genome.fa.s5.2.7.7.80.10.50.1000.202.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   200   201   202   203   204   205   206   207   208   

This is table  202  of  208  ( 24913 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)
61417821--61417891	28	2.4	29	76	19	76	43	1	1	53	1.18
61417856--61417896	8	5.0	8	88	5	64	41	0	0	58	0.98
61418295--61418324	15	2.0	15	93	0	51	36	0	13	50	1.42
61421587--61421633	3	15.7	3	95	0	85	29	0	2	68	1.02
61423269--61423329	29	2.3	26	80	20	74	44	8	4	42	1.55
61432244--61432272	15	1.9	15	100	0	58	62	6	6	24	1.45
61446130--61446166	16	2.3	16	90	9	58	27	5	0	67	1.12
61448828--61448901	3	24.3	3	70	8	51	29	6	4	59	1.42
61458793--61458821	14	2.1	14	100	0	58	20	20	24	34	1.97
61475628--61475680	15	3.7	15	75	10	56	60	1	7	30	1.35
61476926--61476972	23	2.1	21	81	14	51	46	2	0	51	1.13
61478687--61478767	31	2.6	30	81	9	92	41	6	11	40	1.65
61481362--61481410	20	2.5	20	83	6	64	57	0	2	40	1.10
61481575--61481605	16	1.9	16	93	0	53	41	6	0	51	1.27
61482065--61482117	24	2.3	23	83	6	70	45	7	18	28	1.77
61482480--61482518	17	2.3	17	83	12	53	46	0	0	53	1.00
61483475--61483532	25	2.3	25	79	5	64	50	5	0	44	1.24
61486335--61486417	35	2.3	35	95	2	148	42	4	0	53	1.22
61490226--61490266	21	2.0	20	85	4	55	4	14	7	73	1.22
61493060--61493098	7	5.3	7	84	9	51	76	0	0	23	0.78
61493060--61493101	14	2.8	15	89	7	59	76	0	0	23	0.79
61493061--61493101	15	2.6	16	81	14	50	78	0	0	21	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61493940--61493983	16	2.8	16	86	10	63	34	0	2	63	1.07
61502550--61502580	2	15.5	2	100	0	62	48	0	0	51	1.00
61505123--61505172	26	1.9	26	83	0	64	18	6	18	58	1.59
61509520--61509551	16	2.0	16	93	0	55	56	3	12	28	1.51
61512998--61513047	25	2.0	24	92	3	82	44	0	0	56	0.99
61518429--61518491	27	2.4	24	76	21	63	49	3	6	41	1.44
61518473--61518517	17	2.4	19	82	14	58	57	0	0	42	0.98
61525269--61525333	31	2.1	31	91	0	103	36	6	16	40	1.74
61529824--61529871	23	2.1	23	84	7	62	31	2	4	62	1.26
61543829--61543863	6	5.8	6	100	0	70	82	0	0	17	0.66
61544492--61545546	212	4.9	214	88	4	1460	34	17	14	33	1.91
61546066--61546187	59	2.1	59	93	0	208	41	9	9	39	1.70
61547984--61548009	3	8.7	3	100	0	52	65	0	0	34	0.93
61548433--61548479	2	23.5	2	100	0	94	51	0	0	48	1.00
61550572--61550763	93	2.1	91	87	3	280	42	13	15	29	1.84
61554688--61554724	18	2.1	17	90	5	56	56	0	0	43	0.99
61565119--61565178	7	9.0	7	80	10	56	66	1	1	30	1.11
61566247--61566285	20	2.0	20	89	0	60	20	0	30	48	1.50
61568510--61568642	30	4.4	30	88	1	160	15	57	6	21	1.60
61568528--61568666	15	9.3	15	74	0	89	15	57	7	19	1.61
61568528--61568666	45	3.1	45	75	0	116	15	57	7	19	1.61
61568632--61568690	30	2.0	30	82	0	73	22	55	10	11	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61576837--61576875	21	1.9	21	89	5	62	53	17	0	28	1.44
61580538--61580563	13	2.0	13	100	0	52	61	0	7	30	1.24
61580664--61580848	86	2.2	85	85	1	244	27	29	18	23	1.98
61580664--61580868	43	4.8	42	75	6	178	29	29	18	22	1.97
61588568--61589165	113	5.3	113	89	2	871	30	24	22	22	1.99
61588568--61589165	227	2.6	225	89	3	896	30	24	22	22	1.99
61589134--61589268	40	3.4	39	76	9	132	22	20	20	36	1.95
61590213--61590237	9	2.8	9	100	0	50	64	12	12	12	1.51
61592276--61592300	8	3.1	8	100	0	50	48	0	0	52	1.00
61592562--61592636	30	2.5	30	82	8	91	64	1	6	28	1.27
61603952--61604037	30	2.8	31	79	11	97	38	2	16	43	1.61
61607534--61607568	12	2.9	12	86	0	52	42	48	8	0	1.33
61609851--61609904	16	3.5	15	79	18	58	31	1	0	66	1.02
61614962--61614987	12	2.2	12	100	0	52	57	15	7	19	1.62
61618456--61618484	3	9.7	3	100	0	58	68	0	31	0	0.89
