genome.fa.s10.2.7.7.80.10.50.1000.10.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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   132   133   134   135   

This is table  10  of  135  ( 16099 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)
4522412--4522481	29	2.3	29	87	4	95	40	15	10	34	1.81
4535839--4535869	3	10.0	3	93	6	53	64	0	0	35	0.94
4537733--4537788	29	1.9	29	100	0	112	57	5	17	19	1.59
4538582--4538886	159	1.9	160	94	2	542	34	23	13	28	1.93
4544440--4544479	21	2.1	19	86	13	55	15	12	15	57	1.66
4544971--4545013	14	3.0	14	86	10	52	60	0	4	34	1.17
4544998--4545052	24	2.3	24	78	3	58	43	7	3	45	1.49
4548301--4548350	7	7.1	7	100	0	100	58	0	0	42	0.98
4555035--4555062	13	2.2	13	100	0	56	39	0	7	53	1.28
4557118--4557162	6	7.5	6	100	0	90	48	0	33	17	1.48
4561017--4561046	16	1.9	16	93	6	53	56	6	0	36	1.26
4563468--4563515	23	2.1	23	92	0	78	8	20	8	62	1.49
4567000--4567025	7	3.7	7	100	0	52	30	38	15	15	1.88
4577434--4577463	14	2.1	14	93	0	51	43	0	0	56	0.99
4583895--4584044	49	3.1	49	92	1	248	40	22	13	24	1.90
4593199--4593249	25	2.0	25	88	7	77	49	1	0	49	1.12
4593849--4593903	28	1.9	29	81	3	67	43	5	10	40	1.63
4613781--4613856	33	2.3	33	88	0	116	51	17	1	30	1.53
4620046--4620089	22	2.0	21	83	12	54	36	9	20	34	1.84
4639480--4639584	29	3.6	28	71	20	81	23	15	13	47	1.80
4639480--4639669	62	3.2	58	85	5	220	23	14	12	49	1.78
4639480--4639663	59	3.1	58	85	6	208	23	14	13	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4639810--4639947	67	2.1	67	100	0	276	50	10	14	24	1.73
4639819--4640077	31	8.5	31	68	15	162	47	11	16	25	1.79
4639888--4640077	88	2.1	90	85	3	260	46	11	16	25	1.81
4641366--4641390	12	2.1	12	100	0	50	40	0	16	44	1.47
4649638--4649688	18	2.9	17	77	13	50	60	3	0	35	1.15
4650457--4650503	26	1.9	26	87	12	73	51	4	2	42	1.33
4657827--4657894	4	17.0	4	87	0	100	25	4	26	44	1.73
4673222--4673277	27	2.0	28	86	3	78	51	12	1	33	1.50
4679242--4679284	23	1.9	23	85	4	61	67	4	0	27	1.10
4679259--4679304	14	3.2	14	78	3	56	65	2	0	32	1.05
4680156--4680194	18	2.2	18	100	0	78	64	5	20	10	1.44
4681608--4681664	22	2.5	24	80	13	66	49	0	5	45	1.24
4681614--4681664	23	2.3	23	86	3	68	49	0	3	47	1.20
4682182--4682238	19	2.9	19	82	12	71	56	5	0	38	1.22
4682178--4682245	19	3.6	19	73	13	61	57	4	1	36	1.28
4684007--4684053	25	1.9	24	82	4	58	53	8	0	38	1.32
4687229--4687292	22	3.1	20	72	22	60	23	3	7	65	1.33
4696238--4696269	16	2.0	17	88	11	50	37	0	21	40	1.54
4697645--4697770	52	2.4	52	84	3	148	31	21	14	32	1.93
4701194--4701241	2	24.0	2	95	0	87	52	0	0	47	1.00
4701250--4701324	33	2.2	32	80	13	80	41	4	4	50	1.40
4703406--4703444	19	2.0	20	85	5	53	30	2	5	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4703888--4703979	23	4.3	23	69	18	65	5	5	19	69	1.28
4703903--4703967	21	3.3	20	81	12	89	6	7	16	69	1.33
4703900--4703959	18	3.2	18	80	13	75	6	6	18	68	1.35
4703888--4703968	21	3.9	21	77	12	87	4	6	19	69	1.29
4703940--4704017	23	3.2	24	77	13	61	8	5	14	71	1.27
4703897--4704052	61	2.6	61	78	10	153	7	5	17	69	1.33
4703975--4704029	27	2.0	27	86	6	76	7	3	18	70	1.25
4703995--4704067	21	3.4	21	79	7	83	8	5	17	68	1.34
4703966--4704067	44	2.2	46	82	5	118	9	4	16	68	1.35
4703981--4704072	23	4.0	23	77	8	80	9	5	16	68	1.36
4703986--4704072	12	7.6	12	74	10	74	9	4	16	70	1.30
4704099--4704143	23	2.0	23	81	0	54	24	2	4	68	1.19
4704209--4704254	21	2.1	22	88	4	67	21	0	6	71	1.08
4705874--4706841	389	2.5	387	86	2	1271	40	10	10	38	1.74
4707674--4708431	190	3.9	189	80	8	828	41	9	9	38	1.71
