genome.fa.s13.2.7.7.80.10.50.1000.59.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  59  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)
17477351--17477492	76	1.9	76	86	5	207	51	12	5	30	1.63
17477727--17477767	13	3.3	13	76	13	50	2	34	0	63	1.08
17477736--17477783	21	2.3	20	85	3	60	2	29	0	68	1.01
17477799--17477874	9	8.0	9	71	16	55	0	38	0	61	0.96
17477797--17477873	20	3.9	20	73	17	63	0	37	0	62	0.96
17485166--17485198	16	2.1	16	100	0	66	45	6	6	42	1.53
17485382--17485427	16	2.9	16	81	12	51	60	2	0	36	1.09
17485382--17485414	17	2.0	17	88	5	50	60	0	0	39	0.97
17494826--17494865	14	2.7	15	92	7	64	47	2	20	30	1.63
17495254--17495305	20	2.5	21	81	6	61	57	1	1	38	1.21
17495380--17495410	2	15.5	2	93	0	53	48	0	0	51	1.00
17495665--17495696	14	2.1	16	88	11	50	40	0	12	46	1.42
17496814--17496865	9	5.6	9	82	8	50	76	1	0	21	0.87
17496807--17496865	10	6.2	10	84	7	61	76	1	0	22	0.88
17499320--17499729	141	3.0	135	82	6	502	41	22	17	18	1.90
17499317--17499732	135	3.0	135	81	7	507	41	22	17	18	1.90
17502828--17502852	1	25.0	1	100	0	50	100	0	0	0	0.00
17505762--17505789	2	14.0	2	100	0	56	50	0	0	50	1.00
17516110--17516137	12	2.3	12	100	0	56	60	0	10	28	1.30
17517530--17517588	21	2.8	21	75	10	57	27	20	25	27	1.99
17519433--17519469	2	18.5	2	100	0	74	48	0	0	51	1.00
17520753--17520918	45	3.7	45	77	14	157	38	15	19	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17520794--17520865	24	3.1	24	63	25	64	40	20	19	19	1.92
17521101--17521175	39	1.9	39	86	0	105	36	17	17	29	1.93
17522041--17522083	14	3.1	13	81	15	50	67	0	27	4	1.10
17526030--17526097	27	2.5	28	82	4	84	23	29	17	29	1.97
17526051--17526106	27	2.1	27	86	6	78	28	21	17	32	1.96
17532904--17532965	30	2.1	29	93	3	106	24	3	14	58	1.51
17538304--17538366	26	2.4	26	72	0	63	26	20	19	33	1.96
17546949--17546995	18	2.7	18	80	6	53	68	2	25	4	1.19
17558846--17558889	15	2.9	15	80	16	54	70	0	13	15	1.17
17571418--17571459	19	2.3	19	83	4	59	59	2	0	38	1.10
17571407--17571471	29	2.2	30	80	2	78	63	3	0	33	1.10
17571416--17571482	20	3.4	21	73	6	61	64	1	0	34	1.03
17591422--17591470	19	2.5	19	83	3	53	46	0	28	24	1.53
17600491--17600524	15	2.4	14	90	5	50	23	0	32	44	1.54
17600534--17600572	14	2.7	15	92	7	64	15	0	46	38	1.46
17600491--17600716	57	3.9	57	75	9	192	21	0	33	45	1.52
17600564--17600602	14	2.8	14	80	0	51	23	0	20	56	1.42
17600586--17600644	22	2.7	22	74	10	59	25	0	33	40	1.56
17603733--17603797	28	2.3	27	80	12	78	32	4	13	49	1.63
17603711--17603859	66	2.3	66	91	0	235	34	2	11	51	1.52
17604220--17604477	9	27.9	9	71	13	125	46	16	1	35	1.54
17604406--17604473	34	2.0	34	82	5	84	48	19	0	32	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17610263--17610344	43	1.9	43	82	9	105	31	14	23	30	1.94
17610306--17610546	86	2.8	86	89	0	347	26	16	25	31	1.96
17610280--17610535	43	5.9	43	84	3	309	27	16	25	31	1.96
17616076--17616115	21	1.9	21	85	10	55	40	25	2	32	1.69
17628244--17628286	22	2.0	21	82	13	52	37	2	6	53	1.41
17630327--17630352	8	3.2	8	100	0	52	11	11	0	76	1.01
17630723--17630823	27	3.7	27	87	0	139	31	25	13	28	1.94
17646735--17646880	45	3.2	44	79	9	143	34	26	14	23	1.94
17646764--17646939	90	2.0	90	81	2	210	35	26	13	25	1.92
17651230--17651318	41	2.2	41	86	6	119	20	29	15	34	1.93
17651250--17651318	21	3.3	21	70	11	61	21	28	15	33	1.95
17652249--17652307	29	2.0	29	86	0	82	16	18	25	38	1.92
17657730--17657768	20	2.0	19	85	14	53	56	0	10	33	1.33
17658520--17658644	40	3.1	39	76	10	117	21	28	12	36	1.91
17658589--17658644	20	2.7	21	72	5	60	19	26	16	37	1.92
17671720--17671871	76	2.0	76	98	0	295	26	7	34	32	1.84
