genome.fa.s13.2.7.7.80.10.50.1000.60.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  60  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)
17825596--17825655	23	2.6	22	79	7	66	76	10	3	10	1.12
17826575--17826608	7	5.0	7	92	7	61	70	0	14	14	1.17
17826575--17826608	13	2.5	14	95	4	61	70	0	14	14	1.17
17828803--17828843	19	2.2	19	86	0	55	26	2	7	63	1.33
17831033--17831065	16	2.0	17	88	5	50	48	0	6	45	1.27
17833548--17833595	2	24.0	2	100	0	96	50	0	0	50	1.00
17836106--17836148	22	2.0	23	86	9	63	62	6	13	16	1.51
17838258--17838284	2	13.5	2	100	0	54	51	0	0	48	1.00
17838452--17838485	10	3.4	10	91	0	59	20	0	0	79	0.73
17838578--17838608	15	2.0	16	93	6	55	25	0	6	67	1.14
17839567--17839591	7	3.6	7	100	0	50	28	0	12	60	1.32
17840243--17840277	18	1.9	18	88	0	52	25	34	8	31	1.86
17840772--17840827	23	2.4	24	81	6	69	42	26	1	28	1.65
17840798--17840856	18	3.3	18	63	13	50	44	32	0	23	1.54
17840794--17841059	29	8.5	33	78	19	284	43	31	0	24	1.54
17840794--17841024	64	3.6	64	91	0	392	44	31	0	23	1.54
17840822--17841059	93	2.6	89	84	9	300	43	32	0	24	1.55
17840953--17841042	23	3.6	24	77	18	87	43	33	0	23	1.54
17841009--17841053	6	7.8	6	80	14	51	37	42	0	20	1.52
17840794--17841059	64	4.2	64	87	4	375	43	31	0	24	1.54
17841057--17841275	56	3.9	56	86	5	327	36	12	5	46	1.63
17841058--17841284	110	2.0	113	94	3	397	35	12	4	47	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17841267--17841291	10	2.5	10	100	0	50	44	8	0	48	1.32
17844404--17844758	126	2.8	126	92	2	597	32	21	15	29	1.95
17846867--17846933	26	2.5	26	78	4	71	29	0	22	47	1.51
17850505--17850633	59	2.2	59	84	0	168	49	9	6	34	1.60
17853116--17853176	29	2.1	29	84	0	77	29	13	19	37	1.90
17855411--17855463	27	2.0	27	92	0	88	47	11	22	18	1.81
17856631--17856731	41	2.5	41	85	4	141	30	14	11	42	1.82
17859535--17859595	28	2.1	29	85	8	81	36	0	31	32	1.58
17871795--17871841	16	2.9	16	90	0	67	42	2	27	27	1.67
17871830--17871922	44	2.1	43	84	13	118	33	4	26	35	1.76
17872060--17872296	118	2.0	118	95	1	431	51	5	0	43	1.29
17872095--17872282	59	3.2	58	73	13	195	50	4	1	43	1.30
17873689--17873792	49	2.1	49	90	0	163	50	11	7	29	1.66
17876138--17876171	15	2.3	15	100	0	68	73	0	0	26	0.83
17878428--17878665	50	4.8	50	78	5	209	28	19	28	23	1.98
17880124--17880269	77	1.9	77	84	0	193	26	16	23	34	1.95
17881108--17881138	5	6.2	5	100	0	62	80	0	19	0	0.71
17881181--17881228	20	2.5	19	83	9	62	70	4	18	6	1.25
17893342--17893437	30	3.2	30	70	16	90	28	11	18	41	1.85
17893346--17893434	31	2.9	30	78	6	99	29	12	19	39	1.88
17897681--17897708	2	14.0	2	100	0	56	50	0	0	50	1.00
17900492--17900563	30	2.4	31	79	13	78	47	11	1	40	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17907216--17907266	7	7.3	7	95	0	93	41	27	0	31	1.56
17909106--17909183	26	3.0	25	80	7	93	44	3	1	50	1.28
17909103--17909221	52	2.3	54	80	14	142	48	3	3	44	1.35
17911541--17911585	23	1.9	24	86	4	65	26	53	2	17	1.56
17911971--17912005	18	2.0	18	88	5	54	14	42	28	14	1.84
17928508--17928759	42	6.0	42	87	1	326	26	23	21	28	1.99
17935120--17935155	15	2.4	15	95	0	63	38	13	27	19	1.90
17940604--17940666	30	2.1	30	85	5	83	31	17	19	31	1.95
17941042--17941075	16	2.2	16	94	5	61	26	5	14	52	1.64
17941313--17941360	22	2.2	23	85	14	66	16	2	6	75	1.11
17942669--17942720	21	2.3	22	83	9	61	69	15	1	13	1.28
17950862--17951046	51	3.7	50	79	5	167	23	17	28	31	1.97
17951051--17951265	42	5.1	41	75	10	211	20	16	25	38	1.93
17951051--17951267	84	2.6	84	91	1	337	20	16	25	38	1.92
17967372--17967424	22	2.4	21	84	12	63	32	20	11	35	1.88
17968446--17968496	25	2.0	26	84	3	68	41	7	5	45	1.57
