genome.fa.s4.2.7.7.80.10.50.1000.54.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  54  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)
16725958--16726264	41	7.5	41	84	1	373	28	17	25	29	1.97
16728469--16728515	17	2.8	17	76	0	58	46	14	23	14	1.82
16739380--16739422	16	2.6	16	82	13	52	2	18	0	79	0.85
16740000--16740035	18	2.1	18	89	5	56	58	11	13	16	1.63
16739998--16740061	21	3.3	20	80	16	66	56	10	10	21	1.64
16753663--16753988	41	8.0	41	84	1	411	26	18	26	28	1.98
16757838--16757880	18	2.4	18	88	11	63	4	18	0	76	0.95
16762472--16762514	18	2.4	18	88	11	63	0	18	0	81	0.69
16763279--16763317	14	2.8	14	81	14	53	66	0	17	15	1.25
16767712--16767760	16	2.9	18	82	11	59	10	2	16	71	1.22
16768206--16768234	14	2.0	15	93	6	51	0	44	0	55	0.99
16769050--16769074	12	2.1	12	100	0	50	52	8	8	32	1.60
16771550--16771585	18	2.1	18	89	5	56	33	25	0	41	1.55
16772864--16772909	24	2.0	23	83	12	58	8	15	6	69	1.34
16780555--16780598	24	2.0	23	82	13	56	9	36	0	54	1.32
16794564--16794613	20	2.5	20	87	9	75	30	2	18	50	1.58
16820634--16820684	21	2.5	20	81	9	66	13	15	31	39	1.87
16828662--16829025	122	3.0	122	93	1	604	38	10	8	42	1.69
16828709--16829076	122	3.0	120	72	17	287	40	10	8	41	1.68
16833231--16833422	26	7.5	26	80	2	199	31	29	15	23	1.95
16833231--16833422	51	3.7	51	77	5	190	31	29	15	23	1.95
16833231--16833422	77	2.5	76	87	3	276	31	29	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16833869--16833946	34	2.3	34	95	0	138	30	14	3	51	1.60
16836392--16836540	63	2.4	63	80	0	163	27	7	30	34	1.84
16847906--16848000	46	2.1	46	84	5	122	24	5	9	61	1.48
16856517--16856551	18	2.0	17	88	5	52	57	5	0	37	1.23
16861324--16861362	12	3.2	12	81	0	51	33	5	20	41	1.74
16862239--16862264	10	2.6	10	100	0	52	76	0	0	23	0.78
16863486--16863528	4	10.2	4	80	9	50	46	2	4	46	1.36
16865115--16865173	30	2.0	30	90	6	93	20	20	35	23	1.96
16869583--16869618	18	2.0	18	89	10	56	33	2	0	63	1.08
16869584--16869625	19	2.3	18	84	12	50	33	7	0	59	1.25
16870020--16870122	36	2.9	34	76	15	93	60	4	6	28	1.43
16870020--16870289	70	3.8	70	87	1	344	59	4	8	27	1.47
16870020--16870336	140	2.3	138	81	4	350	57	5	8	28	1.50
16875766--16875818	26	2.0	26	88	0	79	35	20	11	32	1.88
16875773--16875833	26	2.3	26	88	0	86	31	21	11	36	1.89
16875962--16876046	34	2.5	34	92	3	145	38	32	11	16	1.85
16877469--16877550	40	2.0	40	95	0	146	28	26	10	34	1.90
16879646--16879700	28	2.0	28	96	0	101	23	30	18	27	1.97
16884431--16884485	28	2.0	28	96	0	101	21	32	16	29	1.95
16885726--16885760	16	2.2	16	90	5	54	22	20	0	57	1.41
16888435--16888486	21	2.5	21	78	6	61	30	26	13	28	1.94
16890489--16890519	16	1.9	16	93	0	53	22	22	0	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16893078--16893406	91	3.6	90	78	4	347	24	16	26	31	1.96
16893078--16893409	46	7.3	46	81	1	364	24	16	26	32	1.96
16895942--16896052	46	2.4	46	85	5	152	20	18	26	35	1.95
16898780--16899057	46	6.1	45	79	6	308	28	15	23	33	1.95
16898771--16899050	92	3.1	92	85	3	359	27	16	23	32	1.95
16898780--16899050	138	2.0	137	85	5	368	28	15	23	32	1.95
16901711--16902348	46	14.1	46	82	4	679	24	14	26	34	1.94
16901711--16902348	275	2.3	271	84	5	779	24	14	26	34	1.94
16903250--16903281	12	2.6	13	85	14	50	0	25	0	75	0.81
16903248--16903281	18	1.9	17	88	5	50	0	23	0	76	0.79
16905204--16905338	52	2.6	52	97	0	252	25	13	25	35	1.92
16915866--16916002	69	2.0	69	85	7	188	41	2	21	33	1.68
16918826--16919009	37	5.0	37	83	2	217	18	20	29	31	1.96
16918826--16919036	74	2.8	73	82	5	228	18	20	28	32	1.96
16918826--16919040	111	1.9	111	85	1	297	17	20	29	32	1.96
