genome.fa.s113.2.7.7.80.10.50.1000.3.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_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  19866354

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   

This is table  3  of  100  ( 11964 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)
289576--289613	2	19.0	2	100	0	76	50	0	50	0	1.00
293157--293303	77	1.9	77	95	0	267	30	22	21	25	1.99
299196--299234	15	2.5	16	87	4	53	41	0	0	58	0.98
301619--301647	14	2.1	14	93	6	51	68	3	0	27	1.05
301643--301762	30	3.9	30	73	10	109	50	5	2	40	1.40
301872--301918	19	2.6	18	77	16	60	46	2	4	46	1.34
303000--303024	8	3.1	8	100	0	50	48	0	0	52	1.00
306066--306095	15	2.1	15	93	6	53	43	33	0	23	1.54
306080--306902	304	2.7	302	83	4	1030	35	12	14	37	1.84
310303--310361	12	4.8	12	83	4	82	42	30	6	20	1.78
310298--310361	25	2.6	24	81	13	85	43	31	6	18	1.75
310332--310583	80	3.2	80	81	3	276	44	23	8	24	1.81
320236--320608	133	2.8	133	78	3	401	41	16	11	29	1.84
331777--331882	56	1.9	56	98	0	203	26	17	17	37	1.93
335294--335323	15	2.0	15	100	0	60	6	26	0	66	1.16
340870--340902	10	3.3	10	88	12	50	63	0	0	36	0.95
347249--347416	58	2.9	59	87	5	252	43	11	3	41	1.59
347202--347414	58	3.6	57	83	11	243	44	12	3	39	1.60
347470--347541	24	3.0	23	74	21	60	77	6	0	15	0.96
347498--347540	17	2.6	16	82	13	52	81	4	0	13	0.84
347678--347921	126	1.9	126	95	1	445	28	20	20	30	1.98
349442--349507	29	2.4	28	85	10	82	74	3	4	18	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349472--349531	21	2.6	23	82	12	70	78	0	1	20	0.84
349474--349533	15	4.0	14	76	10	57	76	0	1	21	0.87
350384--350414	2	15.5	2	100	0	62	51	0	0	48	1.00
351303--351343	21	2.0	21	85	0	55	65	17	7	9	1.44
352763--352803	2	20.5	2	100	0	82	48	0	0	51	1.00
364678--364711	2	17.0	2	87	0	50	50	2	2	44	1.32
365210--365243	2	17.0	2	87	0	50	0	44	2	52	1.16
365610--365643	2	17.0	2	100	0	68	0	50	0	50	1.00
366094--366134	2	20.5	2	89	0	64	51	4	0	43	1.23
368633--368668	2	18.0	2	88	0	54	55	0	0	44	0.99
393525--393561	12	3.4	11	92	7	58	0	8	0	91	0.41
398113--398250	69	2.0	69	92	0	231	49	16	8	25	1.74
399752--399789	2	19.0	2	100	0	76	0	50	0	50	1.00
400893--400961	35	2.0	35	97	0	129	15	14	24	44	1.84
408844--408894	22	2.5	20	79	14	59	49	0	3	47	1.20
410212--410255	23	1.9	23	85	0	61	65	2	0	31	1.05
410388--410414	2	13.5	2	100	0	54	48	0	51	0	1.00
412544--412575	2	16.0	2	100	0	64	0	50	0	50	1.00
414681--414717	2	19.0	2	94	5	67	0	51	0	48	1.00
416768--416801	2	17.5	2	87	6	52	55	0	0	44	0.99
417635--417665	2	15.5	2	100	0	62	51	0	0	48	1.00
421164--421199	3	12.0	3	100	0	72	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422126--422170	20	2.3	20	84	3	56	17	8	6	66	1.40
422614--422692	20	3.7	20	68	21	52	21	13	1	63	1.37
422634--422707	24	3.0	24	67	21	64	21	16	1	60	1.42
422613--422707	46	2.0	44	86	13	129	24	14	1	60	1.41
426799--426845	2	23.5	2	100	0	94	51	0	48	0	1.00
431060--431110	13	3.9	13	77	7	50	49	0	5	45	1.26
431202--431260	12	5.4	11	75	24	54	44	1	0	54	1.10
441849--441916	22	3.0	21	72	18	57	45	2	1	50	1.26
444913--444937	2	12.5	2	100	0	50	0	48	0	52	1.00
447189--447215	14	1.9	14	100	0	54	48	0	7	44	1.31
447430--447661	15	14.9	15	65	25	67	54	1	2	41	1.22
447408--447683	18	15.6	18	68	23	128	54	1	1	42	1.19
447493--447598	20	5.2	19	74	18	81	53	1	1	42	1.22
447507--447686	49	3.8	45	73	21	154	56	0	1	41	1.13
