genome.fa.s4.2.7.7.80.10.50.1000.189.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  189  of  193  ( 23090 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)
58935055--58935102	15	3.2	15	82	5	53	45	0	0	54	0.99
58935593--58935627	17	2.1	17	89	5	54	20	5	0	74	1.02
58939281--58939316	19	1.9	18	94	5	63	55	0	2	41	1.14
58940851--58940886	18	2.0	18	100	0	72	22	38	11	27	1.88
58948816--58949558	74	10.1	74	92	0	1112	27	9	26	37	1.86
58951300--58951559	112	2.3	114	90	7	404	30	8	10	50	1.66
58960010--58960074	13	5.0	13	80	0	58	33	4	23	38	1.75
58960010--58960074	26	2.5	26	80	9	78	33	4	23	38	1.75
58962514--58962543	2	15.0	2	100	0	60	50	0	0	50	1.00
58972790--58972837	4	11.5	4	84	10	53	68	0	31	0	0.90
58972792--58972837	19	2.4	19	85	3	56	69	0	30	0	0.89
58972792--58972837	15	2.9	16	84	9	60	69	0	30	0	0.89
58973178--58973264	42	2.0	43	93	2	149	33	0	20	45	1.51
58973971--58974056	39	2.2	39	93	0	145	45	19	0	34	1.51
58973993--58974059	21	3.3	21	71	12	77	53	17	0	28	1.44
58978785--58978817	16	2.1	16	94	0	57	42	0	0	57	0.98
58978805--58978865	29	2.1	30	87	3	88	47	0	0	52	1.00
58978801--58978876	29	2.6	29	76	12	84	48	1	0	50	1.09
58980242--58980464	113	2.0	113	98	0	428	34	20	9	35	1.86
58983139--58983227	46	1.9	46	97	0	169	41	15	17	24	1.89
58984207--58984335	63	2.0	64	82	5	156	56	8	2	32	1.42
58985908--58985934	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58997099--58997127	14	2.1	14	100	0	58	31	13	6	48	1.69
59001641--59001673	16	2.0	17	88	5	50	63	6	0	30	1.18
59001755--59001799	18	2.7	18	86	10	60	53	0	0	46	1.00
59012669--59012846	68	2.6	69	88	5	247	36	0	10	52	1.36
59015592--59015627	17	2.1	17	100	0	72	36	22	16	25	1.94
59016031--59016081	24	2.1	24	85	3	66	56	5	3	33	1.42
59020563--59020601	15	2.4	16	87	8	53	35	0	0	64	0.94
59020577--59020670	30	3.0	30	71	10	82	44	1	2	52	1.20
59022642--59022678	13	2.8	13	87	0	56	24	0	21	54	1.45
59026234--59026285	12	4.3	12	82	0	68	71	15	1	11	1.23
59026234--59026375	68	2.1	69	81	6	164	68	19	4	8	1.33
59026291--59026380	24	4.0	24	73	16	84	66	22	4	6	1.33
59026341--59026418	35	2.2	36	84	13	108	69	19	3	7	1.29
59026261--59026413	68	2.3	65	78	17	161	69	19	4	6	1.29
59040126--59040150	1	25.0	1	100	0	50	0	100	0	0	0.00
59048706--59048736	3	10.3	3	100	0	62	64	0	0	35	0.94
59053891--59053939	25	1.9	25	87	4	71	24	12	12	51	1.73
59082957--59083004	2	24.0	2	100	0	96	50	0	0	50	1.00
59089970--59090013	18	2.4	19	80	3	54	13	25	0	61	1.32
59095841--59095895	25	2.2	24	75	12	58	54	0	1	43	1.10
59095852--59095900	25	2.0	24	92	4	80	46	0	0	53	1.00
59096057--59096117	32	1.9	32	82	0	77	37	21	14	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59096615--59096655	13	3.1	14	75	10	50	46	4	0	48	1.23
59111842--59111870	3	9.7	3	100	0	58	31	0	0	68	0.89
59116130--59116167	2	19.0	2	100	0	76	50	0	0	50	1.00
59116479--59116868	192	2.0	194	94	1	694	37	11	15	36	1.82
59119228--59119261	17	2.0	17	88	0	50	52	0	2	44	1.16
59120549--59120597	16	3.1	15	82	11	53	22	4	10	63	1.43
59142391--59142425	2	17.5	2	93	0	61	48	0	0	51	1.00
59142427--59142458	2	16.0	2	100	0	64	50	0	50	0	1.00
59152403--59152452	18	2.8	18	84	6	66	40	16	10	34	1.81
59152584--59152653	36	1.9	36	97	0	131	31	17	15	35	1.91
59152931--59152960	15	2.0	15	93	0	51	43	0	0	56	0.99
59160639--59160664	8	3.2	8	100	0	52	38	0	0	61	0.96
59161823--59161861	20	2.0	20	84	0	51	46	0	7	46	1.31
59174718--59174804	23	3.7	23	76	4	86	40	14	12	32	1.84
59175784--59175846	28	2.2	28	88	5	92	47	0	1	50	1.10
59176820--59176873	23	2.3	23	100	0	108	59	11	7	22	1.56
