genome.fa.s4.2.7.7.80.10.50.1000.160.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  160  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)
49463456--49463513	18	3.2	18	82	4	64	34	8	36	20	1.84
49464081--49464111	15	2.0	16	93	6	55	48	0	0	51	1.00
49464672--49464701	15	1.9	16	93	6	53	60	6	23	10	1.52
49465574--49465611	18	2.1	18	90	9	60	50	15	10	23	1.75
49467919--49468021	40	2.5	40	95	1	179	33	13	22	30	1.92
49469177--49469209	15	2.2	16	89	10	52	69	0	0	30	0.88
49471093--49471390	161	1.9	161	81	0	371	21	22	23	32	1.98
49472871--49472897	14	1.9	14	100	0	54	51	3	0	44	1.19
49472872--49472917	10	5.0	9	78	21	51	47	6	0	45	1.28
49472875--49472932	10	5.8	10	72	22	50	44	6	3	44	1.47
49473917--49473992	11	7.2	10	81	8	71	28	0	2	68	1.03
49473917--49473992	10	7.1	11	80	8	54	28	0	2	68	1.03
49482417--49482661	93	2.6	93	88	0	346	28	19	22	29	1.98
49487343--49487394	3	17.3	3	88	7	79	0	30	0	69	0.89
49496677--49496723	21	2.2	22	81	11	53	61	8	4	25	1.43
49501121--49501396	93	3.0	93	91	2	437	30	23	19	26	1.98
49502722--49502935	81	2.6	81	79	4	216	38	27	15	18	1.91
49502946--49503043	27	3.6	27	77	2	90	26	27	17	28	1.98
49503973--49504024	25	2.0	25	88	3	77	65	11	11	11	1.48
49506655--49506708	26	2.1	26	92	0	90	40	27	5	25	1.78
49507141--49507210	32	2.2	32	82	10	81	45	1	1	51	1.18
49514054--49514080	11	2.5	11	100	0	54	29	0	11	59	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49523587--49523627	11	3.8	11	87	3	57	46	0	0	53	1.00
49524463--49524512	11	3.8	13	82	17	68	54	0	0	46	1.00
49524481--49524521	15	2.6	16	80	11	57	48	0	0	51	1.00
49528855--49528960	47	2.3	47	96	0	194	45	6	23	24	1.77
49529915--49530031	57	2.1	56	82	10	148	45	6	17	29	1.75
49530896--49530953	17	3.6	16	82	11	57	39	6	5	48	1.52
49530988--49531029	22	2.0	22	90	4	68	0	14	2	83	0.75
49531328--49531361	13	2.6	13	90	0	50	29	0	2	67	1.05
49536454--49536512	23	2.6	23	86	5	75	10	28	18	42	1.83
49541012--49541068	22	2.5	23	80	13	64	38	3	14	43	1.62
49541561--49541611	6	8.5	6	97	0	93	1	64	0	33	1.05
49544044--49544220	90	2.0	90	87	4	259	49	9	6	34	1.62
49547269--49547311	6	7.2	6	89	0	59	20	30	0	48	1.50
49562157--49562212	27	2.1	27	100	0	112	33	10	7	48	1.65
49567713--49567762	25	1.9	27	84	8	68	54	0	2	44	1.11
49573662--49573728	31	2.2	31	94	0	116	53	7	17	20	1.68
49573911--49573964	12	4.7	12	77	6	58	7	1	16	74	1.14
49573922--49574015	24	3.9	24	80	6	91	8	3	19	69	1.29
49573934--49574017	12	6.8	12	75	5	87	8	3	17	70	1.27
49573957--49574012	26	2.2	24	84	6	67	8	5	17	67	1.36
49574025--49574064	22	1.9	20	90	10	62	12	15	7	65	1.47
49574025--49574071	23	2.2	20	85	11	58	17	12	6	63	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49574658--49574710	19	2.8	18	75	16	54	28	3	3	64	1.28
49581844--49581890	20	2.4	20	75	3	51	19	0	14	65	1.26
49585470--49585498	2	14.5	2	100	0	58	48	0	0	51	1.00
49588398--49588474	30	2.4	32	83	16	99	38	1	15	44	1.55
49588419--49588478	29	2.1	28	85	14	79	36	1	11	50	1.49
49588847--49588879	16	2.0	17	88	5	50	30	0	6	63	1.18
49594559--49594619	31	2.0	31	90	0	95	52	8	0	39	1.31
49599875--49599928	21	2.6	21	79	5	65	37	20	16	25	1.93
49605775--49605849	30	2.5	30	88	0	123	18	29	14	37	1.91
49612626--49612666	16	2.5	17	88	4	57	70	0	0	29	0.87
49612677--49612742	25	2.7	25	84	9	84	62	1	0	36	1.05
49612629--49612752	55	2.3	55	80	9	139	60	2	0	36	1.16
49612629--49612739	55	2.1	54	83	11	140	62	1	0	35	1.12
49613580--49613629	19	2.8	17	77	11	55	44	2	6	48	1.39
49614199--49614230	12	2.7	12	95	0	55	56	0	0	43	0.99
49614213--49614252	21	1.9	21	84	0	53	42	0	0	57	0.98
