genome.fa.s4.2.7.7.80.10.50.1000.161.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  161  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)
49773974--49774022	18	2.7	18	78	9	55	40	6	4	48	1.47
49774115--49774163	14	3.6	14	80	5	64	38	32	16	12	1.86
49774694--49774754	7	9.3	7	77	13	58	47	0	4	47	1.23
49774694--49774754	13	4.6	13	74	15	54	47	0	4	47	1.23
49774701--49774754	19	2.8	19	80	2	72	48	0	3	48	1.19
49775507--49776004	161	3.1	161	92	1	784	25	16	13	44	1.84
49776106--49776300	29	6.7	28	69	17	112	31	30	3	34	1.75
49776145--49776302	29	5.4	29	72	19	139	30	31	3	34	1.76
49776106--49776302	59	3.4	59	93	0	324	30	30	4	34	1.76
49781128--49781186	29	2.0	29	87	6	84	50	0	28	20	1.48
49785576--49785671	41	2.3	41	98	0	183	36	29	6	28	1.81
49785661--49785699	17	2.3	17	90	0	60	46	25	12	15	1.81
49789163--49789192	2	15.0	2	100	0	60	0	0	50	50	1.00
49798513--49798545	17	1.9	17	93	0	57	24	0	0	75	0.80
49842796--49842832	18	2.1	18	89	0	56	29	16	16	37	1.90
49854528--49854627	46	2.1	46	85	5	128	51	13	8	28	1.68
49854527--49854628	49	2.1	50	82	8	131	51	12	7	27	1.67
49855679--49855718	19	2.1	19	100	0	80	27	10	15	47	1.77
49862158--49862192	2	17.5	2	100	0	70	51	0	48	0	1.00
49867438--49867463	9	2.9	9	100	0	52	34	11	0	53	1.37
49871057--49871096	18	2.1	20	86	9	57	32	2	0	65	1.06
49871075--49871119	23	2.0	23	91	8	74	31	2	2	64	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49873262--49873394	61	2.2	61	82	5	153	39	5	11	43	1.63
49876073--49876154	31	2.7	31	77	18	93	48	2	1	47	1.22
49879333--49879371	21	2.0	21	90	10	64	53	0	5	41	1.23
49881065--49881091	2	13.5	2	100	0	54	48	0	0	51	1.00
49881692--49881848	83	1.9	82	84	1	206	29	17	14	38	1.89
49881785--49881932	73	2.1	70	83	3	179	26	16	16	39	1.90
49885273--49885332	30	2.0	30	93	0	102	25	13	46	15	1.81
49894342--49894374	6	5.5	6	100	0	66	81	0	0	18	0.68
49894493--49894527	16	2.2	16	89	0	52	37	22	14	25	1.92
49898559--49898593	2	17.5	2	93	0	52	48	5	0	45	1.26
49916275--49916346	24	2.8	25	76	21	69	54	2	1	41	1.23
49927357--49927400	21	2.0	24	86	13	67	36	9	2	52	1.46
49928683--49928735	22	2.3	23	87	3	72	5	9	22	62	1.47
49928793--49928858	12	5.6	12	70	3	53	12	3	12	72	1.23
49928782--49928856	24	3.2	24	82	1	98	9	4	16	70	1.28
49936192--49936243	21	2.5	22	78	9	63	44	34	0	21	1.52
49940808--49940842	3	11.7	3	100	0	70	31	0	0	68	0.90
49944637--49944791	59	2.7	57	73	16	144	28	23	12	36	1.91
49944793--49944961	58	2.9	58	82	6	182	42	14	14	28	1.84
49945650--49945693	18	2.4	18	80	3	52	59	2	9	29	1.41
49946003--49946037	2	17.5	2	87	0	52	2	2	42	51	1.31
49948932--49949007	22	3.5	21	82	8	89	53	1	13	31	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49948976--49949021	16	2.7	18	87	9	62	54	0	13	32	1.39
49949103--49949163	19	3.4	19	70	21	58	47	4	11	36	1.61
49949096--49949167	35	2.1	35	94	0	126	48	4	11	36	1.58
49949207--49949273	34	1.9	35	88	8	102	58	1	10	29	1.41
49949215--49949273	18	3.5	17	84	11	77	59	1	8	30	1.37
49949360--49949397	15	2.4	16	86	4	51	55	2	5	36	1.37
49949516--49949607	6	16.0	6	82	8	102	53	1	14	31	1.48
49949516--49949607	17	5.4	17	84	7	98	53	1	14	31	1.48
49949516--49949607	23	4.0	23	81	5	114	53	1	14	31	1.48
49949513--49949578	29	2.3	28	89	5	114	53	0	18	28	1.45
49951048--49951174	20	6.1	19	68	19	74	32	5	3	59	1.36
49952726--49952782	21	2.6	22	86	8	64	14	12	1	71	1.21
49952727--49952756	16	1.9	15	93	6	51	16	16	0	66	1.25
49953731--49953792	30	2.1	30	100	0	124	29	3	3	64	1.25
49954399--49954541	61	2.4	59	79	10	146	32	11	10	45	1.75
49954513--49954747	113	2.1	113	82	8	284	34	14	20	31	1.92