59180771--59180952	89	2.0	89	79	6	190	26	19	18	36	1.94
59181093--59181164	36	2.0	36	100	0	144	38	11	5	44	1.63
59187377--59187457	23	3.6	22	86	3	108	37	27	22	13	1.91
59187352--59187498	23	6.3	23	78	10	99	40	23	23	12	1.89
59196257--59196287	9	3.3	9	95	4	53	77	0	0	22	0.77
59196573--59196626	28	1.9	28	81	7	65	27	18	1	51	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59202388--59202477	43	2.1	43	85	0	117	31	15	22	31	1.95
59206235--59206274	21	1.9	21	84	0	53	32	15	12	40	1.84
59207167--59207336	48	3.5	48	82	0	205	24	18	27	30	1.98
59207167--59207347	96	1.9	96	83	0	236	25	18	25	30	1.98
59209591--59209691	36	2.8	36	90	0	166	31	14	28	24	1.95
59217269--59217313	24	1.9	23	81	4	54	24	15	0	60	1.36
59223258--59223297	20	2.0	20	85	5	53	45	0	20	35	1.51
59225008--59225180	23	7.4	23	82	8	183	12	21	21	43	1.86
59225008--59225183	69	2.5	68	84	9	205	12	21	21	44	1.85
59228465--59229743	305	4.2	306	88	4	1992	41	15	13	29	1.85
59230747--59230808	28	2.2	27	83	11	72	33	0	3	62	1.11
59230763--59230817	28	2.0	28	82	13	69	41	0	3	54	1.18
59240434--59240502	29	2.5	28	80	17	81	50	2	0	46	1.16
59243611--59243645	18	1.9	18	100	0	70	40	22	11	25	1.88
59259681--59259741	28	2.2	28	80	11	72	24	4	8	62	1.43
59261269--59261312	23	2.0	22	86	4	61	36	0	11	52	1.38
59265873--59265922	18	2.8	18	80	17	59	62	2	4	32	1.25
59268857--59268882	8	3.2	8	100	0	52	34	0	0	65	0.93
59268827--59268940	42	2.8	40	84	5	140	48	8	0	42	1.40
59269164--59269190	6	4.5	6	100	0	54	55	14	0	29	1.40
59269902--59269970	23	3.0	23	100	0	138	39	17	21	21	1.93
59272703--59272874	43	4.0	43	79	0	155	29	15	25	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59274921--59274965	23	2.0	22	82	4	54	26	20	22	31	1.98
59275813--59275889	31	2.5	31	76	13	79	36	11	12	38	1.80
59301146--59301171	2	13.0	2	100	0	52	50	0	0	50	1.00
59301696--59301721	6	4.3	6	100	0	52	15	38	15	30	1.88
59303430--59303454	13	1.9	13	100	0	50	36	0	16	48	1.46
59313719--59313760	20	2.0	21	82	13	52	45	7	4	42	1.52
59313870--59313901	13	2.4	14	90	10	50	28	0	12	59	1.34
59318342--59318382	6	6.8	6	100	0	82	17	14	0	68	1.22
59318820--59318886	30	2.3	31	82	12	79	34	1	7	56	1.36
59322828--59322898	24	3.0	23	81	6	88	77	1	5	15	1.02
59329368--59329436	27	2.4	27	76	11	66	56	0	0	43	0.99
59329365--59329448	32	2.9	28	73	16	80	57	0	0	42	0.99
59335046--59335078	16	2.1	16	88	5	50	39	3	3	54	1.31
59336108--59336135	13	2.2	13	100	0	56	35	0	14	50	1.43
59340991--59341465	238	2.0	237	95	0	851	25	15	13	45	1.83
59343506--59343549	3	14.7	3	100	0	88	34	0	0	65	0.93
59345411--59345456	21	2.1	22	84	4	58	28	4	8	58	1.47
59351248--59351283	6	6.0	6	100	0	72	16	0	66	16	1.25
59365912--59365958	7	7.0	7	95	4	80	40	0	44	14	1.46
59370135--59370169	19	1.9	18	88	11	54	45	2	17	34	1.63
59370142--59370205	30	2.1	30	85	5	85	42	4	15	37	1.68
59370738--59370856	52	2.3	52	98	0	229	42	14	15	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59371982--59372025	4	11.0	4	100	0	88	25	50	0	25	1.50
59375564--59375627	32	1.9	34	84	6	87	48	6	0	45	1.27
59384618--59384646	15	2.0	15	93	6	51	62	0	3	34	1.12
59388399--59388437	19	2.1	19	100	0	78	58	5	5	30	1.41
59391445--59391480	19	1.9	19	88	5	56	22	2	19	55	1.56
59400535--59400564	6	5.0	6	91	0	51	33	20	0	46	1.51
59408433--59408457	6	4.2	6	100	0	50	68	16	16	0	1.22
59411227--59411268	13	2.9	15	79	13	52	59	0	0	40	0.97
59412160--59412210	24	2.0	26	85	7	70	37	1	5	54	1.36
59412933--59412981	25	1.9	26	84	12	66	51	6	0	42	1.27

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193