genome.fa.s4.2.7.7.80.10.50.1000.63.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  63  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)
20032547--20032605	25	2.4	25	85	5	75	8	20	0	71	1.12
20032546--20032607	30	2.1	30	90	6	99	8	19	0	72	1.09
20032568--20032605	20	1.9	20	88	0	58	5	23	0	71	1.07
20032568--20032612	15	3.0	15	86	0	63	4	24	0	71	1.05
20033147--20033291	74	2.0	73	90	1	227	40	15	11	33	1.83
20034080--20036394	217	10.7	216	85	2	2756	27	17	14	40	1.89
20034084--20036394	433	5.3	429	83	4	2670	27	17	14	39	1.89
20036389--20041308	216	23.1	216	81	4	5397	28	16	14	40	1.88
20043087--20043267	36	5.0	36	91	2	292	28	10	23	37	1.88
20043521--20043657	66	2.1	66	84	2	177	20	10	27	42	1.84
20043746--20043878	23	5.8	23	87	0	176	33	5	13	48	1.65
20043930--20044042	20	5.2	21	70	21	74	34	5	22	38	1.77
20043875--20044088	68	3.2	68	85	2	243	34	6	21	38	1.79
20043938--20043976	10	3.8	10	86	3	51	35	2	23	38	1.68
20043913--20044007	23	4.1	23	68	22	74	36	6	20	36	1.78
20058516--20058542	14	1.9	14	100	0	54	44	22	0	33	1.53
20058508--20058586	40	2.0	40	82	5	97	43	22	5	29	1.75
20059980--20060035	27	2.1	27	96	0	103	46	23	3	26	1.68
20062116--20062492	194	2.0	192	81	5	447	25	25	20	27	1.99
20062420--20062640	111	2.0	111	91	1	363	24	23	16	34	1.95
20070588--20070728	69	2.0	69	86	5	196	39	8	21	31	1.83
20072252--20072276	12	2.1	12	100	0	50	32	16	8	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20084431--20084484	24	2.3	24	96	3	101	44	5	33	16	1.71
20091644--20091673	9	3.3	9	95	0	51	20	0	50	30	1.49
20102734--20103046	154	2.0	154	100	0	626	26	10	13	49	1.75
20106584--20106618	18	1.9	18	88	0	52	25	28	8	37	1.85
20118948--20119004	17	3.4	16	74	11	51	14	21	12	52	1.73
20125424--20125480	17	3.4	17	75	15	64	15	22	10	50	1.74
20132340--20132379	12	3.6	12	74	19	50	37	20	30	12	1.89
20132339--20132388	21	2.4	21	100	0	100	36	20	28	16	1.93
20132732--20132775	23	2.0	23	86	4	63	25	9	13	52	1.70
20136142--20136290	75	2.0	74	92	3	246	28	22	13	36	1.92
20137857--20137891	16	2.1	17	89	5	54	60	11	5	22	1.52
20139726--20139779	21	2.6	21	81	0	63	31	25	12	29	1.93
20139747--20139788	21	2.0	21	81	9	50	33	28	9	28	1.88
20141378--20141415	19	2.0	19	85	10	51	28	13	0	57	1.36
20158482--20158519	17	2.2	17	90	0	58	13	13	15	57	1.65
20170517--20170563	19	2.5	19	96	0	85	14	10	8	65	1.45
20171139--20171184	15	3.0	15	84	12	58	76	0	21	2	0.90
20181981--20182196	61	3.6	61	90	0	317	35	21	12	31	1.90
20188836--20188908	38	1.9	38	100	0	146	24	15	17	42	1.88
20200058--20200132	30	2.5	31	84	2	89	37	24	1	37	1.64
20208508--20208907	199	2.0	199	90	0	622	25	18	24	31	1.98
20213575--20216756	530	6.0	530	98	0	6051	29	17	13	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20215638--20215684	24	1.9	25	83	12	62	21	10	12	55	1.67
20216776--20216832	20	2.9	19	76	18	55	8	12	5	73	1.23
20218782--20218823	18	2.3	19	84	8	52	23	4	4	66	1.30
20220926--20221088	42	3.9	41	85	0	209	23	29	22	25	1.99
20220926--20221088	84	2.0	83	87	6	240	23	29	22	25	1.99
20226092--20226117	3	8.7	3	100	0	52	34	0	0	65	0.93
20228416--20228471	18	3.1	18	82	5	69	21	19	26	32	1.97
20233078--20233152	27	2.7	28	82	10	75	29	22	21	26	1.99
20233119--20233283	28	5.9	28	82	2	188	33	18	17	30	1.94
20233130--20233283	84	1.8	84	84	2	211	33	18	16	31	1.94
20233456--20233817	200	1.8	200	85	2	512	29	17	21	31	1.97
20242786--20242824	16	2.4	17	87	12	55	28	2	2	66	1.18
20252285--20252327	22	2.0	22	100	0	86	25	27	18	27	1.98
20253112--20253145	16	2.1	17	88	5	52	50	2	0	47	1.16
20263776--20263812	17	2.2	17	100	0	74	37	10	5	45	1.62
