genome.fa.s4.2.7.7.80.10.50.1000.126.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: 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  126  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)
39778457--39778596	42	3.3	43	87	2	169	25	15	40	18	1.90
39778502--39778599	21	4.7	21	84	0	124	28	17	38	15	1.90
39778519--39778623	21	5.0	21	84	0	120	28	15	40	16	1.88
39778502--39778623	42	2.9	42	87	2	138	27	16	39	16	1.90
39786214--39786315	41	2.5	41	87	1	152	17	28	18	35	1.94
39786307--39786623	156	2.0	156	99	0	625	28	14	18	38	1.90
39791669--39791758	7	12.9	7	75	0	72	33	22	21	23	1.97
39793416--39793486	33	2.3	31	79	13	74	47	1	2	47	1.25
39794372--39794472	34	3.0	34	89	1	141	37	8	13	39	1.77
39795608--39795644	17	2.1	18	95	5	67	40	16	29	13	1.86
39797454--39797596	43	3.3	43	87	0	207	25	19	27	27	1.99
39798171--39798222	10	5.0	10	72	9	50	53	1	0	44	1.11
39798159--39798228	32	2.2	31	90	5	122	60	1	0	38	1.06
39799686--39799793	53	2.0	53	92	0	180	29	14	20	35	1.93
39799765--39799822	29	2.0	29	93	0	98	37	10	13	37	1.79
39799712--39799875	82	2.0	82	91	2	267	32	12	18	36	1.89
39799794--39799960	53	3.2	53	92	0	262	29	13	20	37	1.90
39799686--39799928	135	1.8	135	94	0	432	30	13	19	36	1.91
39804420--39804459	20	2.0	21	85	5	55	45	7	10	37	1.66
39807410--39807494	28	2.9	29	80	8	100	54	14	11	20	1.71
39825039--39825099	29	2.1	29	82	8	72	40	3	4	50	1.40
39825055--39825111	28	2.0	29	86	10	82	40	5	5	49	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39828765--39828792	4	7.0	4	100	0	56	25	25	0	50	1.50
39835830--39835886	14	4.1	13	76	14	51	59	3	3	33	1.31
39838871--39838948	3	27.7	3	70	17	51	29	0	3	66	1.09
39838871--39838951	11	7.3	11	75	8	67	29	0	3	66	1.09
39844142--39844180	17	2.3	17	86	0	51	15	12	23	48	1.79
39846601--39846642	13	2.9	16	83	16	56	50	0	0	50	1.00
39847673--39847718	23	2.1	23	84	8	60	26	8	10	54	1.64
39855590--39855630	11	3.7	11	87	6	57	29	0	2	68	1.03
39856164--39856210	24	1.9	25	86	4	69	53	14	4	27	1.60
39865245--39865283	19	2.0	20	95	5	71	51	15	7	25	1.70
39867944--39867984	22	1.9	21	85	5	55	46	7	4	41	1.53
39877795--39877846	17	3.1	17	75	10	54	55	1	9	32	1.43
39888869--39888926	27	2.2	26	96	0	89	43	17	5	34	1.71
39889197--39889255	29	2.0	30	96	3	111	35	13	13	37	1.84
39890710--39890793	32	2.6	32	96	0	150	15	16	25	42	1.87
39901824--39901883	27	2.3	27	85	2	77	46	1	5	46	1.34
39918076--39918101	2	13.0	2	100	0	52	50	0	0	50	1.00
39920576--39920893	154	2.1	155	92	2	532	37	19	12	30	1.89
39920786--39921017	127	1.8	125	92	3	394	39	18	12	29	1.87
39925345--39925376	15	2.2	15	94	5	57	46	0	0	53	1.00
39925573--39925683	31	3.7	29	78	8	96	36	10	10	41	1.75
39926213--39926250	20	1.9	20	88	0	58	47	2	0	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39929082--39929123	17	2.5	17	82	14	52	59	0	0	40	0.97
39929860--39929889	2	15.0	2	100	0	60	50	0	0	50	1.00
39929897--39929941	19	2.3	20	85	11	58	40	2	2	55	1.24
39936215--39936247	14	2.2	16	89	10	52	60	0	3	36	1.12
39937273--39937314	3	14.0	3	100	0	84	66	0	0	33	0.92
39940702--39940740	4	9.8	4	100	0	78	25	0	25	48	1.51
39940737--39941253	103	4.9	103	81	7	515	26	20	17	35	1.94
39940922--39941171	112	2.2	113	89	2	367	25	20	18	35	1.95
39941137--39941162	12	2.2	12	100	0	52	26	11	23	38	1.89
39942959--39943028	34	2.1	33	89	2	104	18	4	10	67	1.36
39944023--39944064	15	2.8	15	85	0	57	54	0	0	45	0.99
39944030--39944066	18	2.1	18	100	0	74	51	0	0	48	1.00
39945023--39945161	59	2.4	59	80	2	145	26	28	16	28	1.97
39945055--39945171	59	2.0	59	83	3	146	29	25	16	28	1.97
39949574--39949625	18	3.0	18	86	10	65	51	0	1	46	1.12
