genome.fa.s3.2.7.7.80.10.50.1000.35.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  35  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)
15991890--15992227	139	2.6	129	77	14	334	51	10	10	27	1.70
15997677--15997713	2	18.5	2	100	0	74	51	0	0	48	1.00
16002917--16003021	54	1.9	54	100	0	210	20	15	18	46	1.84
16006635--16006754	60	2.0	60	98	0	231	22	30	9	38	1.85
16006810--16006970	23	6.9	23	82	6	157	41	23	24	10	1.86
16014363--16014397	16	2.1	17	89	5	54	42	8	0	48	1.33
16015048--16015863	407	2.0	408	96	0	1517	31	19	14	34	1.92
16033517--16033549	17	2.1	16	88	11	50	36	0	0	63	0.95
16038068--16038100	13	2.5	13	85	14	50	63	3	6	27	1.32
16038322--16038383	28	2.2	28	83	8	74	61	0	0	38	0.96
16044937--16045001	32	2.0	32	87	0	94	32	12	21	33	1.90
16046097--16046267	84	2.0	88	85	8	233	39	7	26	26	1.83
16049341--16049377	18	2.1	18	89	0	56	48	0	2	48	1.15
16052098--16052240	71	2.0	71	97	0	268	32	15	25	27	1.95
16053315--16053402	44	2.0	44	97	0	167	28	4	9	57	1.49
16054396--16054447	22	2.3	23	75	18	56	36	17	11	34	1.86
16055915--16055976	18	3.5	18	77	2	63	27	17	9	45	1.80
16057985--16058044	28	2.1	28	81	0	66	31	13	21	33	1.92
16058037--16058086	21	2.4	22	73	10	59	32	10	30	28	1.89
16063527--16063584	31	1.9	31	89	3	91	37	13	6	41	1.72
16066766--16066799	11	2.9	12	86	8	52	50	20	17	11	1.77
16067016--16067065	2	25.5	2	91	4	75	54	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16067065--16067116	2	26.0	2	100	0	104	50	0	50	0	1.00
16067263--16067308	18	2.6	18	85	0	56	26	4	2	67	1.21
16070881--16070936	6	9.7	6	84	11	73	19	0	0	80	0.71
16073308--16073349	20	2.1	20	86	0	57	21	2	0	76	0.90
16079040--16079121	38	2.3	36	81	12	98	31	1	6	60	1.28
16105744--16105774	16	1.9	16	93	0	53	54	0	3	41	1.16
16110577--16110623	3	15.7	3	100	0	94	34	0	0	65	0.93
16132689--16132734	18	2.6	17	82	3	56	50	8	10	30	1.68
16133719--16133761	15	2.6	16	82	10	52	48	4	4	41	1.44
16137633--16137757	23	5.3	21	81	16	99	11	29	20	38	1.88
16137650--16137758	25	4.5	25	85	8	138	11	30	21	36	1.89
16137650--16137758	48	2.3	47	87	7	157	11	30	21	36	1.89
16143687--16143737	2	25.0	2	96	4	93	49	0	1	49	1.12
16145116--16145165	16	3.1	15	80	11	55	0	16	4	80	0.87
16145131--16145166	12	3.1	12	88	8	56	0	13	2	83	0.76
16146634--16146678	11	4.1	11	100	0	90	35	17	0	46	1.49
16155776--16155815	18	2.2	18	95	0	71	27	2	47	22	1.64
16165380--16165540	10	17.2	9	69	18	66	62	4	2	31	1.28
16165436--16165479	19	2.4	17	85	14	61	63	4	0	31	1.14
16165498--16165538	18	2.3	18	86	0	55	63	0	2	34	1.08
16165990--16166031	17	2.5	17	84	3	50	23	2	0	73	0.94
16167592--16167732	43	3.3	43	78	0	156	26	6	21	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16167602--16167763	86	1.9	86	81	0	198	28	9	19	41	1.83
16170328--16170407	31	2.6	31	84	7	117	28	16	12	42	1.84
16186463--16186497	16	2.2	16	94	0	61	48	0	0	51	1.00
16186998--16187049	27	1.9	27	84	0	68	48	13	11	26	1.77
16187598--16187750	79	1.9	79	85	2	209	41	20	16	21	1.90
16209058--16209155	30	3.3	29	83	9	101	50	7	12	30	1.67
16212206--16212248	17	2.5	17	85	7	61	30	0	2	67	1.03
16216800--16216851	27	1.9	27	88	0	77	5	9	5	78	1.07
16226263--16226301	20	2.0	20	85	10	53	51	5	2	41	1.38
16227629--16227720	41	2.2	41	90	1	139	41	4	6	47	1.49
16231789--16231941	20	7.2	20	79	13	153	13	13	12	60	1.60
16231807--16232634	5	159.8	5	67	17	268	7	13	16	61	1.54
16231789--16231941	45	3.5	42	83	11	152	13	13	12	60	1.60
16231934--16232420	22	23.4	20	67	15	109	6	13	18	61	1.53
16231950--16232637	32	20.9	32	71	16	204	6	13	17	62	1.52
16232020--16232607	27	20.5	27	67	24	250	6	13	17	62	1.50
