genome.fa.s13.2.7.7.80.10.50.1000.128.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   194   195   196   197   198   199   

This is table  128  of  199  ( 23770 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)
38759769--38759829	25	2.4	25	86	0	77	39	18	21	21	1.93
38765820--38765977	41	3.9	41	82	3	183	19	18	27	34	1.95
38765820--38765977	82	1.9	82	84	2	210	19	18	27	34	1.95
38766971--38767022	24	2.2	24	100	0	104	17	28	11	42	1.84
38768812--38769006	100	2.0	98	92	3	327	21	13	10	53	1.70
38769867--38769915	20	2.5	19	87	12	73	59	2	4	34	1.28
38774553--38774593	21	1.9	22	85	5	57	48	2	2	46	1.28
38776912--38776962	27	2.0	25	84	7	66	52	5	3	37	1.44
38788382--38788423	18	2.3	19	83	4	50	19	9	4	66	1.38
38788390--38788428	19	2.1	19	85	9	53	17	7	7	66	1.40
38788697--38788739	2	21.5	2	100	0	86	48	0	0	51	1.00
38788762--38788799	15	2.4	17	82	13	53	34	7	0	57	1.28
38795953--38795986	7	4.9	7	100	0	68	26	0	29	44	1.55
38798589--38798622	10	3.5	10	88	4	52	11	38	8	41	1.73
38808286--38808321	17	2.1	18	89	5	56	44	0	0	55	0.99
38808306--38808375	10	6.8	10	70	12	52	40	2	1	55	1.23
38810025--38810055	13	2.5	13	94	5	55	3	35	0	61	1.12
38812250--38812407	34	4.6	34	76	4	147	27	12	16	43	1.83
38817697--38817789	25	3.7	25	77	11	93	23	18	25	32	1.97
38819433--38819564	60	2.2	60	84	2	167	25	15	17	40	1.89
38837645--38837669	13	1.9	13	100	0	50	40	44	0	16	1.47
38837656--38837728	19	3.5	19	70	20	65	41	36	1	20	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38839124--38839351	115	2.0	114	80	7	257	35	25	10	28	1.88
38839508--38839544	9	4.1	9	89	0	56	45	10	10	32	1.74
38840527--38840553	5	5.4	5	100	0	54	22	18	18	40	1.91
38844833--38844867	18	2.0	17	88	5	52	45	0	0	54	0.99
38845118--38845153	16	2.2	16	100	0	72	38	36	0	25	1.56
38847113--38847152	2	20.0	2	100	0	80	0	50	0	50	1.00
38850678--38850705	9	3.1	9	100	0	56	46	10	10	32	1.73
38852056--38852110	13	4.6	12	75	22	53	16	1	3	78	0.98
38852056--38852110	6	9.2	6	77	18	53	16	1	3	78	0.98
38857326--38857372	12	3.9	12	78	15	53	78	0	17	4	0.90
38857324--38857372	17	2.9	17	84	6	55	79	0	16	4	0.88
38858302--38858660	89	4.0	89	79	1	337	30	23	21	24	1.99
38858333--38859290	222	4.3	223	78	4	970	29	24	22	23	1.99
38858554--38859292	355	2.1	356	88	1	1115	29	24	22	23	1.99
38858373--38859237	133	6.5	132	78	4	835	29	24	21	23	1.99
38858460--38859292	89	9.4	89	86	1	1053	29	24	22	23	1.99
38859610--38859731	45	2.6	46	85	5	165	29	19	22	27	1.98
38859610--38859830	94	2.4	93	79	7	225	31	19	20	28	1.97
38859861--38860012	44	3.5	44	81	5	139	30	19	20	28	1.97
38872418--38872473	29	2.0	27	83	13	69	30	12	12	44	1.79
38873942--38873975	13	2.5	13	90	4	50	29	0	5	64	1.17
38876056--38876099	22	2.0	22	100	0	88	31	13	4	50	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38877354--38877567	47	4.5	47	78	8	227	25	22	17	33	1.96
38877357--38877567	94	2.2	95	84	4	257	25	22	18	33	1.96
38879567--38879763	51	3.9	50	77	5	209	29	28	16	24	1.97
38879576--38879759	100	1.8	101	85	4	264	30	27	16	24	1.97
38884991--38885255	134	2.0	129	91	3	422	35	9	12	42	1.74
38889444--38889525	20	4.1	19	70	14	67	10	26	19	42	1.84
38889407--38889594	60	3.2	59	85	3	243	12	28	19	39	1.88
38889550--38889602	20	2.7	20	80	13	74	9	30	18	41	1.82
38895663--38895825	28	5.8	28	84	0	200	30	18	19	31	1.95
38895663--38895811	14	10.6	14	68	0	91	29	20	18	31	1.96
38895664--38895825	84	1.9	84	89	0	252	30	18	18	32	1.95
38898390--38898438	12	4.4	11	80	12	55	30	6	2	61	1.32
38898881--38898914	17	1.9	18	94	5	61	17	5	20	55	1.62
38905557--38905898	9	37.4	9	70	13	157	33	2	19	45	1.64
38905520--38905880	56	6.3	57	75	8	259	33	2	18	45	1.64
