genome.fa.s4.2.7.7.80.10.50.1000.156.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  156  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)
48275554--48275601	17	2.8	17	90	0	69	56	12	0	31	1.37
48276384--48276429	24	1.9	24	86	0	65	32	10	0	56	1.34
48276334--48276469	64	2.1	64	80	14	147	38	13	1	46	1.53
48276512--48276537	13	2.0	13	100	0	52	46	0	0	53	1.00
48280249--48280311	11	6.1	11	75	20	73	42	0	0	57	0.99
48280251--48280312	6	10.8	6	76	10	67	43	0	0	56	0.99
48280262--48280312	23	2.2	23	96	0	93	45	0	0	54	0.99
48280251--48280294	17	2.6	17	92	0	79	43	0	0	56	0.99
48286156--48286196	13	3.0	13	85	7	55	34	0	2	63	1.08
48287527--48287712	97	1.9	97	88	0	282	38	15	19	26	1.92
48288281--48288461	29	6.2	29	76	10	120	33	3	28	34	1.75
48288289--48288490	58	3.5	56	72	15	151	33	3	28	33	1.76
48288386--48288466	30	2.7	30	86	1	110	38	1	25	34	1.64
48288416--48288490	30	2.5	30	88	0	105	34	2	26	36	1.71
48289180--48289246	3	22.0	3	77	8	55	40	1	0	58	1.07
48289865--48289906	16	2.5	17	76	7	50	59	2	0	38	1.10
48291956--48292000	17	2.6	18	85	3	56	57	0	2	40	1.11
48294667--48295479	407	2.0	407	95	0	1477	34	22	15	27	1.95
48299261--48299285	13	1.9	13	100	0	50	56	4	0	40	1.18
48301786--48301835	26	1.9	25	84	8	64	32	4	8	56	1.47
48313188--48313249	31	2.0	31	96	0	115	43	8	16	32	1.77
48313953--48314043	2	45.5	2	100	0	182	49	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48314962--48315033	34	2.1	34	92	0	117	55	0	15	29	1.40
48315372--48315440	33	2.1	31	82	12	77	52	1	0	46	1.09
48315602--48315660	31	1.9	31	89	0	91	42	5	5	47	1.47
48324350--48324378	2	14.5	2	100	0	58	48	0	0	51	1.00
48324702--48324727	3	8.7	3	100	0	52	65	0	0	34	0.93
48324796--48324828	13	2.4	14	90	5	50	24	0	9	66	1.20
48327410--48327462	3	17.7	3	100	0	106	33	0	0	66	0.92
48335205--48335256	25	2.1	25	89	7	79	38	0	0	61	0.96
48341498--48341549	27	2.0	26	88	11	79	38	7	3	50	1.50
48344827--48344901	19	3.5	19	71	25	60	61	1	1	36	1.13
48344859--48344908	21	2.4	21	80	16	59	62	0	2	36	1.07
48347048--48347086	2	19.5	2	100	0	78	0	51	0	48	1.00
48351079--48351175	17	5.8	17	77	11	85	42	2	0	55	1.11
48351079--48351178	6	18.0	6	73	22	94	44	2	0	54	1.11
48351100--48351176	27	2.8	27	94	4	127	44	2	0	53	1.14
48351079--48351177	11	9.0	11	77	15	82	43	2	0	54	1.11
48353143--48353243	28	3.5	30	69	17	88	29	24	3	41	1.73
48353096--48353419	117	2.8	116	83	8	383	29	29	4	36	1.77
48353096--48353419	58	5.6	58	86	4	397	29	29	4	36	1.77
48355128--48355160	17	1.9	17	88	11	50	36	0	9	54	1.32
48367816--48367889	37	2.0	37	91	0	121	32	17	13	36	1.89
48373722--48373754	10	3.3	10	91	0	57	57	0	42	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48376350--48376407	9	6.2	9	83	16	66	53	0	0	46	1.00
48376329--48376407	40	2.0	40	85	9	108	50	0	1	48	1.08
48376338--48376408	20	3.5	20	77	21	69	50	0	0	49	1.00
48376337--48376441	31	3.5	29	77	10	104	50	0	1	47	1.12
48377481--48377581	29	3.4	29	82	9	134	47	0	0	51	1.07
48377505--48377586	9	9.8	9	74	22	81	48	1	0	50	1.08
48377503--48377590	20	4.5	20	75	21	80	48	1	0	50	1.08
48377472--48377586	58	2.0	57	89	5	178	48	0	0	50	1.06
48381894--48382117	91	2.4	90	85	3	297	31	11	13	43	1.80
48382021--48382088	29	2.3	31	82	5	86	29	13	14	42	1.84
48382947--48383028	31	2.6	31	86	0	101	42	15	12	29	1.83
48387476--48387611	59	2.3	59	89	2	213	32	1	30	36	1.67
48387476--48387613	58	2.4	58	90	2	215	31	1	30	36	1.67
48387579--48387733	30	5.1	30	78	9	172	34	3	23	38	1.71
48387571--48387748	60	2.9	61	79	8	202	35	3	24	37	1.72
48389324--48389374	19	2.8	19	88	11	72	56	5	5	31	1.47