61619316--61619505	9	21.0	9	70	19	103	30	6	0	63	1.19
61619316--61619440	37	3.4	36	75	19	100	31	7	0	61	1.23
61619354--61619449	28	3.5	26	78	16	88	29	8	0	62	1.24
61619376--61619471	37	2.6	36	80	6	93	31	5	0	63	1.16
61619320--61619450	17	7.2	18	71	16	85	29	7	0	63	1.22
61632968--61633007	21	1.9	21	85	10	55	47	5	0	47	1.24
61633442--61633475	16	2.1	16	89	10	52	50	0	47	2	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61643139--61643170	6	5.3	6	100	0	64	50	0	15	34	1.45
61644051--61644098	21	2.4	19	86	6	60	64	4	0	31	1.12
61645942--61645979	17	2.3	17	86	4	51	60	0	0	39	0.97
61656136--61656178	15	2.8	16	78	7	52	44	0	2	53	1.13
61656140--61656188	24	2.0	24	88	0	71	48	0	2	48	1.12
61656162--61656198	19	2.0	19	94	5	67	40	0	5	54	1.24
61656165--61656224	18	3.2	19	80	15	63	45	0	3	51	1.17
61656167--61656238	19	3.7	20	82	12	64	37	0	4	58	1.18
61660346--61660390	21	2.1	21	87	0	63	57	6	6	28	1.50
61667659--61667693	2	17.5	2	100	0	70	48	0	0	51	1.00
61668470--61668514	2	22.5	2	100	0	90	48	0	0	51	1.00
61670350--61670396	20	2.4	19	82	6	67	34	0	4	61	1.15
61677391--61677502	9	12.2	9	69	17	54	33	4	0	61	1.22
61677414--61677461	25	1.9	25	83	8	62	25	6	2	66	1.26
61677460--61677510	18	2.7	18	77	17	50	35	5	0	58	1.22
61680516--61680590	31	2.4	32	86	6	100	46	12	13	28	1.78
61681395--61681447	25	2.2	23	83	16	63	56	5	0	37	1.23
61686238--61686308	21	3.3	21	80	5	63	66	1	7	25	1.25
61686495--61686541	18	2.5	20	77	19	55	29	2	4	63	1.25
61687124--61687413	109	2.6	110	90	4	442	32	21	15	30	1.95
61687761--61687786	2	13.0	2	100	0	52	50	0	0	50	1.00
61689135--61689165	15	2.1	15	93	0	53	38	0	6	54	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61689236--61689268	15	2.2	15	89	10	50	27	9	0	63	1.24
61689265--61689306	17	2.3	18	88	8	59	23	0	2	73	0.94
61689281--61689327	23	2.1	23	84	7	62	21	2	4	72	1.12
61691790--61691845	27	2.0	28	93	3	96	58	0	1	39	1.08
61695070--61695179	29	3.7	30	75	3	98	30	22	4	41	1.74
61695053--61695180	30	4.3	30	72	8	91	32	20	4	42	1.72
61695743--61695776	13	2.6	13	90	9	52	76	0	23	0	0.79
61695744--61695789	22	2.1	22	87	0	65	71	0	28	0	0.86
61695874--61695937	23	3.0	21	79	20	78	78	0	21	0	0.76
61695866--61695927	12	5.0	12	76	7	61	72	0	27	0	0.85
61695870--61695934	32	2.1	31	86	13	89	76	0	23	0	0.78
61695883--61695937	25	2.4	23	82	14	69	78	0	21	0	0.76
61695870--61695937	13	5.7	12	80	10	68	77	0	22	0	0.76
61696099--61696146	19	2.5	19	79	0	51	27	43	20	8	1.80
61696702--61696779	17	4.4	17	73	12	75	38	11	11	38	1.78
61696719--61696897	19	9.1	20	65	22	69	35	11	10	41	1.76
61696709--61696778	17	3.9	17	75	14	77	31	12	12	42	1.81
61703757--61703848	24	3.9	23	88	8	132	88	11	0	0	0.53
61703759--61703840	8	9.9	8	89	10	121	87	12	0	0	0.53
61703757--61703860	1	104.0	1	75	0	91	87	10	0	0	0.64
61704753--61706078	80	16.5	81	84	8	1546	27	17	20	34	1.95
61706255--61706288	10	3.8	9	92	7	52	82	5	0	11	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61706254--61706287	9	3.6	10	88	11	54	85	5	0	8	0.75
61706284--61706410	30	4.3	30	72	9	109	33	21	4	40	1.74
61706971--61707004	13	2.6	13	90	9	52	76	0	23	0	0.79
61706972--61707017	22	2.1	22	87	0	65	71	0	28	0	0.86
61707102--61707165	23	3.0	21	79	20	78	78	0	21	0	0.76
61707098--61707162	32	2.1	31	86	13	89	76	0	23	0	0.78
61707111--61707166	25	2.4	23	81	16	71	78	0	21	0	0.75
61707104--61707166	13	5.1	13	79	11	62	79	0	20	0	0.73
61707098--61707166	6	11.2	6	76	15	61	78	0	21	0	0.76
61707107--61707166	11	5.4	11	73	11	50	80	0	20	0	0.72

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   200   201   202   203   204   205   206   207   208