genome.fa.s8.2.7.7.80.10.50.1000.16.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  16  of  163  ( 19493 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)
4490416--4490462	19	2.5	19	92	0	76	48	17	10	23	1.77
4503556--4503639	31	2.5	35	74	16	88	33	2	0	64	1.07
4512283--4512320	2	19.0	2	88	0	58	50	5	0	44	1.24
4520265--4520694	117	3.7	115	88	2	646	33	2	29	33	1.72
4520265--4520694	58	7.4	58	88	2	639	33	2	29	33	1.72
4520617--4520705	29	3.1	27	70	19	65	28	2	32	37	1.70
4521923--4521952	15	2.0	15	93	0	51	36	0	3	60	1.14
4522482--4522551	37	1.9	37	86	13	101	14	12	31	41	1.83
4522578--4522649	17	4.3	16	76	15	58	56	0	1	41	1.07
4522595--4522662	11	6.2	11	75	10	59	55	0	2	41	1.15
4522594--4522661	5	12.6	5	78	9	55	57	0	2	39	1.14
4522579--4522656	28	2.8	28	82	5	97	57	0	1	41	1.07
4523017--4523851	75	11.1	74	92	3	1303	32	19	15	32	1.93
4524374--4524423	22	2.3	22	100	0	100	46	0	28	26	1.53
4535048--4535444	59	6.8	59	86	2	550	35	3	29	32	1.74
4535085--4535444	117	3.1	117	90	3	555	35	2	28	32	1.71
4535526--4535873	162	2.1	163	88	2	504	45	11	17	25	1.83
4535526--4535946	162	2.6	161	81	8	432	47	10	16	25	1.79
4536700--4536763	24	2.6	26	78	9	62	40	1	3	54	1.25
4536725--4536754	15	2.0	15	93	0	51	36	0	3	60	1.14
4537341--4537419	37	2.1	39	84	15	105	13	11	32	41	1.81
4537461--4537528	11	6.2	11	75	10	59	54	1	2	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4537460--4537527	5	12.6	5	77	9	55	55	1	2	39	1.24
4537464--4537517	28	1.9	28	92	0	90	57	1	1	38	1.20
4537486--4537528	16	2.7	16	85	0	68	55	0	4	39	1.20
4539987--4540012	2	13.0	2	100	0	52	50	0	0	50	1.00
4540834--4540864	16	1.9	16	93	0	53	29	0	3	67	1.06
4545469--4545495	1	27.0	1	100	0	54	0	0	100	0	0.00
4545763--4545792	4	7.5	4	100	0	60	73	0	0	26	0.84
4548558--4548725	85	2.0	85	97	0	318	40	18	23	17	1.91
4549884--4550034	29	5.2	29	65	20	91	33	2	29	33	1.72
4549867--4550123	58	4.4	59	84	3	324	33	2	30	33	1.71
4549984--4550061	29	2.7	29	75	15	81	37	2	28	32	1.71
4550029--4550134	30	3.6	30	68	18	78	30	1	30	37	1.68
4550088--4550163	30	2.6	29	78	17	77	28	1	32	36	1.66
4549868--4550163	58	5.1	58	80	10	216	33	2	30	33	1.71
4552077--4552112	17	2.1	17	89	0	54	27	5	16	50	1.68
4552507--4553339	196	4.2	195	90	2	1256	18	23	22	35	1.95
4564266--4564447	86	2.1	86	95	0	328	40	18	23	18	1.91
4565561--4565817	29	8.8	29	68	23	139	35	2	29	32	1.72
4565500--4565782	58	4.8	59	89	3	412	35	3	29	31	1.73
4565532--4565779	29	8.5	29	67	21	119	35	2	29	33	1.71
4565492--4565817	59	5.6	58	87	3	406	36	3	28	31	1.75
4565500--4565817	117	2.7	117	85	4	419	35	3	29	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4567792--4567823	16	2.1	15	94	5	55	40	0	0	59	0.97
4567791--4567839	25	2.0	25	95	0	89	40	0	2	57	1.10
4567792--4567858	16	4.0	16	74	11	53	47	0	1	50	1.10
4569484--4569522	15	2.4	17	83	12	55	58	0	0	41	0.98
4569734--4569807	30	2.5	30	80	8	87	45	1	1	51	1.18
4570341--4570384	7	6.3	7	86	0	61	31	0	0	68	0.90
4570335--4570413	14	5.6	14	77	10	65	26	0	2	70	0.99
4570341--4570403	21	3.0	20	77	11	65	30	0	1	68	0.99
4581387--4581421	15	2.5	14	86	13	54	65	2	0	31	1.07
4581643--4581672	4	7.5	4	92	0	51	73	0	3	23	0.98
4592465--4592506	22	1.9	22	85	9	59	76	0	0	23	0.79
4592735--4592767	15	2.2	15	89	10	50	66	3	0	30	1.06
4593234--4593271	16	2.4	16	86	8	51	68	2	0	28	1.03
4595313--4595350	18	2.1	18	85	9	51	36	5	0	57	1.21
4595991--4596204	105	2.0	105	84	1	277	53	5	8	32	1.54
4599305--4599373	34	2.0	34	97	0	129	20	5	27	46	1.73
