	34	1.77
13395596--13395658	23	2.7	23	95	0	108	36	19	4	39	1.72
13396077--13396149	23	3.2	23	88	0	101	39	19	5	35	1.75
13394696--13396356	489	3.4	490	94	1	2907	39	10	7	42	1.68
13397271--13397317	20	2.4	19	82	10	67	19	17	10	53	1.72
13397452--13397498	20	2.4	19	82	10	67	19	17	10	53	1.72
13397238--13397711	181	2.6	181	90	0	705	27	16	13	42	1.86
13399223--13399262	19	2.1	19	100	0	80	20	10	27	42	1.83
13400194--13400241	22	2.1	23	81	11	55	35	4	4	56	1.38
13401292--13401493	101	2.0	101	99	0	395	43	6	17	32	1.76
13401531--13401588	29	2.0	29	83	10	73	37	8	18	34	1.82
13403696--13403725	14	2.1	14	93	0	51	26	23	3	46	1.68
13406240--13406430	38	5.0	38	82	5	208	45	5	3	45	1.45
13426509--13426547	20	2.0	20	89	0	60	33	23	10	33	1.88
13427181--13427220	21	1.9	21	94	0	71	55	12	10	22	1.67
13433854--13433902	21	2.3	21	100	0	98	44	6	10	38	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13436079--13436156	26	3.0	26	86	0	120	19	12	30	37	1.89
13439362--13439492	44	2.9	44	94	2	226	38	7	21	32	1.82
13439368--13439440	25	3.2	25	60	28	61	41	8	20	30	1.81
13451171--13451210	21	2.0	21	90	5	64	40	32	12	15	1.84
13452898--13452931	13	2.6	13	90	0	59	17	50	23	8	1.74
13452941--13452978	16	2.3	17	81	4	51	21	31	23	23	1.98
13454272--13454337	24	2.7	24	83	2	78	21	12	7	59	1.57
13456510--13456576	10	6.1	11	76	11	57	22	31	25	20	1.98
13457841--13457908	12	5.7	12	76	13	68	16	13	13	57	1.66
13457843--13457908	24	2.7	24	90	2	105	16	13	12	57	1.65
13458916--13458979	2	32.0	2	100	0	128	50	0	0	50	1.00
13459289--13459316	14	2.0	14	100	0	56	57	0	7	35	1.26
13460951--13460995	2	22.5	2	100	0	90	51	0	0	48	1.00
13494745--13494806	24	2.5	24	94	2	106	45	4	9	40	1.58
13495341--13495390	21	2.4	21	96	0	91	24	24	16	36	1.94
13505183--13505227	23	2.0	23	81	0	54	35	42	2	20	1.64
13509120--13509162	15	3.1	13	81	15	50	67	0	13	18	1.23
13517545--13517601	30	1.9	30	85	7	80	8	21	5	64	1.41
13525266--13525319	26	2.1	26	92	0	90	33	29	14	22	1.94
13525295--13525416	40	3.0	40	83	4	156	29	27	19	23	1.98
13528602--13528648	23	2.0	23	91	0	76	40	6	10	42	1.65
13532104--13532150	22	2.1	22	88	0	67	48	12	2	36	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13534720--13534876	38	4.1	38	74	12	135	24	24	11	39	1.88
13534940--13534986	24	2.0	24	82	0	58	40	4	12	42	1.63
13535795--13535866	27	2.8	25	75	8	81	43	0	2	54	1.15
13535888--13535922	13	2.7	13	100	0	70	34	14	0	51	1.42
13548529--13549486	105	9.2	105	89	3	1366	33	25	19	22	1.97
13549682--13549807	63	2.0	63	100	0	252	31	25	14	28	1.95
13554446--13554958	262	2.0	263	83	4	669	25	17	30	26	1.97
13554379--13554958	129	4.4	126	77	9	434	25	17	31	26	1.97
13554513--13554982	129	3.6	126	77	8	435	25	17	31	26	1.97
13555027--13555095	35	2.0	35	83	11	88	33	10	20	36	1.86
13555057--13555266	64	3.3	62	83	8	246	40	12	15	31	1.85
13561142--13561166	2	12.5	2	100	0	50	52	0	0	48	1.00
13561915--13561977	20	3.0	22	81	11	78	3	15	7	73	1.20
13561945--13562002	25	2.3	25	77	16	66	3	10	13	72	1.24
13561943--13562010	30	2.2	31	82	15	79	4	11	14	69	1.34
13567260--13567291	3	10.7	3	93	0	55	62	0	0	37	0.95
13570404--13570449	24	1.9	24	82	8	58	56	17	4	21	1.58
13571788--13571818	16	1.9	16	93	0	53	87	0	12	0	0.55
13574803--13574862	21	2.6	24	80	17	74	30	1	3	65	1.19
13577894--13578003	51	2.2	51	88	0	166	46	13	6	33	1.69
