genome.fa.s9.2.7.7.80.10.50.1000.123.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  123  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)
39426212--39426252	10	4.1	10	87	12	66	58	2	0	39	1.11
39426310--39426367	28	2.1	28	87	6	82	62	3	5	29	1.33
39428888--39429483	198	3.0	198	95	0	1086	30	19	15	33	1.94
39430039--39430080	9	4.7	9	82	11	50	33	2	19	45	1.63
39430083--39430122	10	3.9	10	80	6	53	52	0	22	25	1.47
39430078--39430123	21	2.1	22	92	4	76	50	0	19	30	1.48
39430083--39430132	11	4.7	11	80	2	50	52	0	24	24	1.48
39433063--39433093	16	1.9	16	93	0	53	45	12	16	25	1.83
39434119--39434172	27	2.0	27	100	0	108	22	7	14	55	1.64
39436653--39436976	29	11.2	28	70	20	170	37	1	27	33	1.68
39436642--39436975	58	5.8	57	83	7	381	37	2	26	33	1.69
39436637--39436987	116	3.0	114	84	8	460	36	2	28	32	1.71
39438836--39438924	6	15.0	6	69	19	62	52	2	2	42	1.26
39438841--39438890	25	2.0	25	96	0	91	54	0	2	44	1.11
39438836--39438911	17	4.6	17	73	14	70	55	1	1	42	1.16
39438844--39438889	11	3.9	11	78	15	56	56	0	2	41	1.11
39438819--39438914	11	8.7	11	68	12	54	51	1	1	46	1.14
39439208--39439952	76	9.8	76	91	1	1129	33	17	16	33	1.92
39439208--39439952	151	4.9	151	89	2	1118	33	17	16	33	1.92
39439819--39439950	38	3.2	45	64	28	94	34	16	15	33	1.91
39450991--39451087	49	2.0	49	87	0	140	22	14	20	42	1.88
39467796--39467836	19	2.1	20	86	4	57	43	2	4	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39469765--39469792	13	2.2	13	100	0	56	32	10	35	21	1.88
39477750--39477856	30	3.6	30	89	2	171	39	1	23	35	1.66
39478546--39478621	11	7.1	11	73	18	54	39	1	3	55	1.27
39478548--39478623	6	13.0	6	72	10	68	40	1	3	53	1.27
39478548--39478634	35	2.5	36	84	5	124	42	1	3	52	1.25
39478548--39478636	17	5.1	17	84	4	115	41	1	3	53	1.24
39485542--39485584	18	2.2	21	88	12	65	76	0	23	0	0.78
39486386--39486420	6	5.7	6	93	6	61	85	0	14	0	0.59
39486351--39486420	13	5.4	13	74	19	65	81	0	11	7	0.87
39487577--39487823	50	5.0	49	80	5	250	38	23	25	11	1.89
39487954--39488634	92	7.4	91	93	0	1101	33	16	17	32	1.92
39487954--39488645	367	1.9	367	91	1	1138	33	16	16	32	1.92
39488919--39488977	6	9.8	6	77	5	57	44	1	5	49	1.34
39488891--39488971	17	4.6	17	77	8	65	39	1	6	53	1.34
39488909--39488958	23	2.1	24	88	3	75	40	0	6	54	1.25
39488923--39488971	12	4.2	12	81	5	64	42	2	6	48	1.39
39488891--39488977	41	2.1	41	85	4	113	41	1	5	51	1.33
39493322--39493525	52	3.9	52	85	7	261	31	25	14	29	1.94
39497067--39497228	30	5.4	30	80	8	152	41	1	19	37	1.59
39497094--39497228	29	4.6	29	83	6	157	40	1	20	37	1.62
39497083--39497228	59	2.5	57	82	10	179	41	1	20	36	1.61
39512384--39512423	21	1.9	21	85	10	55	50	5	5	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39517364--39517408	23	2.0	23	90	0	72	55	15	6	22	1.63
39525041--39525130	34	2.4	37	80	12	96	58	6	6	27	1.48
39533070--39533121	27	1.9	27	92	0	86	42	26	3	26	1.73
39533152--39533185	14	2.4	14	95	0	59	50	0	0	50	1.00
39533173--39533262	27	2.9	31	72	23	82	38	0	2	58	1.10
39533685--39533730	21	2.2	21	84	0	56	58	2	0	39	1.10
39533691--39533732	21	2.0	21	90	0	66	50	2	0	47	1.14
39533687--39533772	19	4.2	20	76	13	68	52	4	0	43	1.22
39534530--39534607	39	2.0	39	89	0	120	37	3	16	42	1.67
39534809--39534839	8	3.9	8	100	0	62	38	9	25	25	1.86
39535231--39535272	19	2.2	19	83	8	50	61	0	7	30	1.22
39538914--39539007	38	2.5	39	83	11	115	36	1	6	56	1.32
39538937--39539023	38	2.2	40	82	8	108	35	3	6	54	1.44
39541190--39541214	2	12.5	2	100	0	50	52	0	0	48	1.00
39541403--39541450	19	2.4	20	82	10	62	54	0	0	45	0.99
39541389--39541453	18	3.4	18	81	8	67	56	1	0	41	1.08