17675367--17675420	16	2.9	19	74	20	60	38	0	37	24	1.56
17677301--17677351	23	2.2	23	100	0	102	29	7	31	31	1.86
17679121--17679178	30	1.9	30	96	0	107	31	18	18	31	1.96
17683219--17683259	18	2.3	18	95	0	73	29	34	4	31	1.79
17688073--17688134	33	1.9	32	86	3	88	53	4	0	41	1.22
17688344--17688396	21	2.5	22	84	6	74	30	35	5	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17691996--17692022	13	2.1	13	100	0	54	37	0	7	55	1.28
17693497--17693538	18	2.4	17	88	11	59	35	2	14	47	1.57
17698925--17698960	14	2.6	14	86	0	54	38	5	16	38	1.72
17699704--17699767	22	2.8	22	77	13	67	15	3	34	46	1.62
17699813--17699864	27	1.9	27	84	7	70	44	3	11	40	1.59
17699831--17699938	34	3.2	34	88	5	166	40	0	14	43	1.52
17700054--17700438	126	3.1	126	87	1	531	38	15	17	28	1.90
17704520--17704567	25	2.0	25	87	4	71	14	27	20	37	1.92
17704625--17704699	26	2.9	25	80	7	87	20	22	20	37	1.94
17709927--17709983	29	2.0	29	82	0	69	42	15	14	28	1.86
17716031--17716056	13	2.0	13	100	0	52	15	30	7	46	1.74
17715726--17716378	328	2.0	328	92	0	1083	27	24	12	35	1.92
17734551--17734671	40	3.1	40	62	13	90	32	24	19	23	1.98
17734505--17734719	76	2.8	76	83	0	250	31	22	22	23	1.98
17734732--17734769	15	2.4	16	82	4	51	39	15	0	44	1.47
17734830--17734869	2	20.0	2	94	0	71	50	2	0	47	1.14
17739388--17739507	57	2.1	58	85	1	161	26	17	5	50	1.69
17744969--17745020	17	2.9	18	77	13	54	25	5	1	67	1.23
17751804--17752063	133	2.0	133	93	1	450	36	21	10	30	1.88
17771041--17771085	3	15.3	3	86	4	65	68	4	0	26	1.08
17772550--17772579	14	2.1	14	93	0	51	40	13	10	36	1.78
17776542--17776616	39	1.9	39	89	5	116	25	2	26	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17778787--17778897	42	2.7	41	78	4	123	15	36	26	22	1.94
17780682--17780965	146	1.9	146	95	0	514	29	12	17	39	1.87
17783002--17783186	101	1.8	102	89	3	293	24	17	26	30	1.97
17783002--17783186	51	3.7	50	77	7	169	24	17	26	30	1.97
17783002--17783194	102	1.9	101	88	3	289	24	18	26	30	1.98
17783412--17783443	16	2.0	16	93	0	55	59	0	15	25	1.36
17788871--17788910	21	2.0	21	85	5	55	17	5	2	75	1.10
17797768--17797863	19	4.7	21	79	10	74	40	15	6	37	1.73
17797768--17797825	22	2.6	22	81	7	64	41	17	5	36	1.72
17797804--17797906	19	5.8	19	78	17	132	36	14	8	39	1.77
17797833--17797894	30	2.1	30	96	0	115	37	14	6	41	1.72
17798234--17799130	132	6.8	132	93	0	1467	28	24	18	28	1.98
17798349--17799057	44	16.1	44	61	14	102	29	24	18	27	1.98
17800387--17800420	6	5.8	6	93	6	61	0	14	0	85	0.60
17804625--17804682	22	2.6	22	81	7	64	41	15	5	37	1.70
17804683--17804725	19	2.3	19	95	0	77	37	13	9	39	1.78
17808899--17808934	2	18.0	2	100	0	72	50	0	0	50	1.00
17809585--17809609	13	1.9	13	100	0	50	16	0	8	76	1.02
17809650--17809728	36	2.2	35	82	8	88	36	1	2	59	1.19
17809651--17809758	57	1.9	56	85	9	148	38	0	1	58	1.15
17809687--17809750	21	3.0	22	88	6	87	43	0	1	54	1.09
17815367--17815408	18	2.3	18	91	0	66	40	9	0	50	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17815724--17815809	23	3.8	23	72	16	63	54	3	1	40	1.25
17815797--17815845	21	2.3	21	82	0	62	48	0	2	48	1.12
17815938--17816018	21	3.8	21	81	14	85	56	0	2	40	1.12
17816074--17816104	16	1.9	16	93	0	53	80	6	3	9	0.99
17820604--17820644	19	2.2	19	86	0	55	26	2	7	63	1.33
17820677--17820710	9	3.6	9	92	8	50	14	0	2	82	0.79
17825596--17825653	17	3.6	17	69	23	54	75	10	3	10	1.15
17825603--17825640	12	3.2	12	85	3	51	78	10	0	10	0.95
17825598--17825681	30	2.9	29	83	3	105	75	7	5	11	1.19
17825597--17825681	29	2.9	29	85	5	109	74	8	5	11	1.22

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