genome.fa.s8242.2.7.7.80.10.50.1000.65.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  65  of  73  ( 8740 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)
14901136--14901162	14	1.9	14	100	0	54	37	0	25	37	1.57
14901138--14901171	14	2.4	14	90	0	50	35	0	20	44	1.52
14901429--14901493	19	3.7	19	74	19	77	12	23	20	44	1.84
14901334--14901493	33	4.8	33	87	6	234	15	23	17	43	1.87
14903784--14903808	12	2.1	12	100	0	50	0	28	0	72	0.86
14903983--14904036	24	2.2	24	90	0	81	40	20	16	22	1.91
14904863--14904906	20	2.2	20	91	0	70	27	22	20	29	1.99
14904826--14904916	20	4.5	20	77	4	67	35	20	19	24	1.96
14905129--14905197	20	3.4	20	84	4	102	40	24	21	13	1.89
14906859--14906948	42	2.2	42	83	2	119	23	15	38	22	1.92
14907295--14907361	20	3.4	20	81	2	73	38	23	22	14	1.92
14907350--14907408	14	3.9	14	76	20	64	49	23	16	10	1.77
14907334--14907392	19	3.4	19	73	22	74	47	20	18	13	1.82
14907334--14907413	33	2.4	33	97	0	151	47	22	18	11	1.80
14907420--14907516	19	5.6	19	71	22	97	12	19	21	46	1.83
14907442--14907500	14	3.9	14	76	20	64	10	16	23	49	1.77
14907425--14907516	33	2.8	33	98	0	175	11	18	21	47	1.80
14907501--14907555	20	2.8	19	83	8	65	16	23	23	36	1.94
14908087--14908134	18	2.7	18	93	0	87	14	12	45	27	1.81
14909996--14910062	20	3.3	20	89	0	107	29	11	29	28	1.92
14909976--14910107	41	3.2	41	79	4	151	22	14	25	37	1.92
14910098--14910206	21	5.3	21	82	7	134	22	22	17	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14910073--14910206	62	2.2	61	89	4	198	20	23	20	35	1.96
14910112--14910206	41	2.3	39	86	10	136	23	22	17	36	1.95
14910098--14910221	62	2.0	62	84	3	160	25	20	18	35	1.95
14910196--14910248	21	2.5	22	81	6	74	33	18	26	20	1.96
14910568--14910601	2	17.0	2	100	0	68	50	0	0	50	1.00
14911535--14911585	23	2.2	23	96	0	93	52	23	1	21	1.57
14931945--14932019	37	2.0	37	97	0	141	41	21	5	32	1.75
14936535--14936619	43	2.0	43	90	6	136	16	17	11	54	1.71
14983068--14983107	20	2.0	20	90	0	62	42	12	12	32	1.80
14987549--14987583	14	2.6	13	86	8	52	28	2	17	51	1.59
14990152--14990275	31	3.9	32	76	10	112	29	17	20	32	1.96
14993242--14993378	32	4.3	32	88	2	197	29	18	18	34	1.94
14993240--14993431	32	6.1	31	77	8	151	28	17	19	33	1.95
14994164--14994214	12	4.4	12	75	9	52	17	21	21	39	1.93
15001468--15001506	20	2.0	20	89	0	60	23	20	20	35	1.96
15002880--15002922	17	2.6	16	82	7	50	67	11	2	18	1.32
15003842--15003901	3	20.0	3	86	13	88	33	1	0	65	1.03
15004431--15004467	15	2.6	14	91	8	58	78	13	8	0	0.96
15011010--15011038	15	1.9	15	100	0	58	10	20	0	68	1.18
15011006--15011049	15	2.9	14	80	12	52	9	18	0	72	1.10
15011293--15011481	88	2.1	88	82	0	216	32	17	19	30	1.95
15011465--15011925	116	4.0	116	83	2	548	27	22	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15011487--15011914	232	1.8	232	86	1	615	26	23	14	35	1.93
15012876--15012977	44	2.3	44	98	0	195	21	18	12	47	1.82
15017949--15018004	15	3.7	15	79	9	60	80	0	17	1	0.80
15017949--15018009	12	5.2	11	77	13	59	80	0	18	1	0.80
15019577--15019640	17	3.3	19	67	20	51	37	10	26	25	1.89
15019980--15020779	204	3.9	204	85	1	1037	35	18	19	27	1.95
15020603--15020671	39	1.9	35	83	16	88	44	13	24	17	1.84
15019980--15020779	410	2.0	408	85	1	1098	35	18	19	27	1.95
15026104--15026203	21	4.8	20	80	14	96	24	29	16	31	1.96
15026617--15026660	19	2.2	20	84	15	56	18	0	13	68	1.22
15055086--15055333	137	1.8	138	81	9	310	43	12	14	29	1.82
15061076--15061101	2	13.0	2	100	0	52	50	0	50	0	1.00
15061503--15061545	18	2.5	18	85	7	54	34	6	2	55	1.39
15062711--15062746	18	1.9	18	88	5	54	36	13	8	41	1.75
15084456--15084497	20	2.1	20	90	0	66	40	9	7	42	1.65
