genome.fa.s2.2.7.7.80.10.50.1000.13.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_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  24162007

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   

This is table  13  of  131  ( 15626 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)
3341979--3342035	26	2.2	26	84	6	71	42	1	14	42	1.55
3342105--3342163	27	2.3	24	83	13	82	52	0	1	45	1.10
3342111--3342163	26	2.0	27	92	3	90	50	0	1	47	1.12
3342137--3342180	16	2.9	15	86	6	70	45	0	0	54	0.99
3342139--3342210	15	4.6	15	73	18	58	47	0	0	52	1.00
3342141--3342393	109	2.4	109	90	4	345	50	3	0	45	1.23
3342208--3342373	51	3.1	51	65	25	135	51	4	0	43	1.27
3342204--3342383	61	3.2	61	69	22	199	51	4	0	43	1.26
3342705--3342760	28	2.0	29	89	3	87	46	1	1	50	1.22
3342672--3342766	38	2.6	36	80	8	102	47	1	2	49	1.20
3343219--3343260	22	1.9	22	85	0	57	26	4	14	54	1.59
3362418--3362465	3	16.0	3	100	0	96	66	0	0	33	0.92
3367708--3368343	298	2.1	295	87	3	893	41	17	18	22	1.90
3367836--3368638	298	2.7	290	83	8	917	43	16	17	22	1.88
3369079--3369109	2	16.0	2	93	6	55	48	0	0	51	1.00
3372756--3372993	59	3.9	60	88	7	329	40	11	5	42	1.64
3372706--3372995	122	2.4	120	84	8	363	40	12	5	42	1.64
3372706--3372993	62	4.7	60	85	6	350	40	12	5	41	1.65
3373937--3374053	16	7.1	17	72	19	79	62	1	4	31	1.24
3373994--3374053	7	8.1	7	72	17	50	66	0	1	31	1.01
3373910--3374057	11	12.5	11	66	20	68	65	1	4	29	1.19
3374271--3374424	42	3.7	42	72	8	136	40	22	14	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3374291--3374447	83	1.9	82	80	11	185	40	21	14	24	1.89
3374355--3374523	41	4.1	40	79	7	151	38	21	13	27	1.90
3375255--3375308	25	2.2	25	100	0	108	51	24	11	12	1.72
3375519--3375581	32	2.0	32	87	3	92	9	11	0	79	0.94
3375538--3375584	23	2.0	24	88	12	71	12	10	0	76	1.02
3375538--3375584	24	2.0	23	84	12	60	12	10	0	76	1.02
3375519--3375582	31	2.1	31	85	5	85	9	12	0	78	0.97
3386079--3386317	59	3.9	60	89	4	347	41	10	5	42	1.64
3386079--3386318	61	3.9	61	88	5	344	40	10	5	42	1.64
3386394--3386438	4	12.5	4	90	9	55	73	0	0	26	0.84
3386394--3386438	15	2.9	15	90	9	65	73	0	0	26	0.84
3387197--3387251	20	2.8	20	83	8	60	70	0	1	27	0.97
3387233--3387268	16	2.2	17	95	5	65	61	0	5	33	1.19
3387204--3387271	20	3.5	20	76	11	61	67	0	2	29	1.05
3387291--3387344	7	8.0	7	72	15	51	64	0	1	33	1.04
3387291--3387397	4	27.0	4	70	20	57	70	3	2	23	1.17
3387199--3387348	25	6.0	26	67	13	82	64	1	4	30	1.20
3387293--3387348	29	1.9	28	78	7	58	66	0	1	32	1.03
3387335--3387390	22	2.5	22	80	13	69	75	7	3	14	1.16
3387328--3387398	7	10.0	7	76	4	54	76	5	2	15	1.10
3391924--3391985	31	2.0	31	90	0	97	24	19	16	40	1.91
3395576--3395600	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3395604--3395644	2	20.5	2	94	0	73	48	0	51	0	1.00
3396193--3396217	2	12.5	2	100	0	50	48	0	0	52	1.00
3398556--3398580	2	12.5	2	100	0	50	52	0	0	48	1.00
3402745--3402773	13	2.3	13	94	5	51	82	0	6	10	0.83
3403475--3404188	305	2.4	296	83	3	863	41	16	16	25	1.89
3404184--3405345	308	3.8	309	84	2	1498	43	15	16	24	1.87
3405107--3405580	234	2.0	234	86	4	652	43	14	17	25	1.87
3404504--3408124	849	4.3	845	84	4	4366	42	15	17	25	1.88
3405341--3406195	307	2.8	305	84	4	1114	43	15	16	23	1.87
3405956--3406427	232	2.0	235	86	3	668	42	15	16	25	1.87
3406191--3407043	308	2.8	303	85	3	1057	41	15	17	25	1.89
3406804--3407279	236	2.0	235	83	2	596	40	14	17	26	1.89
3407653--3408359	234	3.0	235	79	4	709	42	14	17	25	1.87
