genome.fa.s3.2.7.7.80.10.50.1000.169.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  169  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)
50072203--50072241	20	1.9	20	89	5	60	69	2	0	28	1.02
50075304--50075342	18	2.1	19	85	4	53	46	2	2	48	1.29
50079300--50079324	13	1.9	13	100	0	50	52	0	0	48	1.00
50080152--50080714	49	11.5	48	70	14	346	17	25	18	38	1.93
50080145--50080730	98	6.0	98	87	2	764	17	25	18	38	1.93
50080145--50080730	295	2.0	294	87	1	832	17	25	18	38	1.93
50082441--50082557	60	2.0	59	90	8	184	9	18	12	58	1.60
50085638--50085956	29	10.8	29	79	7	279	36	27	4	31	1.76
50085641--50085956	59	5.4	58	80	5	305	37	26	4	31	1.76
50086059--50086119	28	2.1	29	88	8	90	36	27	11	24	1.90
50101862--50101952	39	2.4	39	83	7	98	30	17	21	29	1.96
50101879--50101958	39	2.0	40	92	2	135	31	17	21	30	1.96
50106739--50106829	39	2.3	38	83	7	103	29	16	23	30	1.96
50106756--50106835	39	2.0	40	92	2	135	30	16	22	31	1.96
50107324--50107354	16	1.9	16	100	0	62	25	16	6	51	1.68
50120886--50121069	60	3.1	60	81	3	201	26	14	11	47	1.78
50125222--50125662	72	6.1	72	92	0	666	25	19	25	29	1.98
50132365--50132423	24	2.5	24	85	0	91	50	10	11	27	1.71
50134321--50134383	24	2.6	24	87	0	90	50	9	14	25	1.72
50145074--50145134	24	2.5	24	92	5	97	22	6	9	60	1.51
50146550--50146815	109	2.4	109	92	2	437	43	13	11	30	1.80
50153214--50153264	24	2.1	24	85	0	66	23	7	9	58	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50155161--50155223	24	2.6	24	82	0	81	26	12	11	49	1.74
50156603--50156654	24	2.1	25	82	10	63	42	5	21	30	1.76
50157826--50157874	24	2.0	25	88	8	73	26	6	10	57	1.55
50159804--50159854	24	2.1	24	88	0	75	23	13	7	54	1.65
50164560--50164589	15	2.1	14	93	6	51	33	0	0	66	0.92
50166085--50166473	29	13.2	29	71	15	144	32	3	27	37	1.72
50165948--50166481	59	9.1	58	78	9	367	34	4	25	35	1.76
50166094--50166499	30	13.7	29	72	14	206	34	2	25	37	1.71
50166182--50166473	88	3.3	87	74	8	259	33	2	26	36	1.71
50166065--50166481	59	7.1	58	80	4	401	34	3	25	36	1.73
50166211--50166518	29	10.4	30	75	9	118	36	2	24	37	1.70
50167592--50167673	3	28.0	3	74	9	71	36	1	3	58	1.24
50168431--50168479	6	8.5	6	77	8	57	57	4	0	38	1.18
50168431--50168474	17	2.6	17	92	0	79	56	4	0	38	1.20
50181885--50182063	72	2.5	72	91	0	277	27	20	23	29	1.99
50183931--50184006	25	3.0	25	75	7	64	59	3	1	35	1.24
50184608--50184644	12	2.8	14	80	12	51	51	2	0	45	1.15
50190817--50190862	23	2.0	23	91	0	74	36	23	15	23	1.93
50191688--50191721	17	2.0	17	88	0	50	23	5	5	64	1.38
50206038--50206065	9	3.1	9	100	0	56	21	0	0	78	0.75
50218128--50218459	29	11.4	30	70	16	105	34	3	25	36	1.74
50218252--50218397	55	2.6	58	83	9	183	34	3	28	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50218188--50218458	143	1.9	142	79	6	307	33	3	26	36	1.74
50218236--50218440	58	3.6	59	75	9	176	36	2	25	34	1.71
50220393--50220498	6	18.3	6	72	7	67	56	3	1	37	1.28
50220414--50220501	17	5.1	17	81	2	104	57	4	2	35	1.31
50220393--50220446	23	2.3	23	87	0	72	53	3	1	40	1.29
50220415--50220501	34	2.5	35	90	1	140	58	4	2	34	1.31
50221307--50221459	72	2.1	72	89	2	227	26	18	22	32	1.97
50237389--50237413	13	1.9	13	100	0	50	52	24	0	24	1.48
50239749--50239790	21	2.0	21	95	0	75	26	16	9	47	1.77
50246054--50246161	6	18.0	6	74	17	82	48	0	1	49	1.18
50246058--50246122	17	4.1	15	81	15	78	43	0	3	53	1.16
50246062--50246125	31	2.1	31	91	5	103	43	0	3	53	1.16
50246054--50246161	42	2.6	41	80	7	110	48	0	1	49	1.18
50246327--50246382	15	3.9	14	80	20	62	21	55	10	12	1.67
50246502--50246968	238	2.0	238	99	0	925	43	15	13	26	1.84
