genome.fa.s35.2.7.7.80.10.50.1000.21.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: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  22724830

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  21  of  109  ( 12961 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)
3537392--3537422	16	2.0	16	93	6	55	19	3	6	70	1.22
3540241--3540283	19	2.1	21	83	8	54	30	2	2	65	1.18
3540223--3540282	28	2.2	27	78	3	66	30	5	3	61	1.33
3540618--3541127	268	1.9	269	87	2	756	50	8	7	33	1.59
3542576--3542627	13	4.2	12	76	14	52	51	0	3	44	1.19
3543233--3543277	11	4.2	11	77	5	56	35	0	0	64	0.94
3543215--3543302	32	2.7	31	79	10	97	42	0	0	57	0.98
3543348--3543443	39	2.4	41	77	11	101	57	5	1	36	1.28
3548501--3548533	15	2.2	15	100	0	66	45	0	39	15	1.46
3551296--3551329	3	11.3	3	93	0	59	2	29	0	67	1.05
3559905--3559989	34	2.3	38	90	7	133	54	5	8	31	1.54
3560049--3560090	20	2.0	21	90	9	68	40	2	0	57	1.12
3561999--3562100	29	3.6	29	76	11	88	51	0	1	46	1.12
3564207--3564239	3	11.0	3	100	0	66	0	33	0	66	0.92
3565709--3565744	14	2.6	14	83	16	56	16	2	5	75	1.12
3570111--3570302	16	12.5	15	69	16	117	21	1	31	46	1.58
3570120--3570282	47	3.5	46	78	15	140	22	0	31	46	1.52
3570470--3570501	14	2.1	16	88	11	50	40	3	12	43	1.58
3570984--3571018	16	2.2	16	89	0	52	17	0	31	51	1.45
3572351--3572375	12	2.1	12	100	0	50	16	16	60	8	1.58
3572901--3573185	147	1.9	147	84	2	376	47	10	18	22	1.80
3573048--3574085	171	6.1	170	81	4	1095	46	12	18	22	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3573048--3574085	342	3.0	341	86	3	1444	46	12	18	22	1.82
3573485--3573555	34	2.1	34	86	5	99	50	9	19	19	1.75
3573827--3573945	34	3.5	34	74	13	127	49	10	18	21	1.77
3574374--3574665	88	3.3	88	82	5	333	41	17	18	22	1.90
3574563--3574878	110	2.9	110	77	5	334	41	17	18	22	1.90
3574773--3574970	87	2.3	87	84	2	263	39	18	20	20	1.92
3575223--3575321	41	2.4	41	91	3	155	31	17	18	33	1.94
3575419--3575462	18	2.4	18	84	0	52	40	9	20	29	1.83
3577094--3577141	13	3.9	13	76	20	50	8	4	0	87	0.66
3577098--3577141	10	4.7	9	86	8	61	9	2	0	88	0.59
3577098--3577141	19	2.3	19	88	7	63	9	2	0	88	0.59
3577713--3577762	8	5.9	8	84	11	55	2	10	2	86	0.75
3577713--3577745	17	1.9	17	100	0	66	0	15	0	84	0.61
3577712--3577762	18	2.9	17	85	8	66	1	9	1	86	0.73
3577712--3577754	9	4.7	9	88	2	59	0	11	2	86	0.67
3583213--3583388	16	11.5	15	70	14	110	21	1	31	46	1.59
3583225--3583314	45	2.0	43	87	8	128	20	0	33	46	1.51
3585732--3586051	120	2.7	117	86	5	432	28	12	7	51	1.66
3586666--3586698	9	3.5	10	88	12	52	78	6	0	15	0.93
3586660--3586698	9	4.2	9	83	6	51	74	10	0	15	1.07
3590172--3590212	10	4.2	9	90	9	55	21	0	0	78	0.76
3590165--3590211	23	2.0	23	88	12	69	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590172--3590212	19	2.1	20	86	13	59	21	0	0	78	0.76
3590317--3590385	11	5.4	13	75	18	65	75	1	1	21	0.96
3590315--3590389	16	4.7	15	72	19	62	74	1	1	22	0.97
3590324--3590385	6	10.3	6	75	13	56	75	1	0	22	0.88
3590327--3590389	17	3.8	16	78	19	67	76	1	0	22	0.88
3595097--3595133	18	2.0	20	89	10	60	21	0	2	75	0.92
3595097--3595142	18	2.6	19	83	12	55	19	0	2	78	0.86
3599649--3599707	30	2.0	30	89	0	91	40	22	8	28	1.83
3614516--3614550	5	7.0	5	100	0	70	60	0	0	40	0.97
3618319--3618349	2	16.0	2	93	6	55	51	0	48	0	1.00
3620134--3620165	2	16.0	2	93	0	55	46	0	3	50	1.17
3620165--3620195	2	15.5	2	100	0	62	0	0	48	51	1.00
3621640--3621703	26	2.4	27	73	19	64	31	6	14	48	1.68
3622018--3622046	2	15.0	2	92	7	51	48	0	0	51	1.00
3622889--3622926	2	20.0	2	89	10	62	50	0	0	50	1.00
