genome.fa.s4.2.7.7.80.10.50.1000.171.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  171  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)
53328530--53328943	107	3.9	105	78	10	416	34	17	21	25	1.96
53330328--53330356	2	14.5	2	100	0	58	51	0	48	0	1.00
53338052--53338097	2	23.0	2	100	0	92	50	0	50	0	1.00
53338615--53338667	20	2.6	21	79	11	56	39	1	3	54	1.29
53338781--53338826	19	2.5	20	82	13	62	30	2	2	65	1.16
53342275--53342331	28	2.0	28	93	0	96	40	0	1	57	1.09
53342543--53342593	26	2.0	26	84	0	66	37	1	3	56	1.29
53347622--53347679	19	3.0	19	77	10	64	44	1	0	53	1.10
53347628--53347691	19	3.3	19	77	20	62	43	3	0	53	1.16
53347744--53347789	24	2.0	23	91	4	74	60	2	0	36	1.09
53348511--53348551	16	2.5	17	84	8	57	73	0	17	9	1.09
53348544--53348583	12	3.2	12	79	6	53	65	0	12	22	1.26
53356016--53356211	71	2.8	69	83	4	259	11	22	21	43	1.84
53356016--53356211	23	8.4	23	83	4	232	11	22	21	43	1.84
53356016--53356259	71	3.5	68	82	8	242	11	24	21	43	1.84
53357539--53357570	16	2.0	17	88	11	50	50	6	15	28	1.68
53357696--53357729	8	4.1	8	96	3	59	47	0	0	52	1.00
53366625--53366712	38	2.2	40	90	4	135	52	3	1	43	1.25
53367591--53367678	26	3.3	27	68	13	65	51	2	6	39	1.41
53367894--53367935	14	3.1	14	77	16	52	50	2	0	47	1.14
53370313--53370480	83	2.0	83	96	0	309	29	22	13	35	1.91
53375322--53375377	23	2.4	23	85	5	69	55	3	7	33	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53375322--53375369	23	2.0	24	88	4	71	52	4	8	35	1.51
53379895--53380271	61	6.3	59	83	9	460	29	20	16	34	1.94
53381129--53381178	26	1.9	26	88	8	75	62	6	6	26	1.42
53382278--53382302	13	1.9	13	100	0	50	56	0	8	36	1.29
53383689--53383843	44	3.5	46	67	17	128	52	5	5	37	1.46
53383560--53383929	89	4.3	88	85	10	482	51	4	5	38	1.46
53384060--53384108	12	3.8	12	75	19	53	40	8	0	51	1.32
53384070--53384104	17	2.1	16	89	5	52	48	8	0	42	1.33
53385844--53385919	6	13.0	6	75	15	70	43	0	1	55	1.08
53385843--53385919	17	4.8	16	81	13	86	42	0	1	55	1.07
53385893--53385935	16	2.6	16	85	3	50	53	0	2	44	1.13
53386619--53386671	28	2.0	27	85	7	72	60	0	1	37	1.08
53387771--53388082	29	10.5	30	68	19	176	32	28	2	36	1.72
53387741--53387977	59	4.0	59	86	2	343	32	29	3	34	1.74
53387742--53388068	89	3.7	90	69	18	245	32	29	3	35	1.73
53387741--53388023	59	4.8	59	83	6	331	32	28	3	36	1.73
53387981--53388124	58	2.5	58	84	4	173	31	29	4	34	1.78
53390616--53390657	19	2.3	19	84	15	54	59	7	0	33	1.25
53391298--53391922	60	10.5	60	79	10	612	34	16	20	29	1.94
53391298--53391922	117	5.3	117	84	7	730	34	16	20	29	1.94
53391298--53391922	237	2.6	232	83	7	776	34	16	20	29	1.94
53392541--53392585	20	2.2	20	84	0	54	53	8	20	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53392592--53392692	20	5.2	20	67	8	66	57	1	14	25	1.48
53392595--53392692	38	2.5	40	77	8	121	58	2	13	26	1.46
53393776--53393813	16	2.3	16	95	4	67	21	18	13	47	1.82
53394452--53394513	20	3.1	19	77	13	70	43	4	0	51	1.23
53394523--53394573	18	2.9	18	80	8	61	29	11	0	58	1.33
53394523--53394590	16	4.1	17	78	14	63	32	8	0	58	1.29
53396331--53396388	30	1.9	30	85	0	80	56	22	3	17	1.55
53398339--53398411	24	3.0	24	70	7	67	69	15	4	10	1.31
53398341--53398443	47	2.2	47	82	8	120	66	14	5	13	1.43
53398452--53398520	22	3.3	21	78	9	79	69	15	4	10	1.32
53398440--53398521	44	1.9	41	85	11	112	68	17	4	9	1.35
53398836--53398909	33	2.2	33	83	9	89	28	14	1	55	1.48
53398951--53399002	14	3.5	14	70	14	50	38	7	1	51	1.42
53398934--53399010	31	2.5	31	93	0	136	33	10	1	54	1.43
53409446--53409494	13	3.8	13	100	0	98	14	8	44	32	1.74