13592361--13592404	19	2.3	19	100	0	88	34	20	15	29	1.94
13596433--13596474	21	2.0	21	90	9	68	14	11	11	61	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13597380--13597417	18	2.1	18	100	0	76	21	21	15	42	1.89
13600680--13600718	3	13.3	3	86	5	53	33	5	0	61	1.18
13600680--13600725	15	3.3	15	79	11	53	32	4	0	63	1.14
13605659--13605710	19	2.7	19	90	3	77	44	7	11	36	1.70
13605660--13605716	20	2.9	20	86	5	80	40	10	10	38	1.74
13613331--13613377	20	2.3	21	85	10	71	46	6	10	36	1.64
13615400--13615464	33	2.0	33	96	0	121	35	21	23	20	1.96
13627246--13627617	54	6.9	54	87	4	502	32	17	17	31	1.94
13627246--13627617	160	2.3	160	89	2	539	32	17	17	31	1.94
13628820--13628845	8	3.2	8	100	0	52	0	38	0	61	0.96
13630344--13630434	42	2.2	42	88	4	130	49	2	2	46	1.26
13630674--13630699	13	2.0	13	100	0	52	46	7	0	46	1.31
13630756--13630782	3	9.0	3	100	0	54	66	33	0	0	0.92
13630997--13631025	14	2.0	15	93	6	51	41	27	10	20	1.85
13633446--13633473	14	2.0	14	100	0	56	50	0	42	7	1.30
13633557--13633588	10	2.8	12	81	18	50	34	0	0	65	0.93
13634589--13634706	39	3.0	38	87	2	164	31	24	27	16	1.96
13634669--13634826	44	3.5	44	85	3	183	31	24	25	18	1.97
13634699--13634845	44	3.3	43	84	2	150	34	23	24	18	1.96
13634676--13634845	88	1.9	90	82	7	213	33	24	24	18	1.97
13641559--13641715	39	4.0	39	89	1	217	32	23	26	17	1.97
13643276--13643325	4	12.5	4	100	0	100	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13643330--13643372	4	10.8	4	89	0	59	69	0	6	23	1.12
13651026--13651112	35	2.5	34	80	12	97	54	9	9	27	1.63
13652628--13652663	14	2.6	14	95	4	65	25	33	19	22	1.97
13653514--13653553	20	2.0	20	85	0	53	42	0	32	25	1.55
13663564--13663595	15	2.1	15	94	0	55	6	28	21	43	1.77
13664552--13664596	22	2.0	22	100	0	90	28	17	22	31	1.97
13665211--13665256	24	1.9	24	90	0	74	28	23	28	19	1.98
13669159--13669245	2	44.0	2	97	2	167	50	0	0	49	1.00
13671098--13671203	44	2.4	45	77	3	124	21	14	20	43	1.87
13671159--13671369	50	4.2	50	75	10	162	26	18	15	39	1.90
13671249--13671384	50	2.7	48	82	10	164	25	19	16	38	1.92
13671992--13672551	135	4.1	135	84	1	676	30	20	18	30	1.96
13671992--13672551	271	2.1	269	84	3	732	30	20	18	30	1.96
13672448--13672653	103	2.0	103	88	0	304	27	21	17	33	1.96
13684862--13684964	36	2.9	36	95	0	188	24	17	17	40	1.90
13686489--13686617	59	2.2	59	88	0	186	29	25	17	27	1.98
13687315--13687371	29	2.0	28	86	3	78	36	19	7	36	1.79
13690775--13691095	36	8.9	36	77	3	252	39	23	15	20	1.91
13690775--13691095	72	4.5	72	78	6	283	39	23	15	20	1.91
13694917--13694945	13	2.2	13	100	0	58	58	6	6	27	1.50
13695117--13695159	21	2.0	21	90	0	68	55	2	2	39	1.25
13697013--13697098	20	4.3	20	76	16	97	43	25	15	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13697228--13697286	22	2.7	22	86	0	82	23	40	13	22	1.89
13697631--13697691	20	3.3	20	68	25	62	49	26	14	9	1.75
13697646--13697679	14	2.4	14	85	0	50	50	26	14	8	1.72
13697720--13697753	14	2.4	14	90	0	50	11	20	17	50	1.77
13697692--13697768	20	4.2	20	75	20	87	11	19	22	46	1.82
13697702--13697768	34	2.0	34	93	0	116	10	20	20	47	1.79
13699870--13699968	21	4.7	22	74	13	73	26	35	18	20	1.95
13701311--13701470	66	2.4	66	87	8	225	26	3	16	53	1.58
13701340--13701474	64	2.1	63	89	6	209	29	2	18	49	1.59
13701507--13701545	20	2.0	20	84	0	51	35	25	17	20	1.95

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