447449--447593	69	2.2	67	82	13	171	53	2	2	41	1.27
447569--447685	26	4.1	28	72	17	100	56	0	1	41	1.09
447592--447659	22	3.1	21	79	14	75	55	0	1	42	1.08
447779--447844	26	2.6	26	85	4	91	48	1	0	50	1.10
447804--447836	17	1.9	18	88	11	52	48	0	0	51	1.00
447962--447995	14	2.4	14	95	0	59	38	2	0	58	1.13
463355--463382	12	2.3	12	100	0	56	21	0	0	78	0.75
464257--464298	18	2.3	18	83	0	57	23	35	23	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467020--467189	84	2.0	84	90	0	268	36	14	12	36	1.84
475583--475608	5	5.2	5	100	0	52	19	38	0	42	1.51
476475--476563	22	4.0	21	68	22	56	47	0	1	51	1.08
477636--477700	25	2.5	25	77	20	71	50	6	0	43	1.27
477625--477696	25	3.0	22	70	16	54	50	5	0	44	1.25
492629--492663	2	17.5	2	100	0	70	51	0	0	48	1.00
493967--494006	16	2.4	17	87	4	55	65	0	2	32	1.06
500159--500193	2	17.5	2	100	0	70	48	0	0	51	1.00
501038--501063	13	2.0	13	100	0	52	84	0	15	0	0.62
507210--507253	22	2.0	22	95	0	79	31	11	13	43	1.80
517135--517178	20	2.3	19	88	4	61	63	0	0	36	0.95
517135--517175	18	2.2	18	87	12	57	63	0	0	36	0.95
518114--518153	22	1.9	20	85	10	53	57	0	2	40	1.12
520181--520222	19	2.2	19	87	8	59	52	4	0	42	1.22
525183--525251	30	2.6	26	75	20	70	36	0	1	62	1.04
531705--531737	2	16.5	2	93	0	57	0	3	51	45	1.16
531737--531767	2	15.5	2	100	0	62	48	0	51	0	1.00
542680--542715	18	2.0	18	100	0	72	38	11	22	27	1.88
547178--547207	2	15.0	2	100	0	60	50	0	0	50	1.00
551953--551991	15	2.5	16	87	4	62	28	0	2	69	1.02
552791--552825	18	1.9	18	88	0	52	57	2	0	40	1.14
552812--552872	17	3.4	18	76	8	54	52	1	1	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553495--553551	24	2.4	24	83	11	82	40	1	0	57	1.09
553492--553551	13	4.9	13	76	11	56	40	1	0	58	1.08
553536--553647	30	3.9	28	75	16	95	53	0	5	40	1.30
557853--558009	52	3.0	51	79	3	170	28	21	6	43	1.77
560498--560533	13	2.6	14	86	8	56	77	2	0	19	0.88
560604--560723	57	2.1	57	83	10	147	35	11	7	45	1.69
560728--560771	22	2.0	23	86	4	63	77	2	4	15	1.04
560725--560828	16	6.3	16	70	16	61	72	4	1	21	1.13
561196--561232	19	1.9	19	88	0	56	51	16	8	24	1.71
561540--561569	10	2.9	10	95	5	51	86	0	0	13	0.57
561543--561642	22	4.5	22	77	13	80	71	0	4	25	1.04
561540--561766	13	17.5	13	67	20	61	66	0	3	29	1.16
561632--561720	24	3.5	24	76	15	83	57	1	4	37	1.26
561606--561740	28	4.8	28	72	17	93	60	0	4	34	1.22
561540--561753	8	29.9	7	66	17	61	65	0	4	29	1.15
564328--564420	45	2.1	45	100	0	186	29	23	18	29	1.98
572851--572876	2	13.0	2	100	0	52	0	50	0	50	1.00
572876--572917	2	21.5	2	95	4	77	50	0	0	50	1.00
580651--580711	21	2.8	23	85	14	78	50	0	0	49	1.00
580660--580711	21	2.5	20	88	11	79	51	0	0	48	1.00
580651--580711	22	2.9	20	83	11	70	50	0	0	49	1.00
580695--580733	16	2.5	16	87	4	53	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580732--580761	14	2.1	14	93	0	51	53	0	0	46	1.00
589306--589338	15	2.3	15	89	5	50	6	84	3	6	0.84
599879--599903	13	1.9	13	100	0	50	48	0	0	52	1.00
603836--603892	28	2.0	28	100	0	114	35	28	14	22	1.93
605583--605617	17	2.1	17	88	0	52	62	14	2	20	1.43
609407--609433	3	9.0	3	100	0	54	66	0	0	33	0.92
609583--609614	2	17.0	2	87	12	50	50	0	0	50	1.00
610381--610411	6	5.2	6	96	0	53	61	19	3	16	1.48
617577--617638	31	2.0	30	81	12	72	51	0	1	46	1.10
618380--618404	12	2.1	12	100	0	50	40	0	0	60	0.97

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