genome.fa.s9.2.7.7.80.10.50.1000.55.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  55  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)
18259613--18259650	18	2.2	18	90	4	60	36	15	5	42	1.70
18266180--18266238	28	2.1	28	84	6	75	64	3	3	28	1.26
18266804--18266934	56	2.3	56	82	10	158	51	5	9	33	1.56
18267550--18267643	49	1.9	49	89	6	147	51	2	5	41	1.37
18271217--18271280	10	6.4	10	73	7	58	64	6	3	26	1.33
18271216--18271278	30	2.2	28	83	8	81	61	6	3	28	1.36
18271226--18271292	21	3.3	20	73	8	55	64	7	2	25	1.34
18273367--18273444	3	26.0	3	100	0	156	0	33	0	66	0.92
18275176--18275219	23	1.9	23	90	0	70	20	18	25	36	1.95
18277100--18277142	21	2.0	21	95	0	77	25	4	20	48	1.69
18280265--18280345	16	4.9	16	67	18	51	18	1	6	74	1.10
18282222--18282286	21	3.0	21	80	4	76	47	15	6	30	1.70
18282224--18282286	22	3.0	21	83	2	81	47	14	6	31	1.69
18286944--18286982	15	2.7	14	80	7	51	46	2	2	48	1.29
18287198--18287251	15	3.3	15	74	18	54	44	0	1	53	1.11
18287184--18287262	34	2.4	31	75	17	79	46	3	2	46	1.34
18287285--18287324	13	2.9	14	81	11	55	47	5	0	47	1.24
18287333--18287382	16	3.2	16	70	18	52	52	0	0	48	1.00
18289219--18289311	49	1.9	48	88	2	141	49	13	22	13	1.78
18297677--18297756	23	3.4	23	79	6	90	26	23	16	33	1.95
18300657--18300732	40	1.9	40	89	5	118	39	17	17	26	1.91
18301296--18301371	11	6.8	11	72	19	59	53	2	1	42	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18301270--18301324	25	2.2	26	78	15	62	50	5	1	41	1.36
18306392--18306428	18	2.1	18	94	0	65	29	21	8	40	1.82
18312544--18312580	18	2.1	18	89	0	56	35	2	0	62	1.10
18318783--18318821	17	2.3	17	90	0	60	46	25	12	15	1.81
18324479--18324650	85	2.0	85	92	4	285	25	15	24	34	1.94
18325316--18325345	9	3.3	9	100	0	60	20	13	23	43	1.86
18330203--18330325	23	5.3	23	87	1	113	11	24	21	42	1.86
18330227--18330371	69	2.1	66	85	10	184	12	24	20	42	1.86
18330224--18330371	23	6.4	23	81	9	160	12	23	21	42	1.86
18338540--18338568	1	29.0	1	100	0	58	0	100	0	0	0.00
18338867--18338895	2	14.5	2	100	0	58	48	0	51	0	1.00
18342642--18342676	17	2.1	17	100	0	70	28	25	22	22	1.99
18343230--18343288	3	19.7	3	96	0	109	33	1	0	64	1.04
18344943--18344986	22	1.9	24	90	9	74	40	0	9	50	1.34
18347483--18347519	19	2.0	20	84	10	51	43	5	5	45	1.49
18355179--18355221	19	2.3	19	84	8	52	58	4	0	37	1.19
18355774--18355975	107	1.9	106	86	5	291	24	24	13	37	1.92
18355783--18356004	107	2.1	108	82	5	263	25	22	12	39	1.89
18356633--18356685	22	2.5	22	84	9	74	79	0	3	16	0.88
18360718--18360757	21	1.9	21	89	0	62	25	17	15	42	1.88
18360725--18360768	21	2.1	21	82	0	52	27	15	15	40	1.88
18361603--18361752	73	2.1	73	100	0	300	28	26	13	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18362378--18362438	22	2.8	22	85	7	72	72	3	11	13	1.24
18362404--18362433	15	1.9	16	93	6	53	70	3	13	13	1.30
18381554--18381605	23	2.3	22	75	12	52	53	1	3	40	1.30
18384684--18384795	20	5.8	19	70	13	68	56	1	3	38	1.27
18385909--18385966	30	2.0	30	83	10	75	39	1	1	56	1.19
18386046--18386252	89	2.3	89	79	8	237	35	11	16	36	1.85
18386518--18386569	25	2.1	25	82	7	61	25	1	5	67	1.23
18386967--18386996	14	2.2	14	94	5	53	30	30	13	26	1.94
18387124--18387177	21	2.6	20	76	5	54	18	0	35	46	1.50
18388819--18388889	37	1.9	36	88	2	106	35	18	8	38	1.81
18392655--18392753	44	2.2	44	80	7	110	36	19	4	40	1.70
18398683--18398741	28	2.1	28	100	0	118	44	6	16	32	1.74
18404844--18404875	7	4.6	7	100	0	64	43	40	0	15	1.47
18404984--18405060	38	2.0	39	92	2	129	40	16	3	38	1.67
18413123--18413506	36	10.5	36	74	9	204	39	11	19	29	1.86