16232063--16232625	64	8.7	64	77	11	465	6	13	17	62	1.51
16232468--16232530	22	2.8	23	88	7	94	6	11	15	66	1.42
16234767--16234960	20	9.5	20	71	16	139	12	15	11	60	1.59
16234834--16234911	35	2.2	35	93	0	129	14	16	10	58	1.62
16234932--16236155	5	232.2	5	65	15	373	5	13	17	62	1.51
16234946--16236162	32	37.9	32	77	12	861	5	13	17	62	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16235111--16236162	76	14.8	74	76	15	837	6	13	17	62	1.51
16235399--16236142	27	26.6	27	72	17	318	6	13	17	62	1.50
16241889--16242006	23	5.4	23	78	13	124	43	22	22	11	1.86
16241895--16241969	39	1.9	39	91	0	123	44	21	22	12	1.85
16244734--16244899	23	7.3	23	86	2	169	45	20	20	13	1.84
16244731--16244923	23	8.5	23	84	5	144	46	20	20	12	1.83
16245369--16245405	10	3.4	11	88	11	58	24	10	0	64	1.25
16247400--16247448	21	2.3	22	79	13	57	48	0	8	42	1.32
16248293--16248339	2	23.5	2	100	0	94	48	0	0	51	1.00
16250291--16250448	5	31.6	5	73	14	103	11	15	13	59	1.61
16250297--16250488	15	12.5	15	72	18	146	14	14	12	58	1.63
16250292--16250459	20	8.4	20	76	17	170	12	15	13	58	1.64
16250337--16250488	35	4.2	35	79	12	80	15	13	12	58	1.63
16250281--16250373	25	3.9	25	79	13	124	9	15	12	62	1.54
16250295--16250478	20	9.4	20	73	20	167	13	15	12	58	1.63
16250299--16250503	40	5.3	38	82	12	206	14	14	12	58	1.63
16250527--16251119	20	29.4	20	72	17	353	60	10	15	13	1.58
16250564--16251117	45	13.0	45	72	19	309	60	10	15	13	1.58
16250565--16251018	105	4.2	105	83	8	461	61	9	15	13	1.57
16250905--16251119	30	7.2	30	75	10	206	60	11	15	12	1.58
16250735--16251119	25	15.2	25	72	18	185	61	10	15	12	1.57
16251040--16251116	10	7.7	10	76	11	68	61	11	14	12	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16251518--16251914	106	3.7	107	93	1	663	40	17	7	34	1.77
16251518--16251914	214	1.9	214	92	2	681	40	17	7	34	1.77
16252247--16252561	105	2.9	107	92	3	508	40	17	8	33	1.80
16257571--16257631	30	2.0	30	93	0	104	13	14	13	59	1.63
16257596--16258255	20	32.7	20	72	17	431	11	15	13	60	1.60
16257574--16257627	15	3.6	15	73	9	56	14	14	11	59	1.62
16257640--16257677	15	2.5	15	84	12	51	5	13	13	68	1.37
16257621--16258078	125	3.7	125	85	6	578	12	15	13	58	1.62
16257726--16258352	90	6.8	90	71	16	247	10	14	14	60	1.58
16257761--16258237	25	20.3	25	68	20	142	10	14	13	60	1.58
16257985--16258388	30	13.0	29	72	18	143	8	13	15	62	1.52
16257746--16258255	55	9.1	54	72	16	239	10	14	13	60	1.58
16258211--16258401	32	5.9	32	91	1	301	6	13	17	62	1.52
16258211--16258401	97	2.0	96	93	3	330	6	13	17	62	1.52
16260946--16260981	17	2.1	18	90	10	58	52	0	8	38	1.32
16263557--16263715	79	2.0	79	98	0	309	32	10	12	44	1.76
16273522--16273591	23	3.2	22	76	12	81	10	7	30	52	1.61
16273528--16273592	20	3.1	20	75	12	76	10	6	27	55	1.58
16275085--16275187	38	2.6	41	75	10	115	23	18	26	32	1.97
16275113--16275191	37	2.1	38	85	2	106	24	18	22	34	1.97
16277351--16277419	11	6.3	11	79	15	72	55	23	8	13	1.65
16277441--16277498	24	2.4	24	76	2	62	72	6	1	18	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16277441--16277510	25	2.8	25	80	6	81	71	8	2	17	1.23
16279584--16279640	29	2.0	29	92	0	96	43	22	14	19	1.86
16279625--16279673	19	2.6	19	83	0	71	44	16	12	26	1.82
16289785--16289827	13	3.2	13	83	9	52	72	4	6	16	1.24
16291903--16291932	10	3.1	10	95	4	53	60	0	40	0	0.97
16294660--16294848	69	2.7	69	80	2	200	22	17	25	34	1.96
16294660--16294894	69	3.4	67	77	6	186	22	19	24	33	1.97
16295012--16295559	69	7.9	69	80	2	555	25	16	25	32	1.96
16294935--16295461	138	3.8	137	80	5	384	25	17	25	32	1.97
16312409--16312594	102	1.9	101	93	3	322	22	23	19	33	1.97

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