20269013--20269047	12	2.8	12	91	4	52	54	11	17	17	1.71
20269013--20269073	17	3.5	17	86	4	77	54	11	14	19	1.71
20285004--20285066	21	3.0	21	97	0	117	23	15	33	26	1.95
20287532--20287721	42	4.4	42	79	7	184	25	27	12	34	1.91
20287491--20287698	42	4.9	44	79	7	173	25	26	12	34	1.92
20289987--20290025	20	2.0	20	85	10	53	79	2	5	12	1.00
20300808--20301044	25	9.4	25	76	5	120	32	23	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20300834--20301049	25	8.6	25	76	2	200	31	22	18	27	1.97
20302846--20302929	37	2.3	37	83	8	116	26	28	17	27	1.98
20303028--20303086	26	2.3	26	88	2	84	30	18	23	27	1.98
20310396--20310493	25	3.9	25	83	0	88	37	20	17	24	1.93
20310398--20310494	50	1.9	50	85	0	131	36	21	17	24	1.95
20310407--20310496	25	3.6	25	86	0	117	34	23	17	24	1.96
20320133--20320177	22	2.0	23	91	4	74	33	13	8	44	1.75
20326346--20326942	24	24.9	24	82	0	629	33	16	25	25	1.96
20333475--20333673	56	3.6	56	88	1	283	33	27	15	23	1.95
20336520--20336571	25	2.1	25	96	0	95	21	11	9	57	1.62
20338522--20338581	25	2.4	26	81	10	72	23	11	11	53	1.70
20341247--20341339	45	2.1	45	97	0	177	25	26	23	23	2.00
20349123--20349167	15	2.9	15	84	12	56	2	20	0	77	0.87
20359398--20359444	12	3.9	12	77	5	51	70	2	27	0	0.99
20371611--20371662	27	1.9	27	96	0	95	36	26	3	32	1.75
20375291--20375332	15	2.8	16	82	7	52	38	9	21	30	1.85
20377099--20377178	26	3.2	26	62	13	69	27	25	18	28	1.98
20377091--20377186	48	2.0	48	100	0	192	27	22	20	29	1.99
20377091--20377167	24	3.2	24	61	14	59	29	20	22	27	1.98
20378657--20378744	7	13.0	7	84	5	119	17	2	10	70	1.25
20378657--20378744	34	2.6	34	94	1	151	17	2	10	70	1.25
20379343--20379384	21	2.0	22	85	4	59	64	4	19	11	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20388725--20388777	26	2.0	26	92	0	88	24	7	3	64	1.37
20391163--20391187	7	3.6	7	100	0	50	44	0	0	56	0.99
20391171--20391249	17	4.6	18	75	12	76	36	1	6	55	1.33
20391171--20391249	34	2.3	35	86	8	117	36	1	6	55	1.33
20391197--20391256	17	3.5	17	77	4	68	38	1	6	53	1.37
20391263--20391292	15	2.1	15	93	6	53	56	16	6	20	1.62
20392928--20393208	30	9.6	30	73	9	186	34	27	3	34	1.73
20392921--20393142	60	3.8	58	81	6	209	34	27	3	35	1.73
20392946--20393208	89	3.0	88	84	5	284	34	27	3	34	1.73
20393486--20393673	97	1.9	97	92	0	313	27	19	15	37	1.92
20402659--20402847	43	4.4	43	85	2	238	29	26	17	25	1.98
20402659--20402847	85	2.2	86	89	2	283	29	26	17	25	1.98
20402647--20402872	43	5.3	43	80	1	184	30	26	16	26	1.97
20417230--20417283	18	3.1	18	75	5	56	22	11	12	53	1.70
20420338--20420368	12	2.6	12	94	0	53	19	22	16	41	1.89
20446218--20446265	25	1.9	25	87	8	71	2	22	0	75	0.91
20446225--20446259	18	1.9	18	88	11	54	2	28	0	68	1.04
20446216--20446267	15	3.6	14	76	19	54	1	21	0	76	0.87
20463082--20463111	13	2.2	13	94	5	51	73	0	10	16	1.09
20474780--20474809	15	1.9	16	93	6	53	20	16	23	40	1.91
20496479--20496547	25	2.8	25	76	12	70	60	1	2	34	1.20
20503246--20503290	21	2.1	21	87	0	63	37	22	26	13	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20505065--20505241	51	3.5	51	88	1	248	33	14	21	31	1.93
20525713--20525757	22	2.0	22	100	0	90	26	4	13	55	1.57
20536465--20536700	118	2.0	118	96	0	436	35	8	9	47	1.66
20536490--20536725	118	2.0	116	83	4	298	39	7	9	43	1.65
20537922--20538015	47	2.0	48	82	4	118	32	9	12	44	1.75
20538093--20538119	14	1.9	14	100	0	54	25	14	22	37	1.93
20538092--20538136	23	2.0	23	90	0	72	28	13	22	35	1.92
20538366--20538449	42	2.0	42	88	4	125	46	20	1	32	1.58
20539039--20539646	304	2.0	304	98	0	1171	31	12	15	40	1.84
20552358--20552391	6	5.7	6	85	0	50	55	0	14	29	1.40

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