3408120--3408976	309	2.8	307	86	2	1164	42	15	16	24	1.88
3408737--3409445	235	3.0	232	82	4	854	42	13	17	26	1.86
3409214--3409888	307	2.2	305	83	5	824	43	15	16	24	1.87
3409644--3410137	255	1.9	256	86	4	703	43	17	15	23	1.88
3415453--3415500	2	24.0	2	100	0	96	0	50	0	50	1.00
3417068--3417097	3	10.0	3	100	0	60	66	0	0	33	0.92
3417098--3417133	3	12.3	3	94	5	65	30	0	0	69	0.89
3417394--3417431	10	3.7	10	92	3	58	5	31	0	63	1.17
3417766--3417792	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3426794--3426833	14	2.7	15	84	11	55	65	0	2	32	1.06
3435486--3435523	19	2.0	20	90	10	62	42	0	0	57	0.98
3435841--3435870	10	3.1	10	95	4	53	36	0	0	63	0.95
3435843--3435872	9	3.2	9	95	4	51	36	0	0	63	0.95
3436178--3436225	2	25.0	2	85	8	64	47	2	2	47	1.25
3436349--3436399	21	2.5	20	81	9	57	37	5	1	54	1.36
3445817--3445889	30	2.4	30	90	4	112	57	0	5	36	1.22
3447596--3447637	18	2.3	18	83	0	57	45	0	0	54	0.99
3447602--3447665	22	2.8	25	77	18	84	39	0	0	60	0.97
3447609--3447676	21	3.1	21	82	6	64	39	0	0	60	0.97
3450619--3450693	29	2.5	30	81	12	84	48	4	0	48	1.20
3467844--3467903	25	2.4	25	83	5	77	56	0	5	38	1.21
3467864--3467912	26	2.0	25	84	8	64	55	2	6	36	1.37
3467910--3467941	14	2.3	15	89	10	50	50	0	0	50	1.00
3470099--3470156	28	2.1	28	81	9	66	31	3	1	63	1.21
3470106--3470324	112	1.9	112	85	4	298	38	8	3	49	1.50
3471163--3471220	29	2.0	29	83	9	75	58	6	1	32	1.35
3474239--3474281	15	2.9	15	75	0	50	46	2	2	48	1.27
3481056--3481115	30	2.0	30	96	0	111	43	25	6	25	1.78
3482249--3482395	52	2.8	52	82	2	170	29	22	6	41	1.79
3482964--3483076	52	2.2	52	90	0	172	31	18	7	41	1.79
3494291--3494328	15	2.6	15	91	4	60	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3517577--3517640	31	2.1	31	100	0	128	32	12	9	45	1.74
3538117--3538147	15	2.1	15	93	0	53	48	0	0	51	1.00
3553871--3553936	32	2.1	32	88	8	100	42	4	0	53	1.21
3555070--3555123	2	26.0	2	78	14	56	46	1	7	44	1.42
3555168--3555243	32	2.4	32	82	10	95	60	0	1	38	1.05
3555193--3555258	27	2.7	23	84	15	87	59	0	0	40	0.98
3555274--3555362	37	2.4	38	83	5	101	62	5	1	30	1.25
3555482--3555612	10	13.9	9	68	15	61	63	5	2	29	1.29
3555484--3555612	66	2.0	64	81	7	152	63	5	2	28	1.29
3555750--3555800	20	2.5	21	81	9	61	43	0	5	50	1.26
3556019--3556062	6	7.2	6	82	12	54	68	15	0	15	1.22
3556016--3556062	18	2.6	18	83	10	60	68	17	0	14	1.22
3559082--3559173	45	2.0	45	97	0	175	41	16	14	28	1.87
3565003--3565083	38	2.2	38	84	8	105	24	9	9	55	1.63
3569424--3569456	11	2.9	11	95	4	57	27	0	3	69	1.03
3570655--3570679	5	5.0	5	100	0	50	80	0	20	0	0.72
3571616--3571663	23	2.1	22	84	3	60	52	6	0	41	1.27
3580122--3580149	7	4.0	7	100	0	56	42	0	0	57	0.99
3585654--3585682	3	9.7	3	100	0	58	34	0	31	34	1.58
3590395--3590472	30	2.6	30	84	10	88	39	3	2	53	1.33
3590512--3590582	30	2.4	29	81	9	90	57	2	2	36	1.28
3593398--3593465	30	2.3	31	80	10	79	50	1	11	36	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3595334--3595362	9	3.3	9	90	9	51	89	0	10	0	0.48
3596607--3596643	18	2.0	19	89	5	58	43	2	8	45	1.47
3598847--3598895	14	3.6	14	82	15	59	40	6	6	46	1.53
3603277--3603310	16	2.1	16	88	0	50	32	5	29	32	1.81
3607643--3607690	18	2.8	16	76	14	51	77	0	18	4	0.93
3609098--3609187	22	4.1	21	75	2	72	37	18	10	33	1.85
3609191--3609230	19	2.1	19	90	4	62	70	2	2	25	1.13
3609621--3609680	22	2.7	22	75	10	68	30	16	18	35	1.93
3609797--3609900	42	2.4	44	83	4	131	27	9	12	50	1.71
3610787--3610921	60	2.3	59	80	5	155	48	5	11	34	1.61

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131