genome.fa.s9.2.7.7.80.10.50.1000.126.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  126  of  182  ( 21729 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)
40172560--40172693	34	3.9	34	81	2	144	44	0	37	18	1.50
40172564--40172626	18	3.6	19	75	18	73	36	0	41	22	1.54
40172729--40172776	15	3.2	15	74	11	53	50	0	0	50	1.00
40172736--40172778	23	2.0	23	86	9	63	55	0	0	44	0.99
40173132--40173195	6	10.5	6	72	12	51	46	1	3	48	1.27
40174823--40175059	30	7.9	29	74	7	179	35	27	2	35	1.69
40174823--40175048	61	3.8	61	77	5	210	35	26	1	36	1.67
40178401--40178766	161	2.3	158	83	3	455	39	18	19	23	1.93
40178721--40178831	48	2.3	48	82	4	134	38	16	21	23	1.92
40179224--40179252	12	2.3	13	94	5	51	51	0	0	48	1.00
40179241--40179294	27	2.0	28	85	3	74	46	12	3	37	1.60
40180886--40181268	59	6.4	62	77	8	198	33	26	3	37	1.72
40180922--40181268	89	3.9	90	79	5	330	33	26	2	36	1.71
40180886--40181268	30	12.8	30	80	6	334	33	26	3	37	1.72
40181762--40181797	18	2.0	18	88	0	54	33	13	0	52	1.41
40183474--40183609	41	3.2	41	67	15	123	51	8	5	34	1.55
40183465--40183624	86	1.9	86	98	0	311	52	8	4	35	1.51
40183499--40183632	41	3.2	41	66	19	105	54	8	3	33	1.48
40183914--40183953	19	2.1	19	85	4	53	0	5	27	67	1.11
40183961--40184030	12	5.8	12	77	0	59	10	5	15	68	1.36
40184075--40184130	23	2.4	23	85	5	69	21	10	7	60	1.53
40190298--40190348	23	2.2	24	82	3	59	31	21	3	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40192200--40192268	35	2.0	35	94	0	120	24	18	13	43	1.86
40196571--40196624	24	2.2	24	90	6	83	33	1	3	61	1.25
40198889--40198931	3	14.3	3	100	0	86	67	0	0	32	0.91
40200186--40200295	9	12.1	9	70	16	75	63	0	3	31	1.18
40200657--40200697	18	2.3	18	100	0	82	56	0	9	34	1.32
40208919--40209004	25	3.1	30	80	17	121	45	11	10	32	1.75
40212354--40212387	12	2.8	12	100	0	68	32	8	32	26	1.87
40220591--40220629	10	3.6	10	83	16	51	51	0	2	46	1.14
40222998--40223135	12	12.8	11	67	17	76	7	2	18	72	1.18
40222998--40223148	19	7.1	21	78	12	116	7	1	18	72	1.18
40223053--40223177	12	10.8	12	70	12	84	9	4	17	68	1.35
40223073--40223122	15	3.5	15	79	17	54	8	4	16	72	1.24
40223090--40223191	43	2.3	43	81	5	107	9	3	18	67	1.34
40223305--40223389	39	2.2	38	81	10	100	27	0	7	65	1.18
40229666--40229711	15	3.2	15	75	6	51	54	0	0	45	0.99
40230111--40230155	21	2.1	21	83	0	54	26	6	2	64	1.30
40230754--40230823	29	2.3	29	83	9	79	40	10	7	42	1.66
40246532--40246686	84	1.9	82	85	10	217	18	16	38	25	1.92
40247314--40247373	29	2.1	29	87	0	84	26	13	13	46	1.80
40251658--40251692	18	1.9	18	88	0	52	68	2	0	28	1.04
40252621--40252664	22	2.0	23	86	4	63	36	0	0	63	0.95
40255998--40256096	6	16.8	6	76	12	80	49	0	2	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40256006--40256096	36	2.5	34	82	10	101	50	0	2	47	1.13
40255988--40256073	11	7.5	11	71	16	59	44	0	3	52	1.18
40255988--40256071	16	5.2	17	71	11	61	44	0	3	52	1.18
40256132--40256185	14	4.0	14	85	9	85	35	27	16	20	1.94
40256132--40256185	26	2.0	27	89	7	83	35	27	16	20	1.94
40256227--40256267	20	2.0	20	90	0	64	14	46	19	19	1.84
40256793--40256824	3	10.7	3	100	0	64	68	0	0	31	0.90
40257914--40258088	30	5.8	30	85	6	221	35	25	4	35	1.75
40258037--40258287	59	4.2	58	89	4	333	33	27	3	35	1.73
40258067--40258287	30	7.4	30	68	12	134	33	28	3	34	1.75
40270247--40270334	23	3.8	23	84	4	97	28	11	17	43	1.83
40270299--40270346	23	2.1	23	84	7	62	39	10	16	33	1.83
40275060--40275093	17	2.0	17	88	0	50	61	0	5	32	1.20
40282528--40282590	24	2.7	23	75	7	63	69	4	17	7	1.30
40283892--40284063	30	5.8	29	80	9	145	38	2	22	37	1.67