4616797--4616860	29	2.2	29	82	0	74	62	1	4	31	1.25
4624812--4624867	28	2.0	28	92	0	94	53	10	8	26	1.65
4624977--4625024	22	2.1	24	85	11	66	58	0	6	35	1.23
4625354--4625409	26	2.2	26	80	6	60	48	3	28	19	1.66
4628198--4628247	26	1.9	26	87	0	73	30	0	12	58	1.34
4631540--4631573	17	2.0	17	94	0	59	52	0	2	44	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4634338--4634396	29	2.1	28	83	3	73	59	5	3	32	1.36
4635855--4635911	22	2.6	22	82	0	60	66	19	3	10	1.36
4639311--4639350	16	2.5	16	91	0	62	67	0	2	30	1.04
4649324--4649355	11	2.9	11	95	0	55	40	0	3	56	1.15
4659594--4659642	18	2.7	18	81	9	55	28	20	24	26	1.99
4665308--4665342	3	11.7	3	100	0	70	34	0	0	65	0.93
4665974--4666013	18	2.2	18	90	0	62	12	2	10	75	1.15
4666283--4666355	35	2.1	35	92	0	119	24	2	15	57	1.51
4667156--4667184	14	2.1	14	93	6	51	20	0	0	79	0.74
4671560--4671612	25	2.1	25	92	0	88	43	7	13	35	1.72
4674582--4674607	13	2.0	13	100	0	52	30	15	7	46	1.74
4691298--4691334	2	18.5	2	100	0	74	51	0	0	48	1.00
4700428--4700525	31	3.2	31	81	7	103	23	16	13	46	1.82
4700983--4701058	32	2.6	28	73	10	71	46	9	13	31	1.74
4700980--4701171	59	3.3	59	79	4	185	51	11	9	27	1.68
4701627--4701655	2	14.5	2	100	0	58	0	48	0	51	1.00
4719459--4719530	15	4.9	15	71	10	58	30	8	4	56	1.48
4719474--4719530	29	1.9	30	89	3	89	29	8	1	59	1.38
4721577--4721629	26	2.1	24	82	6	61	41	1	0	56	1.10
4721579--4721625	22	2.0	23	84	15	62	44	2	0	53	1.12
4721914--4721951	6	6.0	6	88	11	58	47	0	2	50	1.15
4721910--4721951	14	3.1	14	80	6	52	47	0	2	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4727456--4727500	23	2.0	23	95	0	81	51	4	11	33	1.58
4731062--4731106	23	2.0	23	95	0	81	51	4	11	33	1.58
4736070--4736105	17	2.1	17	89	0	54	27	8	2	61	1.39
4736084--4736123	19	2.2	18	86	4	53	27	7	0	65	1.20
4736714--4736745	2	16.0	2	100	0	64	50	0	0	50	1.00
4736673--4736727	26	2.1	25	83	6	65	41	0	0	58	0.98
4743247--4743306	12	5.1	12	77	2	59	23	16	13	46	1.82
4743246--4743306	24	2.6	24	86	2	79	24	16	13	45	1.83
4743395--4743446	12	4.2	12	75	2	50	30	19	11	38	1.87
4743477--4743537	28	2.2	28	84	0	77	59	11	6	22	1.55
4753150--4753174	6	4.2	6	100	0	50	84	0	0	16	0.63
4761577--4761634	20	2.9	21	82	7	68	34	0	0	65	0.93
4767720--4767790	32	2.2	32	77	2	81	36	9	8	45	1.68
4768229--4768283	24	2.3	24	93	0	92	49	3	14	32	1.61
4775461--4775511	21	2.4	21	86	3	66	7	13	17	60	1.56
4783841--4783877	16	2.2	18	86	13	53	62	5	0	32	1.18
4784488--4784546	9	6.6	8	80	16	55	64	3	1	30	1.20
4784488--4784546	17	3.3	17	81	13	57	64	3	1	30	1.20
4784490--4784541	27	2.0	26	88	3	77	65	3	0	30	1.10
4786979--4787049	2	35.5	2	100	0	142	50	0	0	49	1.00
4791702--4791752	24	2.1	24	92	0	84	25	25	21	27	1.99
4793263--4793297	15	2.4	15	90	4	54	62	0	5	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4796026--4796115	12	7.9	12	73	15	75	6	4	20	68	1.29
4796040--4796129	20	4.2	20	79	12	99	6	3	21	68	1.27
4796037--4796129	44	2.2	42	88	3	132	7	3	20	68	1.28
4815166--4815230	25	2.5	28	68	17	66	40	4	6	49	1.48
4819106--4819167	31	2.1	29	87	6	88	38	8	6	46	1.59
4819394--4819451	29	2.1	29	83	6	75	62	0	1	36	1.06
4825680--4825716	2	18.5	2	100	0	74	51	0	0	48	1.00
4825889--4825934	23	2.0	24	87	12	69	50	0	13	36	1.41
4825889--4825934	24	2.0	23	83	12	58	50	0	13	36	1.41
4830295--4830327	16	2.0	17	88	5	50	60	0	0	39	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   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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163