genome.fa.s179.2.7.7.80.10.50.1000.4.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_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16099665

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   

This is table  4  of  77  ( 9228 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)
478032--478136	16	6.9	15	66	11	54	75	6	3	14	1.15
478427--478494	31	2.2	31	89	7	104	51	25	2	20	1.61
478902--478937	3	12.3	3	88	5	56	66	0	2	30	1.06
478989--479042	25	2.3	23	78	12	56	50	16	0	33	1.46
479142--479190	18	2.7	18	81	12	64	59	2	0	38	1.09
480508--480558	18	2.9	17	77	8	57	17	7	3	70	1.27
481540--481580	12	3.4	12	78	21	50	2	7	12	78	1.06
481537--481580	24	1.9	22	90	9	70	2	6	13	77	1.07
488831--489005	84	2.1	84	95	4	318	38	7	11	42	1.69
488845--488982	40	3.3	40	68	21	122	39	7	13	39	1.73
492066--492095	15	2.0	15	93	0	51	86	0	10	3	0.67
493629--493655	2	13.5	2	100	0	54	48	0	0	51	1.00
493816--493919	44	2.4	44	81	1	129	30	13	11	44	1.79
493949--493997	18	2.7	18	77	0	53	24	16	10	48	1.76
493916--494073	79	2.0	78	80	7	176	30	14	9	45	1.77
494039--494188	71	2.1	71	83	3	187	28	15	10	45	1.79
494051--494191	53	2.6	54	83	2	160	29	14	9	45	1.78
494039--494188	35	4.2	36	87	2	189	28	15	10	45	1.79
494056--494222	71	2.3	72	80	4	178	29	14	10	45	1.78
494108--494207	53	1.9	52	83	2	128	26	14	13	47	1.80
494017--494281	18	14.4	19	70	16	157	27	13	12	45	1.80
496397--496442	20	2.4	19	82	13	58	63	0	2	34	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497294--497327	15	2.3	15	89	0	50	47	2	0	50	1.16
497666--497745	24	3.4	24	79	8	85	47	2	3	46	1.34
498002--498033	14	2.3	14	94	0	55	56	0	0	43	0.99
503348--503587	119	2.0	119	93	0	408	31	15	18	34	1.92
509634--509665	2	16.0	2	93	0	55	53	0	0	46	1.00
509814--509908	21	4.5	21	73	6	66	35	6	9	48	1.61
509788--509839	27	2.0	26	84	3	68	32	3	7	55	1.46
510231--510272	22	1.9	22	85	0	57	35	11	4	47	1.61
510289--510349	22	2.8	22	82	0	59	40	4	3	50	1.40
510299--510431	22	6.0	22	75	6	99	39	6	6	48	1.52
510299--510452	66	2.3	66	83	2	175	40	6	6	46	1.55
510326--510447	22	5.5	22	77	5	104	39	6	7	46	1.58
510449--510502	22	2.5	22	84	0	63	40	11	1	46	1.50
510634--510687	21	2.5	22	85	8	76	38	7	3	50	1.48
510671--510704	16	2.2	15	89	5	50	38	5	2	52	1.41
510848--510902	22	2.5	22	87	0	74	36	1	7	54	1.39
510848--510902	11	5.0	11	78	8	58	36	1	7	54	1.39
510840--510926	22	4.0	22	80	0	57	37	5	8	48	1.57
513634--513677	17	2.9	15	81	15	54	43	2	0	54	1.12
514171--514206	19	1.9	18	88	5	54	63	8	0	27	1.23
514499--514525	2	13.5	2	100	0	54	51	0	0	48	1.00
515589--515625	14	2.8	14	88	8	51	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520270--520303	17	2.0	17	88	0	50	8	14	0	76	1.01
523450--523477	4	7.0	4	100	0	56	50	25	0	25	1.50
525405--525455	26	2.0	26	88	0	75	45	5	0	49	1.26
526070--526462	62	6.3	60	71	13	220	36	13	13	36	1.84
526334--526455	64	1.9	64	81	9	151	38	13	11	36	1.80
529948--529990	21	2.0	20	82	13	50	65	4	4	25	1.32
530970--531013	22	2.0	22	90	0	70	47	11	6	34	1.66
533688--533846	73	2.2	73	87	0	219	23	27	16	32	1.96
539729--539866	55	2.5	55	83	4	179	44	12	12	30	1.79
540880--540910	7	4.4	7	95	0	53	25	3	0	70	1.02
542590--542621	12	2.4	14	90	10	50	34	0	0	65	0.93
547856--547895	15	2.7	15	96	0	71	70	0	30	0	0.88
548430--548456	14	1.9	14	100	0	54	85	7	0	7	0.75
549374--549398	12	2.1	12	100	0	50	16	8	32	44	1.76