53411010--53411078	29	2.3	30	82	2	77	40	2	2	53	1.31
53413003--53413044	18	2.7	15	82	17	50	69	2	11	16	1.29
53413670--53413745	29	2.5	29	82	6	89	51	13	2	32	1.54
53415669--53415710	18	2.7	15	82	17	50	69	2	11	16	1.29
53416327--53416385	29	2.0	30	90	3	93	52	11	3	32	1.54
53416332--53416407	29	2.5	29	82	6	89	51	13	2	32	1.54
53416761--53416786	2	13.0	2	100	0	52	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)
53417116--53417172	19	3.1	17	85	12	60	59	0	5	35	1.20
53418346--53418383	18	2.1	18	85	9	51	52	5	2	39	1.38
53419492--53419702	106	2.0	105	91	4	345	20	10	11	57	1.63
53426497--53426685	52	3.6	51	83	3	225	34	25	13	26	1.93
53433602--53433846	52	4.7	52	76	7	217	34	22	13	29	1.92
53434679--53434728	22	2.3	21	80	10	57	38	16	0	46	1.47
53437732--53437771	3	13.3	3	100	0	80	67	0	0	32	0.91
53440389--53440428	21	2.0	21	90	5	64	22	42	10	25	1.84
53445042--53445071	2	15.0	2	100	0	60	50	0	50	0	1.00
53456515--53456572	9	6.2	9	82	7	53	46	0	3	50	1.18
53465851--53465878	13	2.2	13	100	0	56	50	14	7	28	1.69
53469154--53469207	2	27.0	2	100	0	108	50	0	0	50	1.00
53469795--53469832	20	1.9	20	94	0	67	55	21	13	10	1.67
53469864--53469926	27	2.3	27	83	5	83	20	20	22	36	1.95
53478550--53478594	21	2.1	21	84	8	56	26	8	2	62	1.37
53484064--53484133	29	2.3	31	80	7	81	35	4	10	50	1.56
53484600--53484736	9	14.8	9	69	16	57	61	4	1	32	1.25
53496723--53496818	44	2.2	44	83	9	117	23	7	12	56	1.61
53505491--53505567	24	3.2	25	80	15	90	63	3	0	32	1.12
53505505--53505547	6	7.2	6	79	10	52	65	4	0	30	1.13
53506086--53506119	9	3.7	9	96	4	59	23	0	2	73	0.97
53506366--53506391	5	5.2	5	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53509781--53509833	21	2.5	21	73	17	56	56	3	1	37	1.28
53509776--53509836	20	2.9	21	74	16	63	52	6	1	39	1.37
53516276--53516300	13	1.9	13	100	0	50	36	0	0	64	0.94
53519615--53519647	15	2.3	15	89	5	50	57	3	3	36	1.29
53530720--53530783	24	2.7	23	70	4	56	31	0	1	67	1.00
53533395--53533444	22	2.3	22	100	0	100	44	8	28	20	1.79
53541753--53541819	31	2.2	31	83	0	80	19	11	16	52	1.74
53541733--53541805	31	2.3	31	90	2	119	19	8	19	53	1.69
53543096--53543146	23	2.3	23	80	19	63	43	0	1	54	1.11
53543377--53543430	28	2.0	27	82	17	67	44	12	3	38	1.61
53547716--53547762	10	4.6	10	82	12	60	40	0	2	57	1.11
53547721--53547761	12	3.3	13	83	10	50	39	0	2	58	1.11
53551855--53551940	20	4.1	20	77	10	75	40	1	4	53	1.29
53558188--53558347	58	2.8	56	78	12	164	45	2	1	50	1.23
53558430--53558534	46	2.5	44	82	13	114	37	24	5	32	1.79
53558516--53558587	16	4.5	16	87	0	108	27	27	5	38	1.79
53560214--53560438	59	3.8	59	84	6	285	37	4	27	30	1.78
53560212--53560466	118	2.2	117	84	8	322	37	4	28	29	1.77
53560273--53560429	30	5.3	30	67	13	94	36	4	28	29	1.77
53560212--53560466	59	4.3	58	82	8	268	37	4	28	29	1.77
53560475--53560529	19	3.3	19	63	36	54	29	3	27	40	1.73
53560436--53560787	119	3.0	120	86	4	498	36	2	24	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53560436--53560787	30	11.8	30	89	3	469	36	2	24	36	1.68
53561792--53561852	7	9.3	7	80	10	67	47	3	0	49	1.18
53561792--53561852	13	4.6	14	78	12	67	47	3	0	49	1.18
53562528--53562594	6	11.7	6	81	9	86	53	1	0	44	1.09
53562519--53562573	11	4.9	11	83	16	69	52	1	0	45	1.11
53562528--53562594	11	5.8	12	81	10	86	53	1	0	44	1.09
53562519--53562601	17	4.9	17	89	0	112	54	2	0	43	1.13
53562915--53563056	68	2.0	69	91	4	232	27	20	18	33	1.96
53574925--53575088	58	2.8	57	80	9	188	34	5	29	30	1.80
53574960--53575052	30	3.3	27	73	8	87	38	5	27	27	1.78

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