genome.fa.s3.2.7.7.80.10.50.1000.33.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  33  of  171  ( 20472 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)
15072581--15072615	6	5.8	6	100	0	70	17	17	48	17	1.81
15074083--15074186	29	3.5	30	73	12	99	32	1	8	56	1.41
15086411--15086444	15	2.2	16	89	5	52	64	5	5	23	1.38
15087846--15087894	2	24.5	2	100	0	98	0	51	0	48	1.00
15089393--15089429	6	6.2	6	100	0	74	32	0	67	0	0.91
15094847--15094911	2	32.5	2	100	0	130	50	0	0	49	1.00
15095132--15095156	3	8.3	3	100	0	50	0	32	0	68	0.90
15102766--15102927	30	5.5	29	68	17	82	37	3	25	33	1.72
15102730--15102830	30	3.4	30	65	22	79	37	5	25	30	1.80
15102730--15102918	59	3.2	57	86	4	236	37	3	26	32	1.74
15102842--15102925	30	2.8	30	76	16	93	36	2	27	33	1.70
15104857--15104987	6	22.0	6	71	18	96	55	0	2	41	1.18
15104857--15104987	17	8.4	16	76	19	107	55	0	2	41	1.18
15104857--15104980	11	11.5	11	72	21	77	56	0	2	41	1.12
15104869--15104974	31	3.5	31	94	2	180	58	0	2	38	1.13
15105297--15105359	29	2.2	29	85	5	83	47	0	3	49	1.17
15108346--15108387	22	2.0	22	90	4	68	40	0	7	52	1.29
15111240--15111275	1	36.0	1	88	0	54	2	0	2	94	0.37
15112920--15112950	2	15.5	2	100	0	62	51	0	48	0	1.00
15116478--15116582	54	1.9	54	82	0	129	44	14	1	39	1.56
15116879--15116914	2	18.0	2	100	0	72	50	0	50	0	1.00
15116979--15117051	21	3.5	21	72	7	69	38	0	2	58	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15126951--15126995	17	2.5	20	72	24	53	60	2	0	37	1.09
15133972--15134208	79	3.0	79	91	0	377	32	15	13	38	1.87
15135998--15136097	30	3.4	29	77	9	87	26	17	12	45	1.83
15136046--15136110	30	2.2	30	86	5	87	35	9	6	49	1.60
15142003--15142044	21	2.0	21	81	9	50	64	11	4	19	1.44
15142352--15142466	58	2.0	58	93	3	196	36	0	16	46	1.47
15143445--15146948	298	11.8	298	87	2	4770	33	15	19	30	1.94
15144642--15144701	28	2.1	28	81	0	66	26	23	20	30	1.98
15146118--15146177	28	2.1	28	81	0	66	26	23	20	30	1.98
15146776--15147127	179	2.0	179	90	1	562	34	15	19	30	1.93
15149332--15149717	190	2.0	191	98	0	756	31	19	19	28	1.97
15150008--15150276	148	1.8	148	98	0	520	27	26	14	31	1.95
15150647--15150960	155	2.0	154	99	0	619	34	22	22	21	1.97
15152422--15152447	6	4.3	6	100	0	52	65	0	34	0	0.93
15152548--15152598	26	2.0	26	100	0	102	19	11	39	29	1.87
15158672--15158696	12	2.1	12	100	0	50	44	16	16	24	1.86
15160040--15160073	7	4.9	7	96	0	59	58	8	2	29	1.43
15160325--15160354	15	2.0	15	93	0	51	63	6	16	13	1.50
15160366--15160418	21	2.5	21	77	17	56	52	3	11	32	1.55
15159928--15160937	336	3.0	337	87	3	1430	42	7	20	29	1.80
15162681--15162886	70	3.1	69	86	5	271	41	10	6	41	1.65
15162707--15162886	68	2.7	63	86	6	180	43	8	6	41	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15171711--15171743	6	5.7	6	92	3	50	57	15	27	0	1.38
15203415--15203463	6	8.2	6	90	0	80	20	16	30	32	1.94
15204227--15204266	16	2.6	16	80	4	55	60	2	0	37	1.11
15210657--15210686	15	2.0	15	100	0	60	53	6	26	13	1.64
15220413--15220463	26	2.0	26	92	3	86	35	9	23	31	1.87
15226843--15226892	23	2.2	23	85	0	64	48	0	2	50	1.12
15239487--15239516	4	7.5	4	100	0	60	23	0	0	76	0.78
15251389--15251767	198	1.9	198	96	2	708	31	25	14	28	1.95
15263283--15263400	23	5.0	23	80	11	141	12	25	22	39	1.89
15263283--15263400	48	2.5	46	86	8	166	12	25	22	39	1.89
15263365--15263439	39	1.9	39	91	0	123	12	22	21	44	1.85
15263399--15263492	23	4.0	23	75	16	86	11	25	19	43	1.84
15266525--15266738	23	9.5	23	72	14	151	41	21	25	11	1.87
15266579--15266653	39	1.9	39	91	0	123	44	21	22	12	1.85
15266618--15266738	48	2.6	46	87	7	172	39	23	25	11	1.88