17968650--17968699	20	2.7	19	80	20	61	52	2	2	44	1.24
17968656--17968703	25	1.9	25	83	8	62	52	2	2	43	1.24
17971281--17971320	19	2.1	19	85	0	53	30	2	7	60	1.38
17972721--17972771	25	2.0	25	88	0	75	50	27	0	21	1.48
17972935--17973000	33	2.0	33	82	8	82	51	6	6	36	1.51
17972947--17973012	33	2.0	33	82	5	80	51	4	9	34	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17985997--17986076	29	2.7	29	81	14	92	35	6	2	56	1.38
17998899--17998965	30	2.2	31	81	5	75	46	8	20	23	1.79
18002252--18002316	30	2.2	30	85	0	85	35	6	26	32	1.81
18002645--18002973	105	3.2	105	92	1	520	19	20	30	30	1.97
18010584--18010918	166	2.0	166	98	0	652	31	22	14	31	1.94
18010913--18010970	22	2.6	22	84	7	73	43	17	3	36	1.66
18010926--18011044	21	5.8	19	87	7	130	39	15	7	36	1.76
18010960--18011043	21	4.1	21	92	6	145	39	14	8	38	1.76
18010942--18011043	40	2.6	40	85	11	149	38	15	7	38	1.77
18011680--18012185	44	11.5	44	75	8	388	30	25	15	28	1.96
18011688--18011999	132	2.4	133	94	0	536	30	25	15	28	1.96
18011715--18012185	220	2.1	220	88	1	685	31	25	15	27	1.95
18011680--18012185	132	3.8	132	86	4	454	30	25	15	28	1.96
18035092--18035145	22	2.5	21	79	8	63	24	1	14	59	1.46
18037294--18037331	19	2.0	19	90	10	60	21	39	0	39	1.53
18043451--18043562	55	2.0	56	84	8	149	18	18	9	52	1.72
18052904--18052952	20	2.4	20	80	19	57	51	0	14	34	1.43
18078457--18078501	23	2.0	23	86	4	65	31	2	15	51	1.56
18080171--18080198	14	2.0	14	100	0	56	35	7	0	57	1.26
18080652--18080689	19	2.0	19	85	10	51	21	42	0	36	1.53
18089179--18089290	55	2.0	56	84	8	149	18	18	9	52	1.72
18097833--18097881	20	2.4	20	80	19	57	51	0	14	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18111568--18111605	19	2.0	19	85	10	51	21	42	0	36	1.53
18115527--18115564	19	2.0	19	85	10	51	21	42	0	36	1.53
18122490--18122520	2	15.5	2	100	0	62	48	0	0	51	1.00
18123864--18123976	56	2.0	56	89	6	176	17	18	8	54	1.68
18129977--18130027	25	2.0	25	100	0	102	11	11	0	76	1.02
18129977--18130017	13	3.2	13	74	19	50	14	12	0	73	1.11
18143345--18143766	129	3.3	129	92	0	691	32	18	19	29	1.96
18143406--18143761	44	8.3	44	68	12	141	33	17	19	29	1.95
18149723--18149772	20	2.4	21	78	21	61	50	4	12	34	1.58
18161997--18162624	317	2.0	317	99	0	1238	35	15	21	26	1.94
18165234--18165268	16	2.1	17	89	5	54	20	11	8	60	1.57
18177771--18178039	137	2.0	138	80	6	305	28	26	20	24	1.99
18200077--18200106	14	2.1	14	93	0	51	40	0	43	16	1.48
18217282--18217418	33	3.8	35	70	17	93	35	28	20	16	1.94
18217252--18217420	75	2.2	76	90	1	259	33	30	17	18	1.94
18221409--18221438	14	2.1	14	93	0	51	40	0	43	16	1.48
18222056--18222093	18	2.1	19	95	5	69	44	0	5	50	1.24
18223786--18223905	41	2.9	40	81	2	114	29	29	17	24	1.97
18234698--18234738	16	2.5	17	81	18	52	60	0	7	31	1.24
18234920--18234945	7	3.7	7	100	0	52	11	0	0	88	0.52
18244785--18244830	22	2.1	22	84	8	58	34	4	2	58	1.30
18251785--18251830	15	2.8	17	83	12	60	21	10	2	65	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18253389--18253447	30	2.0	30	86	6	84	27	16	25	30	1.97
18253939--18253977	18	2.2	18	85	0	51	51	12	5	30	1.62
18261998--18262096	33	2.9	34	84	3	137	42	15	9	33	1.78
18262644--18262716	37	2.0	37	88	0	110	27	32	15	24	1.95
18262718--18262826	49	2.2	49	85	3	139	15	30	23	30	1.96
18286123--18286181	25	2.4	25	83	10	70	83	5	8	3	0.91
18287129--18287162	7	5.0	7	92	7	61	70	0	14	14	1.17
18287133--18287162	13	2.3	13	100	0	60	73	0	13	13	1.10
18288403--18288836	88	4.9	88	87	2	604	27	24	23	25	2.00
18288403--18288818	175	2.4	176	87	2	586	26	24	22	25	2.00

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