genome.fa.s1129.2.7.7.80.10.50.1000.56.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  56  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)
12727373--12727490	60	2.0	61	81	11	145	30	14	5	49	1.67
12728127--12728169	14	3.1	14	96	0	77	11	13	18	55	1.68
12728423--12728462	14	2.9	14	85	3	55	2	12	27	57	1.48
12728529--12728559	16	1.9	16	93	0	53	3	12	22	61	1.46
12740492--12740559	16	4.3	16	66	17	52	54	1	0	44	1.09
12751962--12752004	16	2.8	16	82	3	52	25	0	4	69	1.07
12759084--12759143	31	1.9	31	100	0	120	50	6	6	36	1.55
12760392--12760461	3	23.0	3	79	13	63	38	4	0	57	1.19
12760399--12760458	31	1.9	31	89	0	93	40	5	0	55	1.22
12761530--12761572	16	2.7	15	79	10	50	25	6	9	58	1.54
12765987--12766077	45	2.0	45	97	0	173	36	12	12	39	1.80
12768917--12768967	20	2.5	20	87	0	75	27	21	19	31	1.97
12769050--12769109	20	3.0	20	92	0	93	23	26	21	28	1.99
12769187--12769225	20	2.0	20	89	0	60	28	28	20	23	1.99
12768916--12769227	139	2.3	139	88	0	473	30	18	18	32	1.95
12769373--12769463	3	30.7	3	81	10	98	37	3	0	59	1.14
12770629--12770673	16	2.9	16	80	3	56	24	8	8	57	1.57
12774669--12774720	27	1.9	27	88	7	79	42	9	0	48	1.36
12775985--12776009	12	2.1	12	100	0	50	32	0	0	68	0.90
12781441--12781535	50	1.9	50	82	4	120	24	30	25	20	1.98
12781732--12781771	21	2.0	19	85	9	53	30	0	2	67	1.04
12785033--12785093	12	4.8	12	73	15	50	72	1	0	26	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12785061--12785089	8	3.6	8	100	0	58	65	0	0	34	0.93
12785228--12785308	3	27.0	3	87	5	110	34	35	0	29	1.58
12787477--12787538	24	2.6	24	94	0	106	43	0	30	25	1.55
12787573--12787835	129	2.0	129	96	1	483	24	20	30	25	1.98
12794920--12795005	14	5.9	15	74	17	65	63	3	6	25	1.35
12795211--12795496	104	2.7	109	84	7	370	41	17	18	22	1.90
12795538--12795593	29	1.9	29	88	0	85	48	3	16	32	1.63
12796757--12797022	139	1.9	139	82	1	336	23	12	28	34	1.92
12797844--12797965	59	2.1	59	80	0	136	30	23	15	30	1.95
12805508--12805629	59	2.1	59	87	0	172	28	23	17	30	1.97
12807520--12807970	139	3.3	138	84	2	521	26	15	25	32	1.96
12808125--12808379	35	7.4	35	65	17	108	39	13	17	29	1.88
12807993--12808391	65	5.9	66	83	5	444	39	14	16	28	1.88
12808095--12808263	30	5.3	30	65	22	94	39	13	17	30	1.87
12808272--12808385	37	3.1	37	70	9	99	41	15	14	28	1.87
12811416--12811469	17	3.3	16	78	16	58	1	24	5	68	1.21
12811406--12811471	17	3.6	19	70	22	52	3	22	4	69	1.20
12811466--12811504	19	2.0	19	90	5	60	2	12	5	79	1.00
12816297--12816369	22	3.6	20	83	8	94	30	16	27	26	1.97
12816795--12817079	59	4.8	59	91	0	437	30	10	20	38	1.86
12816795--12817130	118	2.9	118	87	2	437	33	9	20	36	1.84
12823283--12823329	20	2.3	20	85	7	60	36	14	29	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12823853--12824137	59	4.8	59	92	0	455	31	10	20	37	1.87
12823855--12824188	118	2.8	118	88	2	451	34	9	19	36	1.85
12824884--12824926	16	2.6	17	88	3	61	30	0	25	44	1.55
12824922--12824962	16	2.6	16	88	0	64	41	7	21	29	1.80
12825286--12825345	28	2.1	29	84	9	79	55	1	11	31	1.46
12826758--12826803	2	23.0	2	100	0	92	50	0	0	50	1.00
12827707--12827745	13	2.9	14	76	7	53	33	46	2	17	1.62
12827897--12827930	13	2.9	11	84	16	50	0	11	17	70	1.16
12827897--12827943	23	2.0	24	91	4	78	0	17	17	65	1.27
12828639--12828967	137	2.4	137	89	1	480	27	18	28	25	1.98
12829043--12829303	69	3.8	67	85	8	332	36	15	17	30	1.91
12829528--12829673	36	4.1	36	75	7	136	40	13	17	28	1.87
12832111--12832171	17	3.7	16	85	10	79	0	21	8	70	1.13
12832158--12832198	12	3.3	12	80	6	55	2	14	9	73	1.19
12835086--12835120	13	2.7	13	100	0	70	74	0	0	25	0.82