49956392--49956428	16	2.3	16	90	0	56	51	0	5	43	1.24
49957459--49957510	12	4.8	12	75	18	51	25	19	1	53	1.55
49961681--49961732	16	3.3	15	82	17	61	46	1	19	32	1.61
49961914--49961973	24	2.5	24	78	2	77	53	0	0	46	1.00
49962197--49962251	27	2.0	27	86	10	76	52	14	0	32	1.42
49962741--49962807	31	2.2	31	86	7	93	47	17	11	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49962908--49962947	6	6.3	6	86	11	53	2	22	0	75	0.93
49965882--49966288	57	6.8	62	83	8	474	38	41	3	16	1.64
49965882--49966288	69	5.6	75	84	6	486	38	41	3	16	1.64
49965881--49966288	7	61.4	7	83	8	464	38	41	3	16	1.64
49979385--49979423	9	4.2	9	87	6	60	30	2	0	66	1.05
49979385--49979423	19	2.1	18	90	4	60	30	2	0	66	1.05
49988730--49988765	6	6.0	6	86	0	54	50	16	0	33	1.46
49989947--49990005	3	19.3	3	96	3	109	64	0	33	1	1.04
50007763--50008330	282	2.0	282	95	0	1010	44	14	13	27	1.83
50009660--50009710	2	25.5	2	100	0	102	49	0	50	0	1.00
50020761--50020808	26	1.9	24	95	0	69	62	2	2	33	1.18
50043701--50043766	33	2.0	33	85	8	91	31	9	7	51	1.62
50043857--50043908	25	2.1	25	88	0	77	32	3	0	63	1.12
50045094--50045127	17	2.1	15	89	10	50	29	0	64	5	1.17
50053317--50053378	31	2.0	31	87	9	92	38	4	12	43	1.64
50061533--50061949	213	2.0	214	90	2	669	24	18	17	39	1.92
50070167--50070227	30	2.0	30	100	0	122	42	3	19	34	1.68
50071994--50072019	2	13.0	2	100	0	52	50	0	0	50	1.00
50074144--50074201	29	2.0	30	83	10	75	29	5	12	53	1.59
50082869--50082898	13	2.3	13	94	0	51	16	10	0	73	1.09
50083017--50083057	15	2.5	17	80	11	59	65	0	0	34	0.93
50094926--50094970	18	2.6	17	86	6	63	53	4	6	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50099362--50099395	17	2.0	17	94	0	59	44	17	14	23	1.86
50111739--50111872	67	2.0	67	89	0	205	17	11	24	46	1.81
50112260--50112286	5	5.4	5	100	0	54	0	18	0	81	0.69
50125200--50125235	18	2.1	18	89	5	56	72	2	5	19	1.17
50127249--50127295	7	6.7	7	97	0	85	68	0	17	14	1.22
50127689--50128078	195	2.0	195	92	2	658	39	12	12	35	1.80
50135625--50135654	9	3.3	9	90	0	51	0	23	0	76	0.78
50136286--50136699	209	2.0	208	89	2	643	34	12	14	39	1.83
50136279--50136704	104	4.1	104	85	3	588	33	12	14	39	1.84
50142630--50142659	15	2.0	15	93	0	51	30	6	6	56	1.51
50143725--50143749	13	1.9	13	100	0	50	16	8	44	32	1.76
50144444--50144513	35	2.1	32	82	12	79	30	7	7	55	1.54
50147291--50147446	59	2.6	60	84	2	206	25	21	6	46	1.75
50155667--50155732	29	2.3	29	84	7	82	31	6	16	45	1.72
50157931--50158615	97	7.1	96	84	5	904	18	15	17	47	1.82
50157931--50158615	192	3.6	190	89	4	961	18	15	17	47	1.82
50165166--50165200	2	17.5	2	100	0	70	48	0	0	51	1.00
50169887--50169924	20	1.9	20	84	10	51	42	5	2	50	1.39
50178715--50178934	91	2.4	91	83	3	264	31	13	13	40	1.84
50186792--50186817	9	2.9	9	100	0	52	53	0	0	46	1.00
50193760--50193808	20	2.3	21	86	6	64	18	10	12	59	1.60
50193789--50193866	24	3.1	25	66	20	72	19	10	17	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50196907--50196935	3	9.7	3	100	0	58	31	0	0	68	0.89
50214936--50214989	28	1.9	28	88	0	81	33	5	9	51	1.57
50216098--50216159	28	2.2	28	86	13	83	24	8	6	61	1.48
50216176--50216258	29	2.9	29	74	18	77	25	10	8	55	1.62
50216829--50216857	1	29.0	1	100	0	58	0	100	0	0	0.00
50231443--50231571	31	4.2	31	73	11	111	41	4	13	40	1.65
50231428--50231572	62	2.3	62	77	5	141	41	5	13	40	1.67
50238811--50238866	29	1.9	29	85	0	76	42	10	8	37	1.71
50243979--50244016	19	2.0	19	100	0	76	42	5	10	42	1.62
50255353--50255419	19	3.5	20	82	10	86	58	4	0	37	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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193