40283892--40284063	60	2.9	59	82	10	181	38	2	22	37	1.67
40285173--40285216	21	2.0	21	83	12	54	40	4	0	54	1.21
40285181--40285223	18	2.6	16	92	7	68	39	2	0	58	1.11
40285944--40286034	6	16.2	6	73	19	63	57	3	0	39	1.15
40285947--40286037	17	5.5	15	79	14	83	54	3	0	41	1.16
40285963--40286037	11	6.8	11	77	11	82	56	2	0	41	1.13
40286350--40286879	49	11.3	48	67	24	186	27	18	19	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40286396--40286651	92	2.8	92	91	2	421	28	18	19	33	1.95
40286485--40286793	141	2.2	142	89	3	478	28	18	18	34	1.95
40286315--40286885	233	2.5	232	94	1	1004	27	18	19	34	1.95
40286629--40286937	92	3.4	92	92	2	509	28	17	19	34	1.95
40288986--40289029	22	2.0	22	95	0	79	15	36	15	31	1.90
40299016--40299129	29	3.9	29	76	16	112	36	5	29	28	1.79
40299019--40299160	59	2.4	60	81	11	161	38	4	27	30	1.76
40299079--40299170	30	3.1	30	87	6	125	35	3	27	33	1.73
40299091--40299214	30	4.2	30	75	10	103	37	1	20	40	1.63
40300324--40300367	21	2.0	21	83	12	54	40	4	0	54	1.21
40300332--40300374	18	2.6	16	92	7	68	39	2	0	58	1.11
40301096--40301186	6	16.2	6	71	19	54	56	3	1	39	1.23
40301115--40301189	11	6.8	11	75	11	73	54	2	1	41	1.23
40301099--40301195	17	5.8	16	80	7	95	54	4	1	40	1.26
40307264--40307324	29	2.1	28	91	8	97	37	6	6	49	1.55
40319695--40319946	126	2.0	127	86	5	350	30	17	19	32	1.95
40320001--40320058	30	1.9	30	92	0	98	22	29	17	31	1.96
40319970--40320096	68	1.9	68	83	3	166	27	25	14	31	1.95
40320031--40320185	38	4.2	37	81	6	154	27	25	13	32	1.94
40320061--40320185	37	3.4	37	84	6	103	29	24	12	33	1.92
40320491--40320576	45	2.0	43	81	9	102	48	10	9	31	1.69
40321031--40321113	14	6.1	14	70	6	64	38	25	7	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40324596--40324629	17	1.9	18	94	5	61	29	0	0	70	0.87
40324765--40324945	73	2.4	72	80	9	179	29	8	14	46	1.75
40324733--40324935	37	5.5	36	72	14	137	28	9	14	47	1.76
40325505--40325532	5	5.6	5	100	0	56	78	0	0	21	0.75
40325585--40325726	31	4.8	31	78	12	120	37	2	20	39	1.67
40325611--40325770	60	2.7	59	80	10	166	36	1	21	40	1.64
40325607--40325762	30	5.2	29	78	9	134	35	1	20	41	1.64
40326848--40326883	19	2.0	17	89	10	54	63	0	0	36	0.94
40327087--40327118	16	2.0	16	100	0	64	43	12	12	31	1.80
40330183--40330346	40	4.1	40	76	3	168	26	14	20	37	1.92
40330172--40330346	80	2.2	80	86	2	235	26	15	21	37	1.93
40338246--40338291	25	1.9	23	86	8	65	36	4	4	54	1.40
40339356--40339387	10	3.0	11	90	9	57	28	0	0	71	0.86
40344896--40344930	12	3.0	12	91	4	54	22	5	0	71	1.07
40345880--40345936	13	4.4	13	80	10	55	78	1	15	3	0.96
40346953--40346998	25	1.9	23	86	8	65	34	4	6	54	1.46
40349848--40349906	21	2.8	21	92	5	93	44	5	27	23	1.74
40349851--40349918	21	3.2	21	87	0	91	41	5	29	23	1.78
40350156--40350193	19	2.0	20	84	5	51	31	5	31	31	1.80
40357193--40357238	21	2.2	21	84	0	56	32	2	19	45	1.62
40369532--40369591	22	2.8	22	87	7	79	73	1	10	15	1.17
40369558--40369587	15	1.9	16	93	6	53	70	0	13	16	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40370393--40370435	19	2.3	19	84	8	52	58	4	0	37	1.19
40371988--40372035	8	5.3	9	85	14	64	79	0	0	20	0.74
40371988--40372032	19	2.5	20	82	17	62	80	0	0	20	0.72
40371989--40372029	5	8.6	5	84	15	52	80	0	0	19	0.71
40371989--40372035	23	2.0	23	88	8	69	80	0	0	19	0.70
40371993--40372035	18	2.5	17	85	14	61	81	0	0	18	0.69
40374793--40374852	21	2.8	22	92	7	97	73	0	8	18	1.08
40384884--40385027	39	3.8	38	82	3	173	40	20	13	24	1.89
40384884--40385042	78	2.1	76	83	2	192	40	21	13	24	1.90
40387338--40388119	389	2.0	389	92	0	1305	28	17	21	32	1.96

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