3623892--3623938	23	2.0	23	100	0	94	36	12	21	29	1.91
3624374--3624405	17	1.9	17	93	6	57	40	0	0	59	0.97
3624358--3624559	41	4.8	41	72	16	137	44	2	2	50	1.30
3624508--3624560	13	4.2	13	78	9	56	47	1	0	50	1.12
3624471--3624555	42	2.1	39	82	12	100	44	2	2	50	1.27
3624555--3624585	2	15.5	2	93	0	53	51	3	0	45	1.17
3626748--3626795	24	2.0	24	95	0	87	27	4	18	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3627859--3627896	17	2.2	17	86	9	51	63	0	34	2	1.09
3628139--3628175	17	2.2	16	90	4	56	13	0	2	83	0.74
3628823--3628917	44	2.1	45	84	5	122	53	6	9	30	1.58
3631047--3631110	31	2.0	32	85	11	87	37	0	1	60	1.06
3633036--3633077	21	2.0	21	90	9	68	52	0	0	47	1.00
3633484--3633512	12	2.4	12	100	0	58	48	0	6	44	1.29
3635380--3635416	17	2.2	17	90	4	58	59	16	5	18	1.55
3636153--3636202	18	2.7	18	84	6	55	56	24	2	18	1.52
3636745--3636783	19	2.1	19	85	0	51	79	2	2	15	0.95
3637106--3637344	43	5.6	43	80	6	236	39	15	12	32	1.85
3637107--3637383	86	3.2	86	84	4	330	40	14	11	33	1.83
3637095--3637383	129	2.2	128	81	6	343	40	14	12	33	1.83
3637143--3637383	43	5.7	43	81	4	258	39	12	12	34	1.82
3638336--3638366	3	10.3	3	100	0	62	64	0	0	35	0.94
3639923--3640163	29	8.5	29	69	15	116	48	30	0	20	1.53
3639950--3640059	58	1.9	58	85	7	152	48	30	0	20	1.50
3639923--3640059	15	9.4	15	72	9	97	49	29	0	21	1.49
3640053--3640102	22	2.3	22	82	6	57	50	26	2	22	1.60
3640086--3640167	14	5.7	14	72	11	76	52	31	0	15	1.44
3640086--3640229	30	4.9	29	77	7	105	47	31	1	19	1.58
3640204--3640243	20	1.9	22	90	10	66	50	30	0	20	1.49
3648672--3648983	128	2.5	128	85	4	393	35	16	16	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3648958--3649199	110	2.2	110	84	1	306	21	16	19	42	1.89
3649183--3649237	22	2.5	22	87	0	74	32	27	12	27	1.93
3649317--3649360	22	2.0	22	86	0	61	31	25	13	29	1.94
3648965--3649454	264	1.9	263	81	4	601	23	17	17	40	1.91
3650959--3651092	14	9.3	14	70	11	92	51	30	0	17	1.46
3650929--3651092	14	11.3	14	69	10	89	51	29	0	19	1.47
3651130--3651183	21	2.6	19	81	16	63	53	29	0	16	1.43
3655044--3655088	15	3.0	16	87	9	60	37	8	0	53	1.32
3656743--3656828	42	2.0	43	90	2	138	25	18	12	43	1.86
3661940--3661971	2	16.0	2	100	0	64	50	0	0	50	1.00
3663856--3663882	2	13.5	2	100	0	54	0	0	51	48	1.00
3672005--3672090	36	2.4	36	82	0	118	22	25	16	36	1.94
3672259--3672304	24	1.9	24	90	0	74	13	28	28	30	1.94
3672221--3672364	63	2.3	63	93	0	243	14	31	21	32	1.93
3672332--3672403	24	3.0	24	95	0	117	13	25	29	31	1.94
3672332--3672429	48	2.0	48	82	0	115	15	27	24	32	1.95
3681749--3681824	37	2.1	37	94	0	134	28	34	17	19	1.94
3694916--3695178	133	2.0	133	79	2	287	40	18	12	28	1.87
3695470--3695528	17	3.5	17	76	6	66	67	1	0	30	1.00
3695579--3695628	24	2.1	24	85	14	68	46	4	2	48	1.32
3696134--3696164	15	2.1	15	100	0	62	41	0	6	51	1.27
3696921--3696968	16	3.1	14	76	21	51	70	2	0	27	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3696922--3696967	24	1.9	24	82	8	58	73	2	0	23	0.94
3702039--3702161	20	6.2	20	93	0	192	34	28	14	22	1.94
3704380--3704415	19	2.0	18	89	10	56	47	2	0	50	1.15
3707946--3707987	10	3.8	12	79	20	56	23	0	0	76	0.79
3707945--3707991	9	5.2	10	78	21	50	25	0	0	74	0.82
3707950--3707991	20	2.0	21	90	4	68	23	0	0	76	0.79
3707954--3708005	27	1.9	27	84	0	68	26	0	1	71	0.97
3708258--3708303	3	15.3	3	100	0	92	32	0	0	67	0.91
3710181--3710231	22	2.3	22	82	0	66	7	17	1	72	1.18
3718622--3718664	20	2.4	18	82	17	54	58	0	0	41	0.98

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109