genome.fa.s3.2.7.7.80.10.50.1000.87.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   164   165   166   167   168   169   170   171   

This is table  87  of  171  ( 20472 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)
28595139--28595173	14	2.4	15	90	4	54	48	31	5	14	1.67
28595199--28595234	10	3.6	10	88	0	54	16	27	30	25	1.97
28595229--28595270	20	2.1	20	90	0	66	16	26	21	35	1.94
28596298--28596330	3	11.3	3	93	6	59	30	0	0	69	0.88
28606347--28606420	29	2.5	30	82	8	80	41	5	18	33	1.74
28606397--28606450	28	1.9	28	88	7	83	33	3	25	37	1.74
28606533--28606694	30	5.4	30	81	5	159	36	3	24	35	1.74
28608382--28608441	17	3.5	17	84	4	84	60	1	1	36	1.17
28608921--28609490	39	14.7	39	71	7	255	24	18	31	25	1.97
28608912--28609490	78	7.5	77	77	4	475	24	17	31	25	1.97
28609147--28609452	118	2.7	112	78	6	315	24	18	31	25	1.97
28609730--28609824	49	1.9	49	82	4	120	16	32	17	32	1.93
28610847--28610976	23	5.6	23	71	26	96	2	18	0	78	0.90
28610881--28610979	34	3.1	31	79	16	96	2	18	1	78	0.90
28610850--28610972	51	2.4	50	82	15	153	2	17	0	78	0.90
28610857--28610979	27	4.7	26	74	12	92	2	17	0	78	0.90
28616785--28616880	30	3.2	29	75	10	79	34	5	21	38	1.76
28616788--28616956	58	2.9	58	81	6	171	30	5	27	36	1.80
28616861--28616956	29	3.3	30	84	7	144	27	7	31	34	1.84
28616866--28616967	29	3.5	29	74	12	102	27	6	28	37	1.82
28616954--28617145	30	6.4	30	79	5	183	36	3	24	35	1.71
28616970--28617145	90	2.0	89	84	5	230	36	2	25	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28616827--28617149	30	10.9	29	75	10	163	33	4	26	35	1.76
28616947--28617146	60	3.3	61	78	6	203	36	3	25	34	1.73
28618846--28618887	17	2.5	17	96	0	75	59	2	0	38	1.10
28621603--28621627	2	12.5	2	100	0	50	48	0	0	52	1.00
28621615--28621687	38	1.9	38	86	5	103	30	8	2	58	1.41
28621685--28621760	25	3.0	25	71	7	82	34	3	2	59	1.30
28621717--28621781	19	3.5	19	75	12	71	29	7	1	61	1.33
28623004--28623297	152	1.9	152	90	1	473	36	20	18	25	1.95
28633503--28633597	42	2.3	42	83	0	118	31	29	13	25	1.94
28638095--28638203	46	2.4	46	85	3	157	36	9	23	30	1.86
28638523--28638556	8	4.2	8	85	14	52	26	0	23	50	1.50
28639249--28639307	19	3.1	19	95	0	100	38	1	25	33	1.66
28639249--28639304	11	5.6	11	70	23	52	39	1	26	32	1.67
28649063--28649123	21	2.9	22	85	7	81	32	22	11	32	1.90
28649868--28650094	51	4.5	51	90	0	339	29	23	14	31	1.95
28659834--28659890	28	2.0	28	83	6	71	64	5	5	24	1.35
28659955--28660070	52	2.2	52	95	0	205	36	14	6	43	1.70
28659976--28660086	52	2.1	52	88	0	159	36	14	7	42	1.73
28664827--28664887	30	2.0	30	84	9	79	34	8	1	55	1.39
28664949--28664989	19	2.0	21	86	9	59	41	2	2	53	1.27
28669757--28669830	30	2.5	30	84	0	103	12	33	29	24	1.91
28672819--28672918	23	4.4	23	84	1	121	47	12	21	20	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28674094--28674165	30	2.4	29	86	4	99	26	34	13	25	1.93
28676323--28676519	41	4.8	41	84	2	261	32	21	26	18	1.97
28680063--28680245	43	4.3	43	88	4	246	24	16	29	28	1.97
28680623--28680699	23	3.4	23	89	1	102	48	9	20	22	1.77
28682477--28682527	21	2.4	21	83	0	66	31	5	11	50	1.62
28693133--28693447	43	7.3	43	87	1	402	26	27	19	26	1.99
28699616--28699734	34	3.4	34	71	8	123	44	0	8	46	1.39
28699575--28699816	70	3.2	75	79	15	270	41	2	9	47	1.49
28699618--28699778	70	2.3	70	95	0	286	42	1	9	46	1.43
28703910--28703944	15	2.3	15	100	0	70	54	14	14	17	1.72
28704582--28704915	41	8.1	41	84	3	388	22	29	18	28	1.98
28704582--28704915	82	4.1	82	85	1	429	22	29	18	28	1.98
28704933--28705030	40	2.5	40	88	1	144	22	21	16	39	1.92
28706596--28706694	27	3.5	28	83	6	128	48	0	1	50	1.07
28706741--28707167	197	2.2	195	92	1	701	35	23	9	31	1.87