38905518--38905714	65	3.1	63	83	7	215	33	1	19	45	1.57
38906226--38906301	23	3.3	23	92	0	134	30	26	21	22	1.99
38908840--38908864	11	2.3	11	100	0	50	56	16	0	28	1.41
38909295--38909339	21	2.1	21	87	0	63	48	11	28	11	1.73
38910324--38910419	28	3.3	29	84	4	106	45	35	0	18	1.50
38910330--38910424	43	2.2	43	83	9	113	45	36	0	17	1.49
38910324--38910419	29	3.4	28	80	9	97	45	35	0	18	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38910324--38910680	7	50.1	7	70	12	93	43	33	1	20	1.62
38910507--38910675	43	4.1	42	68	15	129	44	33	1	20	1.59
38910678--38910896	118	1.9	116	81	5	271	27	18	20	33	1.96
38910844--38910935	40	2.3	40	83	5	107	18	17	26	38	1.93
38913844--38914042	43	4.7	42	83	2	238	30	14	25	30	1.95
38913837--38914044	85	2.5	82	79	8	220	30	13	25	30	1.94
38918685--38918722	20	2.0	20	94	5	69	52	0	0	47	1.00
38920098--38920150	22	2.3	23	80	3	63	58	0	7	33	1.26
38921455--38921493	18	2.2	18	86	4	53	30	25	25	17	1.97
38926336--38926397	30	2.1	30	100	0	124	19	6	27	46	1.74
38929457--38929495	19	2.1	19	100	0	78	46	10	10	33	1.72
38932841--38932948	19	5.3	21	69	23	79	62	0	2	34	1.09
38932835--38932898	11	6.1	10	75	13	58	54	0	1	43	1.09
38949973--38950043	30	2.4	30	100	0	142	38	12	9	39	1.77
38952130--38952159	8	3.8	8	90	0	51	73	0	3	23	0.98
38954959--38955020	10	5.9	10	74	10	52	33	32	3	30	1.74
38954959--38955021	21	3.0	21	88	2	90	33	33	3	30	1.74
38955026--38955054	10	2.9	10	100	0	58	51	31	6	10	1.62
38956753--38956842	36	2.4	38	85	3	121	16	15	38	28	1.90
38958757--38958795	10	3.7	11	86	10	55	30	12	25	30	1.93
38958757--38958795	21	1.9	20	89	5	60	30	12	25	30	1.93
38960525--38960558	18	1.9	18	88	5	52	23	20	0	55	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38960572--38960647	30	2.5	30	72	4	82	7	21	2	68	1.28
38960614--38960660	16	2.8	17	75	18	53	6	19	0	74	1.03
38960627--38960670	21	2.1	21	88	12	65	4	20	0	75	0.98
38961608--38961656	3	16.7	3	95	4	91	67	0	0	32	0.91
38961691--38961717	10	2.7	10	100	0	54	14	0	7	77	0.97
38961709--38961744	18	2.1	18	89	5	56	33	8	0	58	1.28
38964541--38964582	22	2.0	21	85	4	57	30	2	11	54	1.49
38965982--38966023	17	2.4	18	81	18	54	61	2	7	28	1.35
38967423--38967457	12	2.8	12	91	4	52	68	0	20	11	1.20
38967448--38967487	15	2.7	15	88	0	62	80	0	20	0	0.72
38967530--38967569	21	1.9	21	84	0	53	42	5	32	20	1.73
38977110--38977151	22	2.0	21	90	4	66	28	0	14	57	1.38
38983110--38983184	37	2.0	37	100	0	150	46	18	5	29	1.71
38987538--38987606	36	1.9	36	85	5	95	59	5	7	27	1.47
39004949--39005002	24	2.2	24	80	12	56	31	1	18	48	1.59
39004954--39005138	93	2.0	93	97	0	352	32	8	18	39	1.82
39006431--39006488	25	2.3	25	85	5	73	22	25	34	17	1.96
39009806--39009886	6	12.7	6	75	17	65	80	6	3	9	1.01
39011506--39011571	28	2.4	28	82	14	84	72	0	7	19	1.08
39011527--39011597	16	4.4	15	79	15	72	70	0	5	23	1.08
39011506--39011597	46	1.9	46	81	14	107	71	0	6	21	1.08
39013431--39013469	17	2.3	17	100	0	78	30	25	12	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39019741--39019799	28	2.1	28	100	0	118	28	25	20	25	1.99
39023091--39023146	29	1.9	29	85	0	76	32	17	7	42	1.77
39031043--39031076	16	2.1	16	88	0	50	41	20	5	32	1.76
39031709--39031785	40	1.9	39	82	10	93	32	22	20	24	1.98
39033423--39033456	16	2.1	16	88	0	50	41	20	5	32	1.76
39063061--39063310	27	9.3	27	88	1	360	44	23	15	16	1.86
39063061--39063310	80	3.1	80	87	4	378	44	23	15	16	1.86
39063056--39063310	107	2.4	107	88	2	379	44	23	15	16	1.86
39065318--39065395	40	2.0	40	84	5	104	35	11	16	35	1.85
39066846--39066877	11	2.8	11	95	4	55	46	9	0	43	1.35

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   194   195   196   197   198   199