genome.fa.s4.2.7.7.80.10.50.1000.107.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  107  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)
34371997--34372067	4	18.0	4	72	13	58	71	4	1	22	1.11
34371982--34372083	28	3.3	30	69	27	81	71	4	1	21	1.15
34371997--34372040	17	2.4	18	92	7	72	77	4	0	18	0.94
34371992--34372083	11	7.8	12	70	15	68	71	4	2	21	1.14
34371978--34372084	31	3.5	31	71	22	93	71	4	1	21	1.13
34373377--34373413	18	2.1	18	94	0	65	13	0	10	75	1.04
34374735--34374904	85	2.0	85	100	0	340	24	4	27	43	1.74
34386315--34386381	30	2.3	30	82	17	95	46	0	2	50	1.16
34400848--34400909	28	2.2	28	82	0	79	27	12	19	40	1.88
34401024--34401077	28	1.9	28	84	0	72	16	14	24	44	1.85
34422600--34422637	19	2.0	19	89	0	58	39	0	5	55	1.23
34423428--34423467	17	2.4	18	80	16	50	7	17	7	67	1.38
34424094--34424144	21	2.4	21	90	0	84	25	1	27	45	1.64
34424845--34424886	18	2.3	19	80	12	52	28	2	16	52	1.56
34427485--34427514	8	3.9	8	95	4	53	23	0	0	76	0.78
34433762--34433788	2	13.5	2	100	0	54	0	48	0	51	1.00
34440179--34440211	18	1.9	17	88	11	50	18	3	33	45	1.65
34442562--34442617	23	2.4	23	75	0	58	26	37	14	21	1.92
34442583--34442646	28	2.3	28	80	0	74	26	37	14	21	1.92
34442611--34442673	23	2.7	23	80	0	72	23	33	15	26	1.95
34447425--34447480	22	2.5	22	80	5	69	66	1	0	32	1.03
34448235--34448275	21	2.0	21	90	9	66	58	4	4	31	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34448407--34448469	27	2.4	26	92	5	101	41	3	3	52	1.33
34449779--34449817	12	3.4	11	82	10	51	2	12	0	84	0.72
34458662--34458720	28	2.1	28	84	3	75	37	27	16	18	1.93
34458669--34458817	28	5.3	28	82	1	165	33	20	20	25	1.97
34466766--34467000	74	3.2	74	92	0	398	40	24	8	27	1.83
34468510--34468583	29	2.5	29	74	14	71	44	12	14	28	1.81
34468597--34468656	28	2.1	29	93	3	104	36	15	13	35	1.86
34469047--34469099	25	2.1	25	85	0	70	43	0	0	56	0.99
34480610--34480635	13	2.0	13	100	0	52	15	15	7	61	1.55
34485961--34486031	30	2.4	30	95	0	124	39	7	16	36	1.76
34487109--34487143	17	2.1	16	89	5	52	65	2	5	25	1.28
34487199--34487262	24	2.6	26	80	12	80	10	15	6	67	1.40
34487214--34487259	23	2.0	24	86	4	67	8	13	8	69	1.36
34488304--34488336	2	16.5	2	93	0	57	51	3	0	45	1.16
34495702--34495733	8	4.1	8	92	8	57	75	0	0	25	0.81
34495702--34495741	15	2.8	14	85	14	55	72	0	0	27	0.85
34495641--34495803	67	2.5	64	83	13	210	57	2	0	39	1.16
34495768--34495811	22	2.0	22	82	8	54	75	0	2	22	0.92
34496331--34497303	39	24.3	39	68	17	459	25	18	23	32	1.97
34496330--34497305	80	12.2	80	91	1	1430	25	18	23	32	1.97
34497359--34497484	50	2.5	50	77	2	119	22	25	13	38	1.90
34497391--34497486	50	1.9	50	84	0	129	20	25	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34497393--34497498	50	2.1	50	82	0	122	23	22	17	35	1.95
34498409--34498467	20	2.9	21	78	16	70	0	22	1	76	0.88
34498412--34498467	26	2.2	26	86	0	76	0	19	1	78	0.84
34498447--34498492	9	5.8	8	78	16	51	6	8	0	84	0.77
34498438--34498492	15	3.6	15	79	15	51	5	9	1	83	0.86
34498449--34498499	24	2.1	24	85	7	68	11	5	1	80	0.97
34501430--34501471	13	2.8	15	79	20	52	35	23	9	30	1.87
34501440--34501467	13	2.2	13	100	0	56	42	25	7	25	1.80
34503485--34503633	63	2.3	64	89	6	223	57	2	0	38	1.18
34503606--34503647	18	2.3	18	80	8	50	76	0	2	21	0.90
34509574--34509611	18	2.1	18	90	9	60	23	10	15	50	1.75
34510212--34510242	15	2.0	16	93	6	55	19	3	0	77	0.90
34510517--34510564	19	2.5	20	81	18	59	43	4	2	50	1.33
34514691--34514718	3	9.3	3	100	0	56	67	0	0	32	0.91
34516421--34516485	29	2.2	29	83	0	76	32	3	26	38	1.72
34516434--34516510	29	2.7	29	84	9	97	33	6	23	36	1.81
