genome.fa.s9.2.7.7.80.10.50.1000.163.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  163  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)
49590556--49590593	19	2.0	19	89	0	58	47	2	13	36	1.56
49590834--49590874	18	2.3	18	87	4	57	43	0	0	56	0.99
49590834--49590873	17	2.4	17	84	12	55	42	0	0	57	0.98
49590861--49590891	15	2.0	16	93	6	55	61	0	0	38	0.96
49597801--49597827	13	2.1	13	100	0	54	37	0	0	62	0.95
49598342--49598373	3	11.0	3	93	6	57	68	0	0	31	0.90
49598787--49598845	29	2.0	30	93	3	102	28	0	11	59	1.33
49599429--49599458	4	7.5	4	100	0	60	26	50	0	23	1.50
49603659--49603705	18	2.9	16	79	14	51	48	0	0	51	1.00
49604852--49604899	24	2.0	25	83	4	62	54	8	2	35	1.42
49612451--49612583	40	3.3	39	63	17	92	27	16	6	49	1.70
49614147--49614192	20	2.3	21	75	14	53	54	0	4	41	1.20
49616058--49616111	21	2.6	21	77	11	56	31	0	1	66	1.02
49617834--49618081	124	2.0	124	99	0	487	34	41	2	21	1.66
49621839--49621877	17	2.4	16	84	16	53	33	0	5	61	1.18
49621981--49622030	19	2.5	20	78	15	59	44	0	0	56	0.99
49622036--49622078	13	3.2	13	83	6	50	58	0	0	41	0.98
49622048--49622078	15	2.0	16	93	6	55	61	0	0	38	0.96
49622393--49622433	18	2.3	18	91	8	66	41	0	0	58	0.98
49625843--49625976	39	3.4	39	77	0	97	25	21	20	32	1.98
49625919--49626025	39	2.7	39	91	0	160	28	22	18	29	1.97
49631815--49631857	22	2.0	22	100	0	86	41	9	20	27	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49634594--49634639	20	2.2	21	88	3	67	54	2	6	36	1.39
49636339--49636369	3	10.3	3	100	0	62	64	0	0	35	0.94
49640280--49640322	17	2.4	18	80	3	52	27	4	6	60	1.43
49641310--49641444	45	2.9	47	83	6	177	51	9	7	31	1.62
49641382--49641414	17	1.9	17	93	0	57	45	12	9	33	1.73
49642532--49642633	28	3.5	28	65	19	66	38	3	23	34	1.73
49642590--49642934	58	5.9	59	76	12	227	35	3	23	37	1.72
49642526--49642927	87	4.6	85	79	9	280	35	3	24	36	1.74
49642644--49642938	29	10.1	29	82	10	316	35	3	24	36	1.73
49642639--49642927	59	5.0	58	81	8	313	35	3	23	37	1.73
49643949--49644002	12	4.7	12	76	17	51	44	1	1	51	1.22
49644662--49644695	14	2.3	15	90	5	52	14	5	14	64	1.46
49644687--49644756	6	12.0	6	72	17	58	51	2	0	45	1.16
49644693--49644758	17	3.8	17	86	7	89	53	3	0	43	1.16
49645639--49645686	3	16.0	3	95	0	87	35	0	0	64	0.94
49647088--49647139	27	1.9	27	92	0	86	21	38	17	23	1.93
49654102--49654202	28	3.5	29	73	23	97	41	1	23	32	1.66
49654073--49654377	58	5.2	59	80	5	323	40	3	23	33	1.71
49654260--49654350	29	3.1	29	69	17	89	40	3	21	34	1.70
49654357--49654586	30	7.8	30	76	4	198	39	4	18	37	1.71
49654357--49654586	59	3.9	58	81	3	235	39	4	18	37	1.71
49654348--49654586	89	2.7	90	81	5	281	40	4	18	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49655756--49655799	17	2.5	17	92	3	70	43	0	0	56	0.99
49655746--49655807	29	2.1	29	88	5	90	37	0	0	62	0.95
49656617--49656671	16	3.4	16	80	5	65	54	5	0	40	1.23
49656969--49658092	91	12.3	91	91	3	1557	33	18	15	32	1.92
49657901--49658051	40	3.5	40	67	26	110	37	15	14	33	1.88
49657937--49658092	52	3.2	51	65	26	131	33	16	14	35	1.89
49658186--49658405	51	4.3	51	76	6	214	13	25	18	42	1.87
49658093--49658405	101	3.1	101	77	4	308	14	25	19	41	1.88
49665477--49665767	59	5.0	58	83	6	329	36	2	28	32	1.69
49665516--49665674	29	5.5	29	67	22	86	38	3	26	32	1.72
49665633--49666027	30	13.4	29	73	14	210	39	3	21	35	1.70
49665750--49666027	89	3.1	87	85	6	330	41	4	19	35	1.71
49665757--49666027	59	4.6	58	80	7	255	40	4	18	36	1.71
49667200--49667238	17	2.5	15	91	8	60	43	0	2	53	1.14
49668057--49668111	16	3.4	16	80	5	65	54	5	0	40	1.23