49614210--49614269	20	3.0	20	80	4	66	40	0	0	60	0.97
49614225--49614286	10	6.0	10	75	5	52	27	0	1	70	0.96
49617646--49617685	20	2.0	20	90	4	64	27	2	0	70	1.01
49618877--49618928	20	2.5	21	87	6	70	46	0	3	50	1.20
49618877--49618913	11	3.5	11	82	14	51	51	0	2	45	1.15
49619892--49619948	19	3.1	19	79	5	71	49	1	0	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49619894--49619949	18	3.0	19	78	5	69	51	1	0	46	1.11
49624108--49624140	15	2.1	17	88	11	52	36	6	39	18	1.75
49635225--49635289	29	2.3	28	83	2	85	38	3	4	53	1.37
49635687--49635716	15	2.0	15	93	0	51	90	3	6	0	0.56
49636316--49636357	16	2.6	17	85	11	61	54	2	0	42	1.13
49639001--49639064	27	2.3	28	76	15	71	60	4	10	23	1.48
49639827--49639867	21	1.9	22	85	5	57	56	4	4	34	1.42
49645858--49645887	15	2.0	15	93	0	51	16	0	10	73	1.09
49660744--49660795	20	2.8	18	78	21	63	51	3	1	42	1.31
49670942--49670993	23	2.3	23	83	6	61	67	3	7	21	1.32
49671000--49671111	12	9.8	12	67	15	60	67	19	4	8	1.33
49671021--49671086	15	4.5	15	72	14	57	66	18	6	9	1.40
49670986--49671121	43	3.1	42	82	8	141	68	19	4	8	1.32
49671135--49671185	22	2.3	22	76	6	59	66	21	7	3	1.34
49675904--49676020	58	2.1	56	82	9	139	39	5	14	41	1.68
49676658--49676694	17	2.2	17	90	0	56	59	2	0	37	1.12
49681932--49681983	26	2.0	26	96	0	95	28	19	21	30	1.97
49681941--49681987	14	3.5	14	71	11	53	23	21	19	36	1.95
49682298--49682651	176	2.0	176	97	0	672	27	13	18	40	1.88
49692477--49692587	22	4.9	22	85	6	150	42	25	21	10	1.85
49692477--49692587	47	2.5	44	84	8	150	42	25	21	10	1.85
49697177--49697280	52	2.0	52	100	0	208	28	11	19	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49710547--49710580	17	2.0	17	88	0	50	0	29	0	70	0.87
49717605--49717639	14	2.5	14	85	0	52	62	2	0	34	1.10
49725213--49725245	16	2.2	16	89	10	52	66	3	0	30	1.06
49741000--49741116	25	4.3	26	72	21	82	59	1	3	35	1.24
49741032--49741116	9	9.5	8	78	19	80	60	2	2	35	1.23
49741666--49741851	9	20.0	9	68	18	71	33	3	2	60	1.27
49744029--49744093	30	2.1	32	85	5	89	49	0	3	47	1.17
49749525--49749562	3	12.7	3	94	0	67	71	0	28	0	0.87
49749892--49749932	16	2.6	16	88	0	64	7	12	26	53	1.64
49750230--49750254	13	1.9	13	100	0	50	44	8	24	24	1.80
49750257--49750281	12	2.1	12	100	0	50	60	16	8	16	1.58
49750647--49750688	18	2.3	18	87	0	57	21	11	35	30	1.90
49751374--49751443	21	3.2	21	67	21	63	55	25	4	14	1.57
49751375--49751447	23	3.3	23	66	14	71	57	26	4	12	1.53
49751365--49751452	44	2.0	44	97	0	167	54	26	4	14	1.59
49751457--49751513	11	5.1	11	81	12	71	52	22	10	14	1.71
49751470--49751532	33	1.9	33	84	12	85	52	23	9	14	1.71
49753853--49753949	31	3.2	29	72	24	85	36	3	28	31	1.73
49753853--49754026	59	3.0	58	85	3	233	36	2	27	32	1.72
49753853--49753960	29	3.6	30	72	14	98	36	2	28	32	1.72
49755742--49755804	16	3.8	17	75	6	67	55	4	0	39	1.21
49755745--49755797	27	2.0	27	84	0	70	56	5	0	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49756142--49756971	200	4.1	200	90	2	1209	20	23	20	35	1.96
49769067--49769166	29	3.4	27	67	28	71	35	1	32	32	1.65
49769043--49769335	59	5.0	59	90	1	446	34	2	29	33	1.69
49769043--49769330	119	2.4	117	90	4	479	35	1	28	34	1.68
49770291--49770332	20	2.1	20	86	0	57	40	0	0	59	0.97
49771133--49771195	16	3.8	17	75	6	67	55	4	0	39	1.21
49771117--49771188	27	2.7	27	77	0	72	52	4	1	41	1.29
49772585--49772682	22	4.5	22	76	10	83	21	25	25	27	1.99
49772596--49772681	11	7.8	11	80	5	84	19	24	27	27	1.99
49772590--49772681	33	2.8	33	78	6	114	19	23	27	29	1.98

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