28707729--28707803	11	7.6	11	76	18	69	52	0	0	48	1.00
28707729--28707837	20	5.7	20	71	20	88	52	0	0	47	1.00
28707765--28707831	29	2.3	28	84	7	80	55	0	0	44	0.99
28707798--28707836	21	1.9	20	89	5	60	53	0	0	46	1.00
28708823--28708946	42	3.0	43	89	5	184	41	8	24	25	1.83
28708823--28708982	42	3.8	42	86	4	180	40	9	23	26	1.85
28717059--28717294	117	2.0	117	98	0	454	38	14	23	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28720526--28720551	13	2.0	13	100	0	52	38	15	7	38	1.76
28726745--28726798	18	3.0	18	80	0	63	24	11	22	42	1.85
28731023--28731088	30	2.3	28	82	12	80	19	7	10	62	1.51
28735525--28735554	2	15.0	2	100	0	60	50	0	0	50	1.00
28737399--28737438	20	2.0	21	85	5	55	42	22	22	12	1.87
28742485--28742523	17	2.3	17	86	0	51	17	12	23	46	1.83
28745741--28745770	14	2.1	14	100	0	60	30	20	20	30	1.97
28749357--28749425	30	2.3	30	92	0	111	26	5	13	55	1.60
28749450--28749509	24	2.4	26	83	10	81	45	10	11	33	1.74
28749608--28749669	12	5.2	12	76	0	70	45	16	16	22	1.85
28749606--28749669	24	2.7	24	100	0	128	45	17	15	21	1.85
28758091--28758122	2	16.0	2	93	0	55	50	3	0	46	1.17
28758733--28758780	17	2.8	17	77	0	51	52	8	14	25	1.69
28759182--28759239	15	3.9	14	82	10	64	1	31	1	65	1.13
28759183--28759226	20	2.2	20	87	0	61	2	31	2	63	1.19
28760995--28761042	24	2.0	25	84	12	64	70	6	8	14	1.31
28768810--28768840	12	2.6	12	94	0	53	70	9	0	19	1.14
28768962--28769059	23	4.3	22	80	12	83	69	20	3	7	1.26
28768962--28769068	44	2.4	45	80	13	114	70	19	3	6	1.26
28768979--28769044	12	5.6	12	78	10	73	72	19	1	6	1.13
28768983--28769057	12	6.3	12	70	7	55	69	21	4	5	1.25
28770393--28770443	17	3.1	16	74	20	52	37	0	1	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28770376--28770437	25	2.6	24	76	5	63	29	1	1	67	1.09
28770731--28770782	20	2.5	20	75	9	52	44	0	3	51	1.19
28777800--28778154	29	12.0	30	78	7	264	36	24	1	37	1.67
28777941--28778154	59	3.6	57	78	12	202	36	26	0	36	1.61
28782521--28782560	14	2.7	15	84	7	55	85	5	10	0	0.75
28783465--28783530	22	3.0	22	81	12	75	80	0	10	9	0.91
28783467--28783572	6	18.2	6	72	11	60	78	0	16	5	0.93
28783467--28783567	23	4.4	22	78	12	73	79	0	14	5	0.92
28783477--28783551	36	2.1	36	82	5	89	80	0	13	6	0.91
28783511--28783567	23	2.4	23	88	2	78	78	0	17	3	0.88
28783784--28783847	32	2.0	32	96	0	119	23	14	25	37	1.92
28784534--28784704	49	3.5	49	78	4	182	36	15	30	17	1.91
28785102--28785552	39	11.6	39	71	7	270	23	31	19	25	1.98
28785058--28785751	78	8.9	78	82	4	643	24	31	19	24	1.98
28785059--28785747	39	17.7	39	69	10	239	24	31	19	24	1.98
28787572--28788165	30	20.1	29	79	7	464	36	25	2	36	1.68
28787571--28788156	59	9.9	60	80	6	520	36	25	2	36	1.68
28787568--28788156	89	6.6	87	81	7	582	35	25	2	36	1.68
28793081--28793118	2	19.0	2	94	0	67	50	2	0	47	1.15
28795228--28795285	27	2.1	27	81	6	64	20	12	29	37	1.89
28797371--28797423	26	2.2	23	86	10	70	15	7	11	66	1.44
28797370--28797423	24	2.2	25	90	6	83	14	7	11	66	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28799143--28799234	28	3.0	30	78	15	91	55	1	3	40	1.23
28801888--28801938	21	2.4	22	83	6	70	35	0	0	64	0.94
28805367--28805430	18	3.5	17	76	14	56	35	0	7	56	1.28
28805358--28805539	10	18.8	9	69	18	82	34	1	5	58	1.28
28805477--28805520	19	2.3	19	88	0	61	29	2	6	61	1.34
28807944--28808026	41	2.0	41	97	0	157	30	27	13	28	1.94
28810908--28810937	12	2.4	13	94	5	53	6	20	0	73	1.05
28812034--28812133	47	2.1	47	98	0	191	36	11	21	32	1.88
28813879--28813980	48	2.1	48	94	0	177	35	17	7	39	1.79
28818485--28818586	48	2.1	48	96	0	186	36	18	7	37	1.80

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   164   165   166   167   168   169   170   171