49672106--49672253	48	3.1	47	63	11	111	50	11	2	35	1.53
49672994--49673031	7	5.6	7	87	6	60	39	13	0	47	1.42
49682487--49682577	23	3.9	24	68	7	62	70	15	4	9	1.30
49682540--49682609	20	3.3	21	77	15	65	68	20	4	7	1.30
49684662--49684714	24	2.2	23	78	21	56	16	45	1	35	1.59
49684682--49684720	12	3.2	12	79	13	53	17	46	0	35	1.49
49684676--49684729	24	2.2	24	96	0	99	16	48	0	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49684680--49684724	18	2.5	18	81	0	54	17	46	0	35	1.49
49687361--49687499	12	12.2	12	71	11	71	69	12	7	10	1.37
49687390--49687497	23	4.8	23	72	4	85	71	11	5	12	1.30
49695304--49695353	24	2.1	24	96	0	91	22	22	14	42	1.88
49698278--49698340	12	5.3	12	76	3	56	68	12	7	11	1.40
49698337--49698404	21	3.3	21	73	15	54	69	19	4	7	1.30
49698336--49698392	21	2.7	22	78	13	66	71	15	3	8	1.24
49698346--49698403	20	2.9	20	85	10	66	67	20	5	6	1.34
49702367--49702419	24	2.2	23	78	21	56	16	45	1	35	1.59
49702387--49702425	12	3.2	12	79	13	53	17	46	0	35	1.49
49702381--49702434	24	2.2	24	96	0	99	16	48	0	35	1.47
49702385--49702429	18	2.5	18	81	0	54	17	46	0	35	1.49
49705121--49705209	34	2.6	35	73	3	92	67	16	4	11	1.37
49705168--49705236	20	3.3	20	78	13	61	66	20	5	7	1.37
49709197--49709249	24	2.2	23	78	21	56	16	45	1	35	1.59
49709217--49709255	12	3.2	12	79	13	53	17	46	0	35	1.49
49709211--49709264	24	2.2	24	96	0	99	16	48	0	35	1.47
49709215--49709259	18	2.5	18	81	0	54	17	46	0	35	1.49
49711952--49712040	34	2.6	35	73	3	92	67	16	4	11	1.37
49711999--49712067	20	3.3	20	78	13	61	66	20	5	7	1.37
49716028--49716080	24	2.2	23	78	21	56	16	45	1	35	1.59
49716048--49716086	12	3.2	12	79	13	53	17	46	0	35	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49716042--49716095	24	2.2	24	96	0	99	16	48	0	35	1.47
49716046--49716090	18	2.5	18	81	0	54	17	46	0	35	1.49
49718782--49718870	34	2.6	35	73	3	92	67	16	4	11	1.37
49718829--49718897	20	3.3	20	78	13	61	66	20	5	7	1.37
49722857--49722909	24	2.2	23	78	21	56	16	45	1	35	1.59
49722877--49722915	12	3.2	12	79	13	53	17	46	0	35	1.49
49722871--49722924	24	2.2	24	96	0	99	16	48	0	35	1.47
49722875--49722919	18	2.5	18	81	0	54	17	46	0	35	1.49
49725613--49725701	34	2.6	35	73	3	92	67	16	4	11	1.37
49725660--49725728	20	3.3	20	78	13	61	66	20	5	7	1.37
49733822--49733880	30	2.0	30	86	0	82	35	13	20	30	1.91
49746789--49746843	19	2.8	20	77	2	58	41	14	7	36	1.74
49753805--49753844	21	2.0	21	85	9	57	22	25	7	45	1.78
49763900--49763954	19	2.8	20	77	2	58	41	14	7	36	1.74
49772423--49772470	24	1.9	26	87	8	73	58	2	0	39	1.10
49779848--49780148	155	1.9	155	92	1	505	33	19	18	28	1.96
49792728--49792771	19	2.4	18	80	3	52	56	2	4	36	1.32
49798188--49798248	27	2.3	27	79	0	68	26	6	27	39	1.81
49807833--49807867	16	2.2	16	90	10	54	34	14	28	22	1.93
49810867--49810918	20	2.7	20	78	3	52	36	7	15	40	1.76
49822631--49822674	19	2.4	18	80	3	52	36	4	2	56	1.32
49835255--49835555	155	1.9	155	92	1	505	28	18	19	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49837271--49837571	155	1.9	155	92	1	505	33	20	18	27	1.96
49850169--49850212	19	2.4	18	80	3	52	56	2	4	36	1.32
49854640--49854677	7	5.6	7	87	6	60	39	13	0	47	1.42
49857517--49857554	19	2.0	19	85	10	51	50	2	2	44	1.30
49858327--49858434	6	18.2	6	74	12	80	48	1	2	47	1.27
49858353--49858411	26	2.4	25	86	8	77	42	1	1	54	1.20
49860196--49860550	30	11.9	30	86	1	462	37	22	3	36	1.71
49860523--49860718	59	3.3	58	73	5	189	29	28	4	38	1.75
49860505--49860717	118	1.8	116	79	7	250	29	27	4	38	1.77
49872481--49872803	31	9.7	31	69	18	204	34	17	20	28	1.95

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