12835893--12835926	2	17.0	2	100	0	68	50	0	0	50	1.00
12837744--12837801	3	19.3	3	100	0	116	34	0	0	65	0.93
12838010--12838152	37	4.0	36	76	6	137	38	13	16	30	1.88
12838004--12838114	36	3.1	36	82	7	122	43	13	14	28	1.83
12840588--12840628	9	4.7	9	84	6	57	0	14	2	82	0.76
12840588--12840638	19	2.8	18	87	3	66	0	13	3	82	0.81
12843543--12843582	20	2.0	20	85	0	53	40	5	5	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12853919--12853960	13	3.5	13	75	18	54	0	16	19	64	1.30
12853911--12853975	23	2.8	23	97	0	121	0	20	15	64	1.29
12856000--12856049	20	2.5	20	84	15	59	16	8	2	74	1.15
12858751--12858793	14	3.0	15	83	10	54	16	0	6	76	0.99
12864757--12864816	28	2.1	29	84	3	77	31	23	1	43	1.64
12865158--12865192	12	2.9	12	91	0	61	34	28	8	28	1.87
12869358--12869397	21	1.9	21	84	0	53	40	5	12	42	1.64
12870059--12870097	20	2.0	19	90	5	60	43	0	0	56	0.99
12871969--12872339	57	6.5	57	92	0	582	36	18	10	35	1.84
12872648--12872704	20	2.8	20	97	0	105	31	35	15	17	1.92
12872667--12872822	65	2.4	65	80	12	187	33	24	16	25	1.96
12878654--12878782	23	5.7	23	83	6	165	25	24	24	25	2.00
12878654--12878782	46	2.8	46	89	5	183	25	24	24	25	2.00
12879202--12879226	13	1.9	13	100	0	50	32	8	8	52	1.60
12881510--12881616	45	2.4	45	87	7	146	29	20	18	30	1.97
12881673--12881728	21	2.7	21	80	0	67	21	26	25	26	1.99
12882750--12882804	21	2.6	21	100	0	110	23	20	20	36	1.95
12888845--12889378	57	9.4	57	94	0	899	36	18	10	35	1.85
12889726--12889779	22	2.7	19	82	8	63	29	16	16	37	1.91
12900940--12901019	42	1.9	42	84	0	106	38	6	17	37	1.75
12900941--12901030	42	2.1	42	81	0	99	38	6	15	38	1.74
12902779--12902820	15	2.8	15	88	0	57	9	11	66	11	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12906107--12906172	20	3.3	20	91	0	96	45	22	12	19	1.83
12906706--12906873	20	8.6	20	78	10	179	11	17	22	48	1.80
12906705--12906774	35	2.0	35	91	5	115	10	18	27	44	1.81
12909002--12909052	21	2.4	21	96	0	93	25	29	17	27	1.98
12909002--12909062	21	2.9	21	90	0	68	24	32	18	24	1.97
12909048--12909139	42	2.2	42	82	3	105	25	33	19	21	1.97
12910704--12910750	20	2.3	21	82	10	62	14	12	21	51	1.76
12910713--12910770	20	2.9	20	86	0	71	17	12	20	50	1.78
12911012--12911047	18	2.0	18	94	0	63	16	2	25	55	1.55
12913320--12913365	24	1.9	24	95	0	83	34	17	19	28	1.94
12914284--12914371	20	4.4	20	79	11	76	32	12	21	32	1.91
12914296--12914373	20	3.9	20	83	5	95	33	12	20	33	1.91
12914285--12914393	39	2.7	40	75	13	107	29	12	22	35	1.91
12914343--12914410	20	3.3	20	89	2	91	20	11	25	42	1.86
12914766--12914919	76	2.0	75	83	6	191	17	10	5	66	1.41
12915542--12915587	18	2.6	18	86	6	58	58	8	2	30	1.40
12920523--12920581	29	2.0	29	96	0	109	25	13	13	47	1.79
12925205--12925263	29	2.0	29	100	0	118	23	13	13	49	1.78
12925996--12926371	187	2.0	186	95	0	671	33	19	10	37	1.85
12932049--12932117	30	2.3	30	80	9	79	42	8	17	31	1.80
12933294--12933339	24	1.9	24	90	0	74	34	13	13	39	1.83
12934137--12934190	22	2.5	22	84	0	72	25	25	12	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12940256--12940301	24	1.9	24	100	0	92	30	13	15	41	1.85
12941566--12941607	2	21.0	2	90	0	66	50	0	0	50	1.00
12944310--12944414	35	3.0	35	92	2	167	30	6	18	44	1.75
12945624--12945655	15	2.1	15	94	0	55	53	15	25	6	1.65
12948926--12949004	35	2.3	35	93	2	133	29	5	21	44	1.73
12954415--12954448	12	2.8	12	91	8	52	35	0	0	64	0.94
12955517--12955546	13	2.2	14	94	5	53	30	0	0	70	0.88
12959739--12959784	22	2.1	22	87	0	65	30	6	15	47	1.70
12961645--12961704	23	2.6	24	79	10	72	33	25	23	18	1.97
12962286--12962356	25	3.0	22	85	8	79	28	0	2	69	1.03

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