4707580--4708633	391	2.7	390	84	3	1286	42	9	10	37	1.72
4708244--4708720	198	2.4	202	80	5	500	42	11	9	35	1.74
4715073--4715100	4	7.0	4	100	0	56	0	25	0	75	0.81
4726975--4727098	63	2.0	62	93	1	212	26	5	13	54	1.62
4745746--4745890	78	1.9	78	97	2	274	34	16	11	37	1.85
4754967--4755004	18	2.1	18	85	9	51	52	15	10	21	1.72
4755937--4755968	16	2.0	16	100	0	64	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4756104--4756149	19	2.5	18	80	16	58	52	2	2	43	1.25
4757760--4757795	16	2.1	16	90	10	54	44	0	0	55	0.99
4761620--4761703	43	2.0	43	90	4	134	32	0	19	48	1.49
4765380--4765446	21	3.2	21	68	8	64	62	14	5	16	1.50
4765669--4765733	30	2.1	32	83	13	82	20	0	12	67	1.22
4765716--4765764	11	4.4	11	78	14	55	26	0	8	65	1.20
4765761--4765891	20	5.9	20	73	21	93	24	0	9	65	1.26
4765711--4765921	77	2.8	79	76	16	250	26	0	9	64	1.26
4765750--4765893	43	3.2	43	82	12	189	25	0	9	64	1.27
4765776--4765925	50	2.9	49	76	14	153	25	0	8	66	1.24
4765918--4765988	21	3.4	21	66	11	65	19	5	14	60	1.53
4765983--4766089	50	2.1	52	85	3	146	23	20	9	46	1.79
4766028--4766216	58	3.2	58	82	10	213	23	17	7	50	1.72
4766033--4766214	59	3.1	59	84	6	219	23	18	8	49	1.74
4775281--4775309	2	14.5	2	100	0	58	48	0	0	51	1.00
4778448--4778492	20	2.3	19	85	11	63	60	2	0	37	1.09
4780453--4780542	27	3.3	27	90	0	144	16	30	34	18	1.94
4780454--4780561	27	4.0	27	87	0	108	18	29	31	20	1.96
4780578--4780630	15	3.7	14	75	12	54	67	11	0	20	1.21
4780751--4780883	58	2.4	56	80	12	157	57	5	1	35	1.30
4780899--4780933	15	2.3	15	95	0	61	68	0	0	31	0.90
4781013--4781062	25	2.0	25	96	0	91	48	6	20	26	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4783905--4783954	26	1.9	26	87	0	73	30	0	10	60	1.30
4784020--4784060	6	6.8	6	83	10	57	65	14	2	17	1.37
4784229--4784284	27	2.1	27	83	6	69	33	7	39	19	1.79
4784486--4784516	6	5.2	6	100	0	62	16	32	35	16	1.91
4786469--4786495	13	2.1	13	100	0	54	51	0	0	48	1.00
4786487--4786534	17	2.8	17	87	6	62	58	2	2	37	1.22
4789416--4789455	16	2.5	17	76	23	50	32	0	0	67	0.91
4798053--4798127	35	2.1	35	92	0	123	22	2	26	48	1.64
4799673--4799707	16	2.2	17	90	10	56	71	0	0	28	0.86
4801483--4801519	19	1.9	19	88	0	56	35	2	5	56	1.36
4803321--4803366	12	3.8	12	83	11	67	65	0	2	32	1.05
4803322--4803368	23	2.1	23	84	11	62	68	0	2	29	1.02
4816273--4816306	17	2.0	17	88	11	52	41	5	11	41	1.66
4817215--4817271	29	2.0	28	83	13	71	50	3	3	42	1.36
4820863--4820895	16	1.9	18	88	11	52	39	0	9	51	1.34
4822609--4822676	24	2.7	24	79	6	73	32	4	0	63	1.14
4824269--4824298	15	2.0	15	93	0	51	23	0	3	73	0.98
4824315--4824394	23	3.5	23	100	0	160	37	13	18	30	1.90
4829905--4829969	31	2.1	31	91	0	103	33	15	3	47	1.61
4831345--4831383	6	6.5	6	87	0	51	23	30	0	46	1.53
4836724--4836760	18	2.1	18	89	0	56	24	27	0	48	1.51
4864028--4864069	18	2.4	17	81	14	50	28	2	0	69	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4874210--4874239	2	15.0	2	92	0	51	46	0	0	53	1.00
4878515--4878550	2	18.5	2	94	5	65	50	0	0	50	1.00
4879267--4879292	5	5.2	5	100	0	52	19	0	19	61	1.35
4883619--4883657	18	2.1	19	85	4	53	25	15	15	43	1.86
4888052--4888094	21	2.2	19	83	8	50	65	4	4	25	1.32
4888287--4888424	69	2.0	69	94	0	240	37	14	11	36	1.83
4899431--4899483	23	2.3	24	77	9	65	64	7	9	18	1.47
4907401--4907431	2	15.5	2	100	0	62	51	0	48	0	1.00
4913472--4913707	115	2.1	115	98	0	454	29	9	20	40	1.85
4913651--4913787	47	2.9	47	81	0	157	27	12	16	43	1.84

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   132   133   134   135