39951702--39952016	168	1.9	168	87	1	470	32	16	20	30	1.95
39954591--39954653	21	3.0	22	80	17	71	65	1	33	0	1.03
39958998--39959190	100	1.9	101	88	1	289	30	27	16	25	1.97
39967232--39967387	84	1.9	84	97	0	294	32	19	6	41	1.77
39973520--39973568	19	2.5	19	81	12	55	69	10	0	20	1.17
39973685--39973773	44	2.1	41	83	10	108	66	19	4	10	1.38
39973796--39973859	16	3.7	16	80	14	65	73	21	3	1	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39973818--39973896	20	3.9	21	72	12	67	70	20	3	5	1.22
39973810--39973897	42	2.3	39	83	13	110	70	21	3	4	1.20
39973796--39973862	17	3.9	16	76	16	62	73	22	2	1	1.06
39978044--39978280	51	4.6	51	87	1	332	30	22	13	33	1.92
39984558--39984610	21	2.5	21	87	6	72	35	22	7	33	1.83
39985375--39985483	51	2.1	51	91	3	175	29	19	15	35	1.93
39985467--39985499	16	2.1	16	100	0	66	30	18	18	33	1.94
39985418--39985550	67	2.0	67	93	0	230	30	20	15	33	1.94
39985487--39985634	51	2.9	51	92	1	242	30	20	14	34	1.93
39985375--39985601	118	1.9	118	90	3	359	29	19	15	34	1.93
39989444--39989640	23	8.5	22	80	13	143	11	23	21	43	1.85
39989444--39989592	23	6.4	24	88	6	148	11	22	22	43	1.85
39989465--39989591	46	2.7	46	91	2	200	11	21	22	44	1.85
39989444--39989640	69	2.8	68	83	10	220	11	23	21	43	1.85
39991431--39991484	21	2.6	21	90	0	90	27	5	40	25	1.78
39996217--39996280	29	2.2	29	80	5	76	45	3	3	48	1.34
39997654--39997707	17	3.1	16	80	15	54	24	3	1	70	1.13
40008858--40008891	2	17.0	2	100	0	68	50	0	0	50	1.00
40013896--40013961	23	2.8	24	77	6	73	40	0	3	56	1.15
40013894--40013958	6	11.2	6	74	12	55	40	0	3	56	1.15
40013894--40013953	17	3.5	17	84	13	70	40	0	3	56	1.16
40014593--40014647	20	2.6	21	85	5	67	41	1	1	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40015871--40016046	57	3.1	58	86	3	266	41	24	1	32	1.62
40015871--40016171	87	3.5	84	80	11	265	39	24	2	33	1.69
40015871--40016171	29	10.4	28	73	15	222	39	24	2	33	1.69
40016205--40016364	29	5.6	29	81	3	162	34	27	5	32	1.80
40016071--40016274	102	2.0	103	85	6	281	38	25	2	32	1.71
40016233--40016390	85	1.9	85	81	5	194	34	26	6	32	1.82
40022624--40022753	66	2.0	66	81	6	156	30	18	29	21	1.97
40027672--40027825	77	2.0	77	88	2	229	28	14	10	46	1.78
40028324--40028355	2	16.0	2	100	0	64	50	50	0	0	1.00
40032452--40032518	32	2.1	31	83	2	80	32	7	11	47	1.68
40054844--40054879	2	18.0	2	100	0	72	50	0	0	50	1.00
40054841--40054911	12	6.2	11	79	12	63	54	0	0	45	0.99
40057425--40057472	16	2.8	17	87	6	62	37	2	2	58	1.22
40057464--40057491	13	2.2	13	100	0	56	50	0	0	50	1.00
40059441--40059465	6	4.2	6	100	0	50	16	36	32	16	1.90
40059892--40059938	6	7.8	6	86	9	69	17	2	14	65	1.36
40060011--40060087	26	2.9	26	76	3	73	57	9	1	32	1.38
40062982--40063045	27	2.4	27	97	0	119	23	39	21	15	1.92
40063126--40063258	58	2.3	59	79	12	143	35	2	5	57	1.34
40063108--40063230	58	2.2	57	82	8	146	34	2	5	57	1.35
40063411--40063472	27	2.3	27	97	0	115	19	30	32	17	1.95
40068675--40068713	18	2.2	18	86	9	53	61	0	2	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40070412--40070437	6	4.3	6	100	0	52	80	0	0	19	0.71
40073964--40073994	15	2.1	14	94	5	53	38	12	6	41	1.69
40075243--40075314	34	2.2	32	83	11	85	62	4	0	33	1.14
40076558--40076610	23	2.4	22	71	6	54	41	0	3	54	1.18
40079498--40079593	27	3.6	27	82	9	90	41	0	4	54	1.20
40079516--40079630	6	19.5	6	78	16	116	46	0	0	51	1.13
40079520--40079598	23	3.6	21	80	16	90	44	0	1	54	1.08
40079506--40079630	11	11.2	11	73	15	80	46	0	1	51	1.16
40079516--40079630	17	6.5	17	78	11	117	46	0	0	51	1.13
40079531--40079605	37	2.0	37	89	0	114	46	0	1	52	1.09

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