15272961--15273174	23	9.5	23	72	14	151	41	21	25	11	1.87
15273015--15273089	39	1.9	39	91	0	123	44	21	22	12	1.85
15273054--15273174	48	2.6	46	87	7	172	39	23	25	11	1.88
15278987--15279104	23	5.0	23	82	11	150	11	25	22	39	1.88
15278987--15279104	48	2.5	46	86	8	166	11	25	22	39	1.88
15279069--15279143	39	1.9	39	91	0	123	12	22	21	44	1.85
15279103--15279196	23	4.0	23	75	16	86	11	25	19	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15281349--15281533	23	8.2	23	77	16	190	12	23	22	41	1.88
15281349--15281528	48	4.0	45	77	15	194	12	22	22	41	1.88
15281434--15281510	41	1.9	39	86	5	109	12	22	22	42	1.87
15281367--15281622	87	3.0	84	75	12	236	12	23	21	42	1.86
15281537--15281626	23	3.9	23	75	17	87	11	24	18	45	1.82
15281415--15281576	64	2.6	62	91	3	270	12	21	22	43	1.85
15298321--15298416	45	2.1	45	86	0	129	14	6	53	26	1.65
15305050--15305079	6	5.0	6	95	0	51	80	0	20	0	0.72
15311940--15311995	20	2.7	21	83	5	78	14	14	5	66	1.42
15320074--15320137	13	4.9	13	74	11	51	43	10	1	43	1.49
15320074--15320137	26	2.5	25	77	10	67	43	10	1	43	1.49
15335971--15336005	18	1.9	18	94	0	61	48	0	0	51	1.00
15351080--15351110	12	2.6	12	94	0	53	41	9	22	25	1.84
15352148--15352189	22	1.9	22	90	0	66	42	2	4	50	1.36
15370919--15370949	7	4.4	7	100	0	62	0	32	0	67	0.91
15371255--15371299	12	3.9	12	82	8	58	37	2	0	60	1.09
15375176--15375203	6	4.7	6	100	0	56	35	0	64	0	0.94
15375414--15375483	27	2.6	26	81	6	68	35	0	0	64	0.94
15385554--15385632	37	2.1	38	85	2	106	35	22	16	25	1.95
15393197--15393245	20	2.4	20	89	3	71	34	2	6	57	1.35
15393367--15393404	16	2.3	17	86	4	51	50	0	2	47	1.15
15400996--15401042	15	3.1	16	85	11	55	59	0	2	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15403253--15403404	59	2.6	59	77	1	160	32	16	11	40	1.84
15403431--15403663	118	2.0	120	88	6	350	24	16	17	41	1.89
15403442--15403665	59	3.8	59	76	10	217	24	17	17	40	1.90
15407171--15407466	85	3.5	84	88	5	436	43	6	3	46	1.46
15409912--15410003	29	3.1	28	81	9	94	28	7	4	59	1.44
15409936--15410003	30	2.3	30	89	2	102	29	8	2	58	1.43
15430032--15430088	30	2.0	30	82	6	73	49	3	3	43	1.36
15434992--15435021	14	2.1	14	93	0	51	43	0	0	56	0.99
15435504--15435541	20	1.9	20	88	0	58	42	5	21	31	1.75
15436559--15436584	2	13.0	2	100	0	52	50	0	0	50	1.00
15440934--15440961	2	14.0	2	100	0	56	50	0	50	0	1.00
15446206--15446255	2	25.0	2	91	0	82	50	4	0	46	1.20
15448237--15448349	56	2.0	56	89	3	174	53	2	34	9	1.48
15450456--15450609	49	3.1	48	84	7	184	51	9	5	33	1.57
15462118--15462171	16	3.4	16	72	10	56	16	27	0	55	1.42
15467952--15467996	19	2.4	18	77	3	54	46	0	4	48	1.22
15468210--15468237	3	9.3	3	100	0	56	32	0	0	67	0.91
15469520--15469572	21	2.4	21	87	6	70	56	0	1	41	1.10
15471535--15471598	31	2.1	32	88	5	96	37	0	7	54	1.29
15473542--15473593	25	2.1	25	81	0	59	40	1	0	57	1.10
15474663--15474697	17	2.1	17	100	0	70	22	11	8	57	1.61
15475714--15475793	41	2.0	39	85	7	108	31	0	21	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15487222--15487256	17	2.1	17	100	0	70	51	11	8	28	1.67
15492125--15492177	26	2.0	26	96	0	97	47	5	0	47	1.26
15494622--15494661	18	2.2	18	100	0	80	42	5	0	52	1.23
15494783--15494824	21	2.0	21	81	9	50	69	4	2	23	1.20
15498916--15498960	20	2.4	18	82	17	56	0	13	4	82	0.82
15498916--15498965	21	2.5	19	79	17	57	0	14	4	82	0.82
15499716--15500030	158	2.0	157	98	0	603	44	9	10	35	1.71
15501446--15501547	17	5.9	17	69	20	61	50	0	0	50	1.00
15501452--15501535	39	2.2	39	89	4	127	52	0	0	47	1.00
15501910--15501947	18	2.1	18	90	9	60	60	0	5	34	1.19

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