15088170--15088247	24	3.1	24	72	13	59	52	3	1	42	1.27
15090353--15090391	20	2.0	20	89	0	60	30	17	10	41	1.83
15093314--15093786	181	2.6	181	88	2	673	43	13	16	27	1.85
15095998--15096041	21	2.2	20	84	8	54	38	13	27	20	1.90
15096073--15096138	33	2.0	33	96	0	123	27	1	46	24	1.61
15096326--15096412	33	2.6	33	89	3	131	52	1	42	3	1.25
15096343--15096397	15	3.5	15	74	13	56	54	1	40	3	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15097964--15098011	18	2.6	19	87	12	73	31	2	10	56	1.45
15098238--15098822	200	2.9	200	95	0	1071	36	14	17	31	1.90
15100321--15100366	18	2.6	18	82	0	56	39	4	34	21	1.73
15100321--15100366	12	3.8	12	85	0	56	39	4	34	21	1.73
15104681--15106054	543	2.5	546	95	1	2441	41	13	16	28	1.86
15104681--15106054	182	7.6	182	94	1	2407	41	13	16	28	1.86
15106203--15106365	87	1.9	87	94	0	290	33	14	10	41	1.79
15106287--15106331	23	2.0	23	86	0	63	37	15	8	37	1.79
15106712--15106755	20	2.2	20	88	4	63	31	2	2	63	1.19
15107184--15107217	4	8.2	4	93	6	59	76	0	23	0	0.79
15113456--15113615	65	2.5	65	83	9	186	32	21	18	27	1.97
15113846--15113881	11	3.4	11	88	3	56	58	8	22	11	1.59
15117391--15117867	237	2.0	238	97	2	899	39	16	19	25	1.91
15121059--15121183	64	1.9	65	83	4	164	28	23	21	27	1.99
15127744--15127791	20	2.4	20	92	0	78	22	25	29	22	1.99
15133673--15133789	35	3.3	36	77	10	116	29	14	18	36	1.91
15133707--15133813	36	3.0	36	75	8	110	29	16	19	33	1.94
15135183--15135222	13	3.2	13	89	10	57	30	0	7	62	1.23
15136546--15136652	4	26.2	4	84	3	106	24	6	27	42	1.79
15149399--15149432	16	2.1	16	88	0	50	14	38	11	35	1.83
15152969--15153001	7	4.7	7	88	11	50	57	12	3	27	1.49
15153098--15153204	29	3.8	29	79	12	98	40	4	0	55	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15153109--15153217	29	3.9	27	81	14	107	39	4	0	55	1.20
15153276--15153382	28	3.7	29	84	3	135	34	5	1	57	1.33
15153276--15153384	29	3.8	29	86	4	123	35	5	1	56	1.33
15153402--15153493	29	3.6	23	76	20	76	52	0	7	40	1.30
15153443--15153497	23	2.3	23	90	6	83	56	0	5	38	1.23
15153402--15153519	53	2.2	54	82	10	143	50	0	7	41	1.31
15154590--15154678	41	2.2	41	82	11	112	33	20	17	28	1.95
15154589--15154666	20	3.9	19	69	11	66	32	23	15	29	1.95
15154590--15154705	20	5.7	20	69	11	65	33	22	18	25	1.96
15157756--15157981	108	2.1	109	88	4	334	46	15	15	21	1.83
15161185--15161215	7	4.3	7	95	4	53	19	0	0	80	0.71
15161185--15161228	14	3.1	15	83	9	56	22	2	0	75	0.92
15165101--15165574	110	4.3	110	89	2	711	36	22	17	23	1.94
15166001--15166324	179	1.8	179	91	2	544	32	24	18	24	1.97
15166855--15166901	22	2.1	23	88	4	69	23	0	0	76	0.78
15166854--15166899	16	3.0	16	87	6	60	26	0	0	73	0.83
15166860--15166901	6	7.3	6	86	10	52	21	0	0	78	0.75
15169455--15169557	30	3.4	30	81	9	120	59	7	14	18	1.59
15171263--15171840	128	4.5	128	81	4	641	27	17	26	27	1.98
15171263--15171840	256	2.3	254	85	4	745	27	17	26	27	1.98
15171916--15172079	66	2.5	67	82	5	185	45	12	12	28	1.79
15171941--15172068	68	1.9	67	88	3	195	46	11	11	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15172243--15172321	32	2.4	33	83	6	90	36	25	12	25	1.91
15175741--15175914	63	2.8	63	87	0	240	40	14	20	24	1.90
15177589--15177614	5	5.2	5	100	0	52	42	19	19	19	1.90
15177631--15177692	32	1.9	32	90	0	97	61	11	9	17	1.56
15179438--15179540	30	3.4	31	82	6	131	59	6	13	20	1.57
15187412--15187656	128	1.9	129	84	2	332	25	17	31	25	1.97
15188054--15188253	86	2.3	85	85	5	262	26	21	19	33	1.96
15188318--15188545	86	2.7	86	81	2	278	23	21	25	29	1.99
15188940--15189028	32	2.8	32	80	0	106	30	21	14	33	1.93
15189932--15190040	7	14.7	7	70	16	60	2	19	2	75	1.05

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