genome.fa.s4.2.7.7.80.10.50.1000.188.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  188  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)
58640435--58640469	15	2.3	15	90	0	52	8	2	5	82	0.91
58644744--58644773	7	4.4	7	95	4	53	0	10	0	90	0.47
58645085--58645113	14	2.0	15	93	6	51	0	24	0	75	0.80
58647534--58647598	33	2.0	33	81	0	76	30	35	15	18	1.92
58647607--58647667	18	3.4	18	81	0	86	37	27	19	14	1.91
58647594--58647677	36	2.4	36	93	2	152	38	27	17	16	1.92
58647614--58647676	18	3.3	21	68	32	68	41	28	14	15	1.87
58654078--58654320	120	2.0	119	89	2	371	25	25	13	34	1.93
58654941--58654978	18	2.0	20	85	10	53	57	13	23	5	1.56
58659302--58659339	20	2.0	20	94	5	69	57	7	0	34	1.28
58669615--58669650	17	2.1	18	89	5	56	52	2	0	44	1.15
58670842--58670893	3	17.3	3	100	0	104	0	32	0	67	0.91
58671985--58672025	8	5.2	8	77	16	50	63	0	2	34	1.08
58671985--58672025	14	2.6	16	82	17	59	63	0	2	34	1.08
58675699--58675742	22	1.9	24	86	9	65	34	0	0	65	0.93
58675703--58675741	16	2.4	16	83	12	53	35	0	0	64	0.94
58676213--58676310	19	5.0	19	64	9	54	28	11	0	60	1.31
58676281--58676326	22	2.1	22	84	8	58	28	2	4	65	1.23
58677280--58677339	22	2.5	24	81	7	61	43	20	26	10	1.83
58677279--58677492	23	9.5	23	72	14	151	42	21	24	11	1.86
58677302--58677366	25	2.6	25	81	11	71	49	20	21	9	1.76
58677333--58677407	39	1.9	39	88	0	114	45	21	21	12	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58677372--58677492	48	2.6	46	87	7	172	39	23	25	11	1.88
58678519--58678584	33	1.9	36	84	9	93	9	31	6	53	1.57
58678597--58678622	7	3.7	7	100	0	52	46	11	11	30	1.76
58680072--58680124	15	3.4	15	80	16	63	30	0	0	69	0.88
58683517--58683556	21	1.9	21	94	0	71	37	25	15	22	1.93
58684062--58684249	52	3.6	51	82	5	200	29	23	14	32	1.94
58687338--58687391	25	2.2	25	93	3	92	31	0	20	48	1.50
58689458--58689495	3	12.7	3	100	0	76	65	0	0	34	0.93
58689609--58689642	18	1.9	17	88	5	50	50	0	8	41	1.34
58691028--58691057	12	2.5	12	100	0	60	43	33	6	16	1.74
58705043--58705291	124	2.0	123	84	3	322	34	12	14	38	1.84
58706524--58706617	27	3.5	26	68	17	68	46	8	10	34	1.69
58717532--58717569	9	4.1	9	96	3	67	47	0	0	52	1.00
58717577--58717608	14	2.3	14	94	0	55	46	0	0	53	1.00
58717598--58717634	19	2.0	19	89	5	58	40	0	8	51	1.32
58721575--58721611	15	2.3	17	81	13	51	81	0	5	13	0.86
58724382--58724432	20	2.6	19	78	6	57	52	0	0	47	1.00
58728720--58728770	23	2.2	23	100	0	102	33	19	21	25	1.97
58740120--58740147	3	9.3	3	100	0	56	35	0	0	64	0.94
58742794--58742880	33	2.6	33	81	3	95	21	18	25	34	1.96
58743776--58743860	33	2.5	33	78	1	98	27	21	22	29	1.99
58747558--58747877	174	1.8	174	82	5	414	29	35	9	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58750687--58750806	59	2.0	59	100	0	240	36	21	6	35	1.80
58750966--58751010	23	1.9	24	86	4	65	40	6	4	48	1.49
58753501--58753606	54	2.0	53	86	1	149	27	16	22	33	1.95
58754387--58754592	63	3.3	63	96	0	385	35	19	15	29	1.93
58755355--58755431	33	2.3	33	86	0	100	24	16	29	28	1.97
58755376--58755446	33	2.2	33	81	0	79	28	15	29	26	1.96
58762585--58762626	16	2.6	16	85	7	50	42	7	7	42	1.59
58765322--58765495	82	2.1	82	83	6	210	48	7	2	41	1.44
58765427--58765492	30	2.2	29	78	5	69	51	10	1	36	1.46
58769715--58769784	23	3.0	23	80	2	86	44	18	10	27	1.81
58769722--58769784	24	2.7	23	82	2	72	44	19	11	25	1.83
58769874--58769921	12	4.0	12	83	5	53	45	14	16	22	1.84
58770916--58770940	6	4.2	6	100	0	50	0	0	48	52	1.00
58771477--58771557	26	3.1	25	72	11	74	56	2	1	39	1.20
58771482--58771558	27	3.0	26	74	9	77	58	2	2	36	1.26