50248298--50248496	30	6.6	30	85	0	272	37	26	4	32	1.75
50248298--50248670	60	6.3	60	87	5	314	34	27	4	34	1.77
50248478--50248819	58	5.9	59	87	2	494	30	27	5	35	1.80
50248478--50248819	117	2.9	117	89	1	508	30	27	5	35	1.80
50260747--50261268	68	7.6	68	92	1	841	34	17	20	27	1.95
50261640--50261736	6	15.8	6	74	16	74	49	1	2	47	1.20
50261640--50261700	31	2.0	31	90	6	97	44	0	3	52	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50261619--50261736	11	10.5	11	68	19	57	47	1	2	48	1.25
50261629--50261736	42	2.6	41	79	7	110	48	1	1	48	1.23
50261640--50261697	17	3.6	16	79	13	66	43	0	3	53	1.17
50261902--50261957	15	3.9	14	80	20	62	21	55	10	12	1.67
50262077--50262540	235	2.0	235	100	0	928	43	15	13	26	1.84
50263876--50264097	30	7.4	30	87	0	318	37	25	3	33	1.73
50264085--50264427	59	5.8	58	88	2	490	31	26	4	37	1.78
50264052--50264427	177	2.1	176	87	5	544	31	26	5	36	1.78
50268904--50268992	31	3.0	29	76	11	90	40	14	8	35	1.78
50271615--50271657	21	2.0	21	86	0	59	9	9	18	62	1.51
50271712--50271751	19	2.1	19	90	0	62	35	7	2	55	1.42
50273152--50273309	81	2.0	81	94	0	280	36	15	15	32	1.89
50273888--50274040	80	1.9	79	85	6	211	35	25	16	21	1.95
50278876--50278974	49	2.0	49	100	0	198	34	10	10	45	1.71
50280587--50280654	9	7.6	9	70	9	50	54	2	0	42	1.15
50283442--50283482	20	2.1	19	86	13	57	68	4	2	24	1.22
50284174--50284234	24	2.5	24	83	0	77	50	8	13	27	1.69
50286571--50286614	18	2.4	18	81	7	54	11	9	65	13	1.46
50286574--50286599	6	4.3	6	100	0	52	15	0	69	15	1.20
50287928--50287981	15	3.4	16	76	18	60	42	1	1	53	1.22
50289966--50290003	2	19.0	2	100	0	76	0	0	50	50	1.00
50295371--50295402	2	16.0	2	100	0	64	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50299479--50299578	50	2.0	50	98	0	191	22	23	16	39	1.92
50302352--50302394	19	2.3	19	80	8	52	39	2	9	48	1.48
50305596--50305670	24	3.1	24	72	14	73	52	4	36	8	1.50
50305607--50305685	24	3.2	23	75	16	77	51	5	36	6	1.49
50305969--50306026	30	1.9	31	89	3	91	24	6	13	55	1.63
50308221--50308288	3	22.7	3	74	16	52	60	1	36	1	1.15
50308224--50308267	15	2.9	15	82	0	61	61	0	38	0	0.96
50308221--50308289	18	3.8	18	81	11	79	59	1	37	1	1.15
50308242--50308270	12	2.4	12	100	0	58	65	0	34	0	0.93
50308227--50308291	27	2.4	27	81	0	76	60	1	36	1	1.16
50311264--50311320	22	2.8	21	75	19	57	49	1	1	47	1.22
50318709--50318741	14	2.3	15	89	5	50	0	12	0	87	0.53
50326625--50326653	3	9.7	3	100	0	58	68	0	0	31	0.89
50326710--50326764	16	3.4	17	72	25	55	43	0	0	56	0.99
50330213--50330279	32	2.1	33	85	2	91	59	7	11	20	1.56
50330965--50331018	4	13.5	4	84	7	56	44	1	7	46	1.42
50330965--50331018	6	9.0	6	80	8	56	44	1	7	46	1.42
50332508--50332549	22	1.9	22	90	0	66	28	2	2	66	1.16
50335801--50335881	30	2.7	30	82	3	101	27	40	8	23	1.83
50336425--50336450	9	2.9	9	100	0	52	0	57	34	7	1.27
50344983--50345025	16	2.7	16	78	7	52	46	18	11	23	1.82
50347965--50347994	15	2.0	15	100	0	60	60	13	20	6	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50355135--50355185	2	25.5	2	100	0	102	49	0	0	50	1.00
50360918--50360980	17	3.5	17	74	19	65	50	3	3	42	1.34
50362756--50362895	38	3.7	38	80	0	154	32	30	22	15	1.94
50363360--50363392	16	2.1	16	88	11	50	30	18	3	48	1.63
50379854--50379879	5	5.2	5	100	0	52	0	19	0	80	0.71
50381908--50381969	29	2.1	29	87	0	88	45	0	4	50	1.23
50391555--50391581	7	3.9	7	100	0	54	44	0	0	55	0.99
50396206--50396257	19	2.6	21	85	11	65	25	0	5	69	1.10
50407748--50407806	29	2.0	30	90	3	93	49	11	8	30	1.69
50408179--50408257	31	2.7	28	79	14	81	46	15	8	29	1.75

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