34516515--34516830	60	5.3	59	74	7	264	37	2	24	35	1.69
34516521--34516844	90	3.6	90	83	5	291	37	2	24	35	1.69
34516515--34516849	30	11.2	29	78	8	219	37	2	24	35	1.69
34521963--34522022	29	2.1	28	84	3	75	25	8	31	35	1.85
34521975--34522030	27	2.0	29	89	6	89	23	12	35	28	1.91
34521978--34522052	27	2.7	28	81	8	82	30	10	28	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34522043--34522316	30	9.2	30	82	4	245	36	1	24	38	1.63
34522043--34522316	90	3.1	89	83	4	295	36	1	24	38	1.63
34522727--34522760	12	2.8	12	100	0	68	5	41	26	26	1.78
34523340--34523374	10	3.3	10	88	11	52	51	0	0	48	1.00
34526655--34526690	18	2.1	17	89	5	54	47	0	19	33	1.50
34535020--34535049	13	2.3	13	94	0	51	26	6	0	66	1.16
34536013--34536297	29	9.8	28	73	12	168	36	25	1	36	1.67
34535999--34536287	58	5.0	57	73	12	214	34	24	1	38	1.66
34536092--34536293	87	2.3	87	83	5	248	35	26	0	36	1.64
34543591--34543710	39	2.9	39	81	7	132	44	12	23	20	1.85
34544452--34544614	49	3.3	48	80	8	150	34	16	31	17	1.93
34544538--34544818	49	5.5	49	75	13	251	33	15	33	17	1.91
34544561--34544674	61	1.9	60	90	1	183	34	14	36	14	1.87
34544638--34544818	99	1.8	98	83	3	238	33	16	32	18	1.93
34544630--34545133	49	10.3	48	71	8	255	33	15	32	18	1.92
34544769--34545034	98	2.7	98	80	5	297	34	15	32	17	1.91
34544868--34545145	147	1.9	147	80	3	317	34	15	32	18	1.92
34547211--34547363	57	2.6	58	81	9	177	32	25	2	39	1.70
34547211--34547363	30	5.2	30	78	10	149	32	25	2	39	1.70
34547222--34547493	29	9.4	29	72	10	119	31	26	2	38	1.70
34549438--34549534	46	2.1	46	81	5	108	32	14	19	32	1.92
34549293--34549547	45	5.6	45	68	17	132	34	13	19	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34553464--34553505	20	2.1	20	100	0	84	40	19	4	35	1.72
34556533--34556578	6	7.7	6	100	0	92	67	32	0	0	0.91
34558068--34558269	46	4.5	45	73	10	187	28	20	24	27	1.99
34558017--34558206	91	2.1	91	87	2	265	31	18	23	26	1.98
34558058--34558230	91	1.9	91	87	2	258	30	19	22	27	1.98
34567351--34567412	30	2.1	30	87	0	88	12	12	22	51	1.74
34568066--34568123	29	2.0	29	89	0	89	15	1	24	58	1.46
34568609--34568671	24	2.6	24	87	0	90	50	7	15	25	1.71
34572404--34572779	59	6.4	59	81	6	406	37	3	25	33	1.73
34572467--34572746	29	9.5	29	63	25	74	37	3	23	35	1.71
34572402--34572779	117	3.2	117	85	6	487	37	3	25	33	1.74
34572623--34572776	30	5.2	29	66	18	93	36	2	26	34	1.71
34572927--34573327	161	2.5	162	90	1	644	42	14	18	24	1.88
34574885--34574943	6	9.8	6	73	14	50	54	1	5	38	1.33
34574901--34574927	14	1.9	14	100	0	54	51	0	11	37	1.37
34583491--34583555	30	2.2	29	86	8	87	43	4	6	46	1.49
34585562--34585608	24	2.0	23	84	12	60	19	4	23	53	1.63
34585748--34585775	12	2.3	12	100	0	56	60	14	0	25	1.34
34586496--34586583	33	2.7	32	80	15	92	51	4	2	42	1.35
34599393--34599621	52	4.4	52	81	5	239	29	15	21	32	1.95
34604891--34604918	14	2.0	14	100	0	56	42	28	14	14	1.84
34610075--34610127	26	2.0	26	100	0	106	50	0	3	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34611465--34611511	25	1.9	24	86	4	67	42	2	40	14	1.58
34618316--34618343	4	7.0	4	100	0	56	25	0	75	0	0.81
34619965--34620030	30	2.2	30	86	2	89	45	10	10	33	1.73
34621350--34621481	27	4.9	26	76	5	102	25	15	34	24	1.95
34621325--34621455	54	2.4	54	83	3	158	24	16	34	24	1.96
34621307--34621497	81	2.4	80	80	6	201	28	17	31	22	1.97
34621363--34621481	54	2.2	54	81	3	132	23	15	35	25	1.95
34621363--34621496	27	5.0	26	77	5	79	26	17	32	23	1.96
34623273--34623309	18	2.1	18	89	0	56	48	0	27	24	1.51
34626088--34626168	37	2.2	38	81	2	92	22	20	25	30	1.98

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