genome.fa.s4.2.7.7.80.10.50.1000.29.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  29  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)
9315053--9315180	43	2.9	43	81	11	154	32	33	13	20	1.91
9315063--9315180	41	2.7	43	85	7	159	30	35	13	20	1.91
9315134--9315254	55	2.1	56	86	4	163	26	31	15	26	1.96
9317332--9317383	25	2.1	25	96	0	95	21	28	13	36	1.91
9319252--9319302	24	2.1	24	85	0	66	41	0	3	54	1.19
9319304--9319353	22	2.2	23	82	13	59	54	6	4	36	1.44
9320806--9320848	18	2.4	18	92	7	70	44	0	0	55	0.99
9322430--9322568	48	2.9	48	82	2	161	33	14	28	23	1.94
9328711--9328874	29	5.6	29	82	6	197	29	3	29	37	1.74
9328704--9328871	61	2.9	58	81	7	205	29	4	29	36	1.76
9328701--9328874	90	2.0	86	82	8	208	28	4	29	37	1.75
9328767--9328910	29	5.1	28	77	10	125	34	2	27	35	1.72
9328829--9328904	28	2.7	27	88	8	100	39	2	23	34	1.69
9328836--9328927	26	3.3	28	81	9	98	35	3	22	38	1.71
9328778--9328937	29	5.6	28	76	12	103	35	3	24	37	1.71
9330506--9330556	26	1.9	26	84	4	66	21	3	25	49	1.67
9330535--9330582	19	2.5	20	89	3	71	20	6	22	50	1.71
9330586--9330696	6	19.5	6	71	15	67	57	4	0	37	1.19
9330587--9330621	11	3.2	11	83	0	52	54	0	0	45	0.99
9330591--9330691	17	6.1	17	82	5	127	57	4	0	37	1.20
9330586--9330627	22	1.9	22	90	0	66	59	0	0	40	0.97
9330602--9330691	34	2.7	33	91	6	146	58	5	0	35	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9330642--9330699	7	8.7	7	75	16	52	56	3	0	39	1.16
9333065--9333098	17	2.0	17	100	0	68	41	0	23	35	1.55
9333168--9333252	26	3.1	25	76	15	80	31	3	1	63	1.19
9333168--9333294	18	6.8	18	69	17	73	34	3	1	60	1.22
9333692--9333716	13	1.9	13	100	0	50	0	12	0	88	0.53
9336489--9336537	2	24.5	2	100	0	98	0	0	48	51	1.00
9339707--9339765	29	2.1	28	87	6	84	49	0	18	32	1.48
9349138--9349177	16	2.5	16	88	8	55	25	10	17	47	1.78
9349402--9349505	52	2.0	52	90	0	163	47	1	4	46	1.35
9350751--9350780	15	1.9	15	93	6	51	36	0	0	63	0.95
9350810--9350849	17	2.3	17	86	4	53	30	0	0	70	0.88
9350818--9350861	17	2.7	16	82	6	52	27	0	2	70	0.99
9350823--9350861	17	2.4	16	91	4	60	23	0	2	74	0.94
9350806--9350863	29	2.0	29	86	6	82	29	0	1	68	0.99
9351293--9351349	29	1.9	30	92	3	98	38	5	5	50	1.47
9351737--9351775	20	2.0	20	94	0	69	46	0	2	51	1.14
9354267--9354327	32	1.9	32	86	0	86	39	18	21	21	1.93
9355156--9355198	20	2.2	20	84	12	54	32	0	2	65	1.06
9357132--9357192	27	2.3	27	91	0	95	39	19	16	24	1.92
9367216--9367281	17	3.8	17	81	15	73	19	1	3	75	1.01
9367214--9367270	24	2.4	23	80	11	62	19	1	3	75	1.04
9367214--9367282	5	13.2	5	71	19	52	21	1	2	73	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9376710--9376739	8	3.8	8	95	0	51	50	0	0	50	1.00
9376891--9376934	19	2.4	18	85	11	54	68	2	9	20	1.28
9377478--9377524	17	2.7	18	78	18	55	48	0	8	42	1.33
9377487--9377522	17	2.2	16	90	9	56	50	0	8	41	1.33
9379137--9379334	98	2.0	98	87	1	281	38	14	17	29	1.89
9379462--9379493	17	1.9	17	93	6	57	75	0	6	18	1.01
9379448--9379510	24	2.7	23	82	5	63	68	3	6	22	1.27
9379672--9379963	29	10.1	28	72	12	126	35	5	26	31	1.80
9379726--9379887	85	1.9	88	82	8	208	40	4	25	29	1.76
9379618--9379925	29	10.6	30	75	11	198	36	4	26	32	1.78
9380882--9380946	6	10.8	6	74	12	62	50	1	4	43	1.32
9380884--9380946	17	3.9	17	79	12	78	52	1	4	41	1.32
9380884--9380942	31	1.9	31	92	0	100	52	1	5	40	1.33
9380922--9380974	27	2.0	27	88	7	81	54	5	0	39	1.24
9380885--9380957	17	4.5	17	75	17	68	53	2	4	39	1.34
9380953--9380985	12	2.8	12	86	4	50	57	3	0	39	1.14