58775148--58775337	102	1.9	102	92	0	317	22	37	18	21	1.94
58778665--58778706	5	8.4	5	79	10	50	78	0	4	16	0.91
58779568--58779597	3	10.0	3	100	0	60	33	33	0	33	1.58
58785133--58785194	19	3.3	18	80	8	70	35	1	6	56	1.35
58785952--58785999	22	2.2	21	77	3	51	50	0	14	35	1.44
58786794--58787021	41	5.5	41	85	2	276	37	10	25	26	1.88
58786794--58787023	82	2.8	82	87	4	318	37	10	25	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58788008--58788065	19	3.0	19	72	20	57	39	13	15	31	1.86
58796955--58797015	28	2.2	28	80	11	72	47	9	8	34	1.66
58798466--58798561	27	3.5	27	86	1	129	39	22	14	22	1.91
58807444--58807532	20	4.4	20	76	15	85	39	0	4	56	1.20
58807463--58807531	19	3.6	19	84	5	86	34	0	5	59	1.21
58812739--58812793	28	2.0	28	81	0	65	49	3	3	43	1.37
58815318--58815356	8	4.8	8	85	14	53	87	0	12	0	0.55
58815319--58815356	6	6.7	6	85	8	53	86	0	13	0	0.56
58823915--58824105	23	8.5	23	71	16	123	41	21	25	11	1.86
58824008--58824105	23	4.2	23	82	10	126	39	23	25	11	1.88
58826010--58826058	14	3.6	13	81	13	55	38	2	8	51	1.43
58831912--58831954	22	2.0	22	90	9	70	32	4	13	48	1.63
58837682--58837751	35	2.0	34	84	13	90	15	22	2	58	1.50
58844286--58844334	16	2.9	16	78	6	53	69	2	0	28	1.00
58847770--58847808	20	2.0	20	89	0	60	33	7	12	46	1.71
58847912--58847946	18	1.9	18	88	0	52	34	2	2	60	1.26
58850418--58850463	23	2.0	23	83	8	58	39	10	17	32	1.84
58854910--58854993	43	2.0	43	87	0	123	34	14	13	38	1.85
58865544--58865711	22	7.4	22	86	6	228	40	23	24	11	1.87
58868014--58868092	30	2.5	32	78	14	83	25	16	12	45	1.82
58868053--58868180	60	2.2	58	82	2	148	20	14	15	49	1.80
58868036--58868151	31	3.8	31	68	18	82	21	17	13	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58869275--58869309	17	2.1	16	89	5	52	51	0	5	42	1.25
58869621--58869687	9	7.6	9	69	15	50	62	2	0	34	1.10
58869621--58869662	16	2.6	16	88	7	59	66	0	0	33	0.92
58869617--58869662	15	3.0	15	84	6	56	69	0	0	30	0.89
58869812--58869851	21	1.9	21	90	10	64	57	12	2	27	1.48
58869888--58869934	9	5.0	10	80	15	55	65	0	0	34	0.93
58869884--58869934	18	2.8	18	80	14	68	62	0	0	37	0.95
58869889--58869934	20	2.5	17	83	13	56	65	0	0	34	0.93
58870598--58870636	14	2.7	15	80	8	53	56	10	7	25	1.59
58871129--58871162	13	2.6	13	85	0	50	58	11	0	29	1.33
58875282--58875330	20	2.6	19	78	12	57	34	4	2	59	1.28
58875788--58875847	22	2.7	23	81	2	68	45	0	1	53	1.10
58875860--58875922	27	2.3	28	81	13	78	47	0	1	50	1.10
58880693--58880735	13	3.2	13	80	3	50	74	0	2	23	0.93
58880697--58880738	21	2.0	22	86	9	61	69	0	2	28	1.01
58882146--58882184	2	19.5	2	100	0	78	51	0	0	48	1.00
58885328--58885369	19	2.2	19	91	0	66	16	4	14	64	1.45
58889476--58889523	18	2.8	17	81	6	60	35	20	16	27	1.94
58892600--58892633	18	1.9	18	88	5	52	50	0	2	47	1.16
58892725--58892779	20	2.8	20	100	0	110	40	21	21	16	1.91
58892876--58892913	18	2.1	19	90	5	60	31	0	0	68	0.90
58892877--58892917	9	4.2	10	78	15	50	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58897914--58898010	41	2.5	38	75	6	97	32	28	16	21	1.95
58901291--58901355	34	1.9	33	84	12	87	35	6	3	55	1.40
58901738--58901804	30	2.2	30	83	0	80	31	17	11	38	1.87
58921385--58921424	2	20.0	2	100	0	80	0	0	50	50	1.00
58921531--58921569	2	19.5	2	100	0	78	0	51	0	48	1.00
58921699--58921740	2	21.0	2	100	0	84	50	0	0	50	1.00
58922253--58922306	23	2.3	23	81	6	65	53	1	1	42	1.22
58927587--58927643	31	1.9	29	89	10	89	56	3	3	36	1.34
58934532--58934884	176	2.0	176	98	0	688	28	15	15	40	1.88
58935059--58935102	18	2.5	18	82	14	56	43	0	0	56	0.99

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