18413123--18413506	73	5.2	72	76	5	272	39	11	19	29	1.86
18413814--18414005	36	5.3	36	73	5	145	38	16	20	25	1.93
18414016--18414354	36	9.5	35	77	8	294	38	14	20	27	1.90
18414053--18414361	107	2.9	107	81	4	354	38	14	19	27	1.91
18414016--18414270	143	1.8	138	86	5	368	38	13	20	27	1.90
18414016--18414354	72	4.8	72	80	6	334	38	14	20	27	1.90
18414978--18415050	14	5.1	14	70	18	53	16	0	32	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18415327--18415640	141	2.2	140	85	0	448	30	21	21	26	1.98
18415767--18415810	19	2.3	19	80	0	52	34	22	4	38	1.75
18429013--18429047	3	11.7	3	100	0	70	31	0	0	68	0.90
18429845--18429869	13	1.9	13	100	0	50	72	0	0	28	0.86
18446874--18446956	36	2.3	36	85	4	114	24	10	22	42	1.85
18447439--18447552	50	2.2	52	78	6	126	37	12	11	38	1.79
18447553--18447624	34	2.1	35	84	5	94	47	9	13	29	1.75
18448963--18449003	20	2.0	20	85	0	55	41	21	7	29	1.80
18457689--18457751	22	2.7	24	78	12	67	41	1	0	57	1.08
18457723--18457756	15	2.2	16	89	5	52	32	2	0	64	1.08
18458227--18458291	23	2.8	23	85	2	85	6	20	23	50	1.70
18459147--18459182	17	2.1	18	89	5	56	61	0	0	38	0.96
18479353--18479434	17	4.5	17	74	15	65	48	1	1	48	1.17
18479405--18479438	12	2.8	12	86	13	52	58	0	0	41	0.98
18480101--18480154	25	2.1	27	86	6	76	55	0	1	42	1.10
18481174--18481771	59	10.2	59	85	3	758	34	26	2	36	1.70
18481174--18481784	176	3.5	177	85	3	818	33	26	2	36	1.71
18481765--18481825	28	2.1	29	90	3	97	29	24	11	34	1.91
18481774--18481835	28	2.2	29	85	2	81	22	29	12	35	1.91
18493948--18494249	76	3.9	76	94	1	541	34	14	16	34	1.89
18493948--18494249	153	2.0	153	95	1	543	34	14	16	34	1.89
18494041--18494439	191	2.1	192	94	0	694	34	14	17	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18494233--18494525	76	3.9	76	95	0	496	34	14	18	32	1.91
18494829--18494862	12	2.8	12	86	13	52	58	0	0	41	0.98
18495197--18495250	27	2.1	25	82	6	63	55	0	3	40	1.17
18495225--18495263	20	1.9	21	94	5	71	56	0	0	43	0.99
18496260--18496415	31	5.3	29	64	18	81	35	28	1	33	1.69
18496271--18496822	59	9.4	58	87	5	655	34	27	2	35	1.70
18496321--18496821	29	17.0	29	64	26	116	34	27	2	35	1.71
18499936--18499970	18	1.9	18	88	0	52	45	0	0	54	0.99
18499932--18499975	21	2.2	20	87	4	61	50	0	0	50	1.00
18499928--18500011	30	2.9	29	70	10	80	48	1	1	48	1.16
18500746--18500810	30	2.2	29	81	10	78	36	6	21	35	1.79
18500928--18500954	12	2.2	12	100	0	54	85	7	0	7	0.75
18503184--18503208	13	1.9	13	100	0	50	72	4	0	24	1.02
18503376--18503535	30	5.4	30	77	12	125	35	6	22	35	1.80
18503376--18503505	29	4.4	30	81	9	108	34	6	23	35	1.80
18503461--18503555	30	3.2	30	82	5	113	38	5	18	36	1.74
18503401--18503545	59	2.4	58	82	8	168	37	5	22	34	1.77
18505417--18505487	31	2.2	32	82	2	81	40	4	1	53	1.29
18505439--18505496	31	1.9	31	85	3	82	44	5	0	50	1.24
18506910--18506960	19	2.7	19	87	0	66	37	0	1	60	1.08
18509304--18509329	8	3.2	8	100	0	52	15	0	0	84	0.62
18509814--18509845	16	2.0	16	93	0	55	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18513167--18513341	59	3.0	60	78	14	188	52	9	11	26	1.67
18514731--18514778	24	2.0	24	91	0	78	58	10	6	25	1.54
18516708--18516737	16	1.9	16	93	6	53	73	0	0	26	0.84
18518213--18518239	4	6.8	4	100	0	54	25	0	0	74	0.83
18519401--18519459	29	2.1	28	83	3	73	28	10	8	52	1.64
18520615--18520678	31	2.1	31	85	8	87	60	1	6	31	1.30
18520627--18520692	31	2.1	31	83	5	80	65	1	6	27	1.25
18521430--18521470	11	3.9	11	78	21	52	12	7	0	80	0.90
18521431--18521470	20	2.0	20	90	9	64	12	7	0	80	0.91
18522128--18522161	14	2.5	13	90	4	50	11	5	0	82	0.83

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