9381582--9381626	15	2.8	16	81	15	56	55	0	6	37	1.26
9382761--9382847	30	2.9	29	85	10	104	41	22	0	35	1.54
9382878--9383110	59	4.0	59	80	6	235	32	25	4	37	1.77
9384790--9384930	17	8.4	18	74	13	106	55	4	0	39	1.25
9384810--9384936	29	4.6	28	80	14	133	57	4	0	37	1.20
9384790--9384930	35	4.2	34	78	13	150	55	4	0	39	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9384790--9384881	6	15.8	6	75	10	84	54	2	1	42	1.19
9385345--9385723	39	9.7	39	74	7	232	26	18	28	26	1.98
9385332--9385765	78	5.6	78	76	4	399	26	17	28	26	1.98
9385579--9385801	39	5.7	38	71	10	146	27	18	28	24	1.98
9385358--9385810	235	1.9	232	81	8	533	26	17	28	26	1.98
9385827--9385913	39	2.2	39	81	0	93	25	17	29	27	1.97
9385749--9385913	78	2.1	78	81	2	188	25	16	29	29	1.97
9393063--9393260	98	2.0	98	90	3	310	37	16	17	28	1.91
9393542--9393705	29	5.6	30	81	5	101	36	4	24	34	1.77
9393542--9393624	30	2.8	30	81	3	87	38	2	24	34	1.68
9393615--9393763	57	2.6	57	86	5	203	35	6	23	34	1.81
9393601--9393763	29	5.7	29	85	5	206	36	6	24	32	1.82
9395428--9395562	6	23.3	6	72	18	99	56	2	0	40	1.17
9395432--9395528	29	3.4	27	74	16	88	55	2	1	41	1.18
9395428--9395562	17	8.5	17	80	16	130	56	2	0	40	1.17
9395444--9395551	41	2.6	41	83	2	137	56	2	0	40	1.14
9395428--9395551	58	2.1	58	88	8	182	55	2	0	41	1.18
9395450--9395563	11	9.8	12	77	13	87	57	2	0	39	1.12
9400152--9400242	40	2.3	40	98	0	173	39	6	9	43	1.64
9408056--9408098	19	2.3	20	84	11	56	53	0	6	39	1.28
9413523--9413587	24	2.7	24	87	0	94	50	9	13	26	1.71
9417075--9417112	18	2.1	18	90	9	60	23	10	15	50	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9420273--9420366	40	2.3	40	75	0	98	30	22	25	21	1.98
9422763--9422793	15	2.0	16	93	6	55	22	6	0	70	1.09
9422698--9422877	88	2.0	88	97	0	342	31	7	13	47	1.71
9424217--9424252	15	2.4	15	95	0	63	63	0	2	33	1.08
9424776--9424830	19	2.9	19	77	0	65	49	3	0	47	1.19
9425340--9425394	19	2.7	21	81	16	62	60	5	0	34	1.20
9425340--9425394	21	2.7	21	83	8	69	60	5	0	34	1.20
9425360--9425404	21	2.1	21	84	8	56	60	6	0	33	1.23
9431382--9431417	15	2.4	15	85	0	54	50	2	16	30	1.60
9437711--9437735	6	4.2	6	100	0	50	84	0	16	0	0.63
9444024--9444126	23	4.5	23	80	8	97	12	20	26	40	1.88
9447416--9447453	2	19.0	2	100	0	76	50	0	0	50	1.00
9448015--9448084	23	3.0	23	89	2	95	41	17	12	28	1.86
9450589--9450627	6	6.5	6	87	0	51	23	30	0	46	1.53
9456985--9457135	58	2.6	58	77	11	148	41	5	20	32	1.77
9457128--9457259	30	4.4	29	76	8	115	35	1	22	40	1.64
9457120--9457239	30	4.0	30	79	7	129	37	1	24	36	1.65
9457120--9457239	60	2.0	59	84	7	154	37	1	24	36	1.65
9459144--9459198	17	3.2	17	80	10	67	49	1	1	47	1.23
9459598--9460137	200	2.7	199	85	4	654	22	23	19	34	1.97
9460001--9460482	115	4.2	115	92	0	766	21	21	23	34	1.97
9460951--9461755	49	16.2	51	80	6	627	14	24	20	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9460989--9461755	100	7.7	100	80	6	660	13	24	20	41	1.88
9462644--9462688	15	2.7	18	80	13	60	0	17	0	82	0.68
9462644--9462685	21	2.0	20	95	4	75	0	16	0	83	0.65
9462644--9462690	12	4.2	12	78	15	64	0	17	0	82	0.66
9462649--9462688	14	2.8	15	81	11	57	0	17	0	82	0.67
9463134--9463471	170	2.0	170	98	0	649	18	18	20	42	1.89
9463700--9463743	10	4.6	9	78	15	52	2	15	0	81	0.78
9463699--9463743	20	2.3	20	81	11	58	2	17	0	80	0.82
9467551--9467732	96	1.9	96	83	8	237	37	12	19	30	1.89
9467961--9468049	30	3.0	30	68	19	71	39	2	25	32	1.68

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