549643--549729	28	3.1	27	80	12	97	43	2	2	51	1.26
549658--549741	27	3.1	27	81	10	116	44	2	3	50	1.32
549649--549730	27	3.0	27	84	8	112	45	1	2	51	1.22
551105--551144	20	2.0	20	90	9	64	25	30	25	20	1.99
551213--551261	16	2.7	19	78	15	59	32	0	6	61	1.21
551317--551356	14	2.4	18	80	19	52	17	5	2	75	1.10
552280--552383	10	10.4	10	74	19	67	18	5	0	75	0.99
552292--552389	28	3.4	28	67	25	69	15	7	0	77	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552285--552344	22	2.6	23	82	12	70	15	6	0	78	0.95
552285--552384	23	4.1	24	72	22	73	17	6	0	77	0.97
552395--552557	62	2.8	61	87	7	239	47	7	12	31	1.69
552380--552754	199	1.9	194	89	8	578	45	7	13	32	1.72
552421--552696	137	2.0	138	90	7	438	45	6	15	32	1.72
552610--552765	57	2.7	58	94	4	264	42	8	14	33	1.77
556240--556272	11	3.1	11	91	8	59	90	0	0	9	0.44
556240--556272	10	3.2	10	95	4	57	90	0	0	9	0.44
556599--556663	8	7.8	9	83	11	68	80	0	12	7	0.91
556601--556665	25	2.7	24	80	4	85	78	0	13	7	0.95
557846--558815	41	24.0	40	79	12	767	22	17	21	38	1.93
558125--558175	25	2.0	25	100	0	102	27	15	17	39	1.90
558084--558216	66	2.0	66	95	2	241	24	15	18	41	1.90
558150--558815	41	16.1	40	90	5	903	22	17	22	37	1.94
558150--558815	83	8.1	82	91	4	992	22	17	22	37	1.94
558828--558954	9	14.6	9	89	7	183	87	12	0	0	0.55
558822--558954	17	7.7	17	85	9	180	87	12	0	0	0.59
558828--558954	26	4.9	26	93	1	211	87	12	0	0	0.55
558822--558946	1	125.0	1	79	0	115	88	11	0	0	0.57
559043--559082	20	2.0	20	90	9	64	25	30	25	20	1.99
559144--559233	12	7.4	12	70	21	55	28	0	7	63	1.22
559154--559257	16	6.6	16	71	16	51	30	0	5	63	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559143--559268	64	2.0	62	79	13	136	27	0	6	65	1.22
560154--560179	5	5.2	5	100	0	52	19	38	42	0	1.51
560242--560313	10	7.3	10	73	13	51	16	5	0	77	0.94
560222--560289	10	6.6	10	77	5	64	16	5	0	77	0.95
560232--560314	36	2.3	35	81	4	103	16	6	0	77	0.97
560269--560315	25	1.9	25	83	12	62	17	6	0	76	0.98
560331--560858	57	8.9	57	85	9	684	45	8	12	32	1.73
560331--560858	181	3.0	177	90	7	795	45	8	12	32	1.73
561421--561455	18	1.9	18	94	0	61	60	2	5	31	1.35
561767--562072	104	2.9	104	80	7	320	36	15	11	36	1.82
562893--562926	18	1.9	17	88	5	50	70	2	2	23	1.15
562878--562941	21	3.2	18	78	20	65	73	1	4	20	1.09
562920--562974	25	2.2	25	84	12	69	74	5	3	16	1.15
568032--568094	24	2.6	25	82	2	74	47	22	4	25	1.70
568081--568140	24	2.5	25	83	5	70	55	25	0	20	1.44
568097--568156	24	2.5	24	77	2	66	51	30	0	18	1.46
569148--569202	22	2.5	21	78	16	58	34	7	1	56	1.38
569940--570262	150	2.2	147	77	7	339	18	16	9	55	1.68
578196--578297	48	2.1	48	90	3	159	57	7	11	22	1.59
589511--589580	33	2.2	30	80	7	77	51	4	0	44	1.21
589562--589595	15	2.2	16	85	15	54	50	0	0	50	1.00
590273--590335	31	2.0	31	85	11	85	46	1	1	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590946--590970	2	12.5	2	100	0	50	52	0	0	48	1.00
594849--594895	14	3.4	14	73	2	51	51	6	2	40	1.39
595263--595298	12	2.8	14	80	20	51	77	0	11	11	0.99
596038--596150	56	2.0	56	83	6	140	23	10	6	59	1.53
596015--596208	106	1.8	104	79	10	225	28	10	6	54	1.58
597205--597259	21	2.7	21	77	8	60	1	9	16	72	1.18
597223--597260	18	2.1	18	85	9	51	0	7	15	76	1.01
597697--597755	11	5.5	10	75	20	57	8	3	5	83	0.91
597702--597742	17	2.4	17	87	0	64	4	2	4	87	0.72
597702--597755	12	4.7	11	82	8	63	7	3	5	83	0.91

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