16940883--16940992	42	2.6	42	89	1	159	40	8	27	24	1.83
16940918--16941024	42	2.5	42	83	3	126	40	8	28	23	1.83
16941420--16941464	16	2.8	16	86	10	56	11	2	4	82	0.91
16941423--16941461	7	5.3	7	84	9	51	10	2	2	84	0.81
16954029--16954138	42	2.6	42	84	4	132	39	12	28	20	1.89
16955707--16955852	37	3.9	37	88	0	211	16	21	31	30	1.95
16955704--16955873	74	2.3	74	89	0	250	17	21	31	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16955707--16955873	37	4.5	36	87	1	190	17	20	31	30	1.96
16962952--16963190	52	4.6	52	93	0	397	25	13	25	35	1.93
16963945--16963998	21	2.6	21	75	0	54	31	12	25	29	1.93
16965102--16965142	20	2.0	20	100	0	82	31	9	24	34	1.88
16968917--16968965	18	2.7	18	75	12	55	14	8	0	77	0.98
16970740--16970783	9	4.9	9	81	10	54	68	0	29	2	1.02
16977944--16978076	37	3.6	37	87	0	176	16	23	31	28	1.96
16985201--16985726	272	1.9	271	90	1	840	34	17	11	36	1.86
16991700--16991731	5	6.4	5	100	0	64	18	0	81	0	0.70
16996069--16996164	41	2.3	41	92	3	158	37	30	4	28	1.76
16996154--16996192	17	2.3	17	90	0	60	46	25	12	15	1.81
17002260--17002329	19	3.7	19	82	1	61	25	30	20	24	1.99
17002288--17002408	18	6.7	18	84	4	109	30	27	22	19	1.98
17002287--17002408	36	3.4	36	80	1	136	30	27	22	19	1.98
17004734--17004767	6	5.7	6	92	0	59	47	2	35	14	1.60
17006867--17006977	37	3.0	36	78	20	115	40	2	2	54	1.29
17006881--17006979	17	5.8	17	69	21	73	40	3	3	53	1.32
17006870--17007090	68	3.6	60	74	15	168	40	3	4	52	1.36
17006870--17007099	130	1.8	125	83	9	286	40	3	4	51	1.38
17012500--17012545	22	2.0	23	88	12	69	58	26	0	15	1.37
17012521--17012553	13	2.4	14	90	10	50	54	30	0	15	1.41
17013739--17014014	67	4.2	66	79	10	296	37	15	21	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17014506--17014557	19	2.7	19	93	0	86	36	11	21	30	1.89
17014835--17014873	18	2.2	18	90	0	60	23	35	0	41	1.55
17016186--17016253	27	2.5	27	82	0	91	36	16	30	16	1.90
17016183--17016261	27	2.9	27	80	0	86	35	13	30	20	1.92
17019385--17019437	7	6.6	8	78	12	56	1	35	0	62	1.06
17019396--17019436	15	2.6	16	85	11	50	0	36	0	63	0.95
17032169--17032236	9	7.7	9	74	9	50	70	2	4	22	1.18
17032170--17032238	27	2.5	28	83	4	77	72	2	4	20	1.15
17032234--17032272	20	1.9	21	94	5	71	58	0	0	41	0.98
17032595--17032762	4	41.8	4	77	8	153	25	0	5	67	1.17
17033296--17033330	18	1.9	18	100	0	70	28	31	11	28	1.92
17041510--17041575	33	2.0	33	96	0	123	28	15	13	42	1.85
17051411--17051474	17	3.9	17	76	15	55	60	0	1	37	1.06
17051415--17051472	25	2.3	25	85	8	73	60	0	1	37	1.07
17053134--17053184	23	2.3	23	86	10	70	39	5	1	52	1.37
17053198--17053314	58	2.0	58	94	0	207	35	15	8	40	1.78
17061558--17061596	20	1.9	21	84	5	53	38	7	10	43	1.67
17061680--17061723	22	1.9	24	90	9	74	45	6	0	47	1.29
17064531--17064567	17	2.2	17	90	9	58	16	5	2	75	1.10
17069225--17069761	266	2.0	267	94	0	950	40	16	13	29	1.87
17080298--17080620	60	5.4	59	79	11	279	37	17	19	25	1.94
17080332--17080623	60	4.8	60	79	11	285	36	17	19	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17080306--17080623	122	2.7	121	81	9	352	38	17	18	25	1.93
17084003--17084036	17	1.9	17	88	5	50	58	0	2	38	1.13
17084429--17084515	43	2.0	44	88	2	131	44	4	10	40	1.59
17084704--17084767	23	2.7	23	82	2	83	7	28	21	42	1.81
17089905--17089964	21	2.9	21	89	0	93	33	26	15	25	1.95
17089905--17089981	21	3.7	20	81	10	68	31	27	12	28	1.93
17095815--17095952	53	2.6	53	90	0	213	19	17	37	25	1.93
17095935--17096079	43	3.4	43	79	7	154	17	9	36	35	1.83
17095990--17096100	41	2.7	41	84	4	143	20	12	33	33	1.90
17096060--17096188	53	2.4	53	84	7	172	18	14	34	31	1.91

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