39541470--39541516	22	2.2	21	85	11	60	46	2	0	51	1.13
39542917--39542978	28	2.2	29	77	16	67	25	9	29	35	1.88
39542958--39543427	59	8.1	59	81	9	470	35	2	28	33	1.72
39542956--39543387	117	3.7	116	84	6	457	35	2	28	33	1.71
39543102--39543427	29	11.2	27	71	21	184	32	3	30	33	1.73
39544508--39544541	9	3.8	9	88	0	50	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39545262--39545293	14	2.2	15	94	5	57	25	6	18	50	1.70
39545305--39545381	17	4.4	18	79	9	79	53	3	1	41	1.27
39545305--39545369	34	1.9	34	90	0	103	52	3	1	43	1.26
39545414--39545539	30	4.2	30	87	2	180	44	11	13	30	1.80
39545433--39545568	61	2.3	60	89	2	202	47	11	11	30	1.75
39545590--39545740	33	4.6	33	83	3	169	48	13	8	29	1.72
39545590--39545740	66	2.3	66	87	0	203	48	13	8	29	1.72
39546945--39546991	22	2.2	21	85	11	60	46	2	0	51	1.13
39549288--39549652	184	2.0	182	94	3	644	40	17	12	29	1.85
39550993--39551964	80	12.3	80	93	2	1637	24	18	24	32	1.97
39550993--39551964	158	6.2	160	93	2	1637	24	18	24	32	1.97
39551945--39551984	19	2.1	19	85	4	53	37	12	20	30	1.89
39551905--39552023	59	2.0	59	96	3	222	26	15	23	33	1.95
39551964--39552110	40	3.7	39	79	10	172	25	19	22	32	1.97
39551825--39552103	139	2.0	139	95	1	506	25	18	23	32	1.97
39551964--39552132	79	2.1	79	93	2	286	27	17	23	31	1.97
39564102--39564473	186	2.0	185	94	4	660	40	17	12	29	1.86
39568454--39568707	41	6.1	41	81	1	256	28	19	17	33	1.95
39570715--39570816	45	2.3	45	89	0	150	10	15	22	50	1.75
39570798--39570890	21	4.3	21	69	17	64	8	17	24	49	1.74
39570783--39570955	66	2.6	66	92	1	283	10	14	24	50	1.75
39570832--39570938	25	4.6	24	70	18	68	13	13	23	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39572486--39572553	30	2.3	30	84	0	82	30	27	23	17	1.97
39582403--39582687	51	5.5	51	85	4	356	32	16	23	28	1.96
39582403--39582687	105	2.7	102	86	3	356	32	16	23	28	1.96
39587555--39587614	21	2.8	22	77	7	70	38	6	20	35	1.79
39589946--39590147	30	6.8	29	79	8	176	35	3	24	36	1.73
39589946--39590147	60	3.4	58	79	6	217	35	3	24	36	1.73
39591171--39591202	11	3.0	11	95	4	57	34	0	0	65	0.93
39592371--39592547	48	3.9	47	70	15	140	24	25	14	35	1.93
39592377--39592539	85	1.9	85	85	0	227	23	26	13	36	1.92
39592258--39592662	207	2.0	208	89	1	625	23	23	16	37	1.93
39592580--39592709	48	2.7	48	82	0	152	25	24	11	38	1.89
39592470--39592835	171	2.1	170	89	1	554	25	21	14	39	1.91
39592658--39593045	210	1.8	210	88	0	587	25	19	15	39	1.91
39593060--39593194	46	3.0	44	76	9	123	28	17	24	29	1.97
39593230--39593485	96	2.6	98	82	5	300	16	32	18	32	1.93
39593225--39593482	50	5.2	50	70	10	201	16	32	17	32	1.93
39599915--39600228	30	10.6	29	80	4	209	35	3	25	35	1.73
39599915--39600183	90	3.0	89	76	6	260	35	2	26	34	1.72
39601248--39601280	7	4.9	7	88	7	50	30	0	0	69	0.88
39601248--39601287	11	3.8	11	78	21	50	32	0	0	67	0.91
39601481--39601549	28	2.5	27	79	4	66	24	7	15	52	1.68
39602802--39602831	13	2.2	14	94	5	53	46	30	6	16	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39603672--39603711	21	1.9	21	84	0	53	27	0	20	52	1.46
39611598--39611690	36	2.6	36	89	0	132	38	26	13	20	1.90
39615884--39615942	24	2.5	24	83	2	75	32	16	22	28	1.96
39620583--39620625	21	2.0	22	86	4	61	62	6	4	25	1.40
39638548--39638583	13	2.6	15	79	20	51	27	16	13	41	1.87
39638685--39638720	3	12.0	3	93	0	63	66	2	0	30	1.06
39643597--39643940	53	6.6	53	83	8	393	34	21	15	28	1.95
39643597--39643940	104	3.3	106	83	6	436	34	21	15	28	1.95
39643597--39643940	157	2.2	154	83	10	430	34	21	15	28	1.95
39645724--39645757	10	3.3	10	84	8	50	67	8	11	11	1.42

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