48389366--48389439	35	2.1	35	84	0	94	59	6	4	29	1.42
48389324--48389428	17	6.0	17	78	6	75	59	5	4	30	1.42
48389378--48389439	18	3.5	18	77	4	63	59	4	4	30	1.39
48391549--48391585	2	18.5	2	100	0	74	48	0	0	51	1.00
48401666--48401715	25	2.1	24	82	14	59	14	12	26	48	1.78
48425281--48425328	2	24.0	2	100	0	96	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48426031--48426080	24	2.1	24	82	10	59	24	4	2	70	1.15
48427317--48427384	24	2.7	23	84	13	82	42	1	4	51	1.31
48427367--48427428	19	3.3	19	78	8	74	43	1	0	54	1.09
48427437--48427487	18	2.8	18	81	0	66	35	5	5	52	1.50
48427975--48428013	16	2.4	16	95	0	69	38	7	25	28	1.83
48428182--48428328	59	2.5	56	81	12	170	49	1	2	46	1.24
48433481--48433556	38	2.1	37	85	7	102	40	25	7	26	1.82
48446387--48446413	2	13.5	2	100	0	54	51	0	0	48	1.00
48449722--48449763	22	1.9	22	95	0	75	23	26	26	23	2.00
48449744--48449968	41	5.8	40	75	12	180	20	26	21	31	1.98
48449841--48449975	73	1.9	72	85	1	189	18	25	22	33	1.97
48449939--48450051	40	2.8	40	84	1	154	21	22	23	33	1.97
48451082--48451144	28	2.2	28	86	5	83	61	0	6	31	1.21
48458132--48458194	28	2.2	28	86	5	83	31	6	0	61	1.21
48459225--48459337	40	2.8	40	87	1	163	33	23	22	20	1.97
48459376--48459532	41	3.9	41	82	1	190	31	21	27	19	1.97
48459499--48459553	22	2.4	22	81	6	56	25	27	29	18	1.98
48459513--48459554	22	1.9	22	95	0	75	23	26	26	23	2.00
48462864--48462888	13	1.9	13	100	0	50	52	0	0	48	1.00
48471252--48471303	24	2.2	24	82	6	61	57	3	0	38	1.17
48475253--48475281	15	1.9	15	100	0	58	41	6	13	37	1.72
48479548--48479576	15	1.9	15	100	0	58	37	13	6	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48488143--48488183	21	1.9	21	85	5	55	46	4	2	46	1.37
48492902--48492940	17	2.3	17	86	0	51	48	25	10	15	1.76
48504020--48504057	8	4.9	8	87	6	51	44	0	0	55	0.99
48507588--48507625	18	2.0	21	85	15	55	44	7	5	42	1.56
48508752--48508797	17	2.8	17	81	15	60	2	39	0	58	1.10
48512658--48512707	26	1.9	26	84	8	66	38	4	8	50	1.51
48512726--48512761	7	5.4	7	87	12	58	55	0	0	44	0.99
48512726--48512772	12	3.8	12	83	11	51	55	0	2	42	1.12
48516518--48516553	3	12.0	3	100	0	72	33	0	0	66	0.92
48519244--48519306	24	2.6	24	89	0	99	23	14	11	50	1.74
48521234--48521295	24	2.6	24	89	0	97	24	14	11	50	1.75
48522317--48522371	17	2.9	19	76	17	62	67	1	5	25	1.22
48523940--48524618	140	4.9	140	81	6	787	27	20	21	31	1.98
48524232--48524464	126	1.8	126	87	1	342	30	18	21	29	1.97
48524232--48524490	126	2.1	126	84	1	331	30	19	21	29	1.97
48523940--48524633	281	2.6	267	81	5	718	27	20	20	31	1.97
48524549--48524701	78	2.0	78	87	5	220	33	15	18	32	1.92
48525597--48525635	16	2.4	16	84	12	53	48	15	0	35	1.45
48525599--48525634	17	2.1	17	90	10	56	50	16	0	33	1.46
48525770--48525821	20	2.6	20	87	6	70	46	21	5	26	1.74
48525771--48525935	27	6.1	27	71	13	126	44	24	6	24	1.78
48525818--48525935	54	2.2	53	83	7	141	44	24	6	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48525905--48525955	20	2.5	20	90	0	75	43	17	9	29	1.81
48528684--48528720	18	2.1	18	89	0	56	48	0	27	24	1.51
48531246--48531295	27	1.9	27	84	8	68	42	2	2	54	1.23
48535006--48535113	6	18.0	6	73	14	71	49	1	2	46	1.27
48535006--48535082	17	4.4	17	73	15	68	44	0	3	51	1.19
48535021--48535083	31	2.0	31	84	0	81	46	0	4	49	1.23
48534996--48535082	11	7.5	11	69	18	52	43	0	4	51	1.22
48535142--48535195	14	4.0	14	83	9	76	37	27	16	18	1.93
48535142--48535194	26	2.0	27	88	7	81	37	28	16	16	1.91
48536883--48537192	30	10.3	30	91	0	478	37	23	3	35	1.71

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