genome.fa.s10.2.7.7.80.10.50.1000.190.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  190  of  202  ( 24201 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)
58022848--58022906	24	2.4	23	77	22	59	35	1	3	59	1.24
58025154--58025197	19	2.2	20	84	8	54	31	2	0	65	1.05
58026205--58026249	23	2.0	23	86	8	65	22	2	4	71	1.15
58026232--58026256	13	1.9	13	100	0	50	32	0	0	68	0.90
58026458--58026526	29	2.4	29	87	0	93	50	26	13	10	1.72
58030583--58030689	30	3.6	30	94	0	187	24	23	26	26	2.00
58036251--58036281	14	2.3	14	94	5	55	45	3	0	51	1.17
58036395--58036426	15	2.2	15	94	5	57	65	0	0	34	0.93
58036432--58036495	30	2.3	24	69	30	56	56	0	0	43	0.99
58036472--58036510	15	2.4	15	87	12	51	61	0	0	38	0.96
58036468--58036550	39	2.1	39	84	4	103	60	2	0	37	1.10
58036609--58036701	22	4.5	20	74	21	61	56	1	0	41	1.06
58036609--58036656	21	2.2	23	82	14	57	58	2	0	39	1.10
58036658--58036711	23	2.3	23	81	6	65	55	1	0	42	1.10
58036658--58036749	46	2.0	47	82	6	116	54	4	1	40	1.27
58036808--58036866	17	3.5	16	79	6	55	72	3	15	8	1.21
58039669--58039713	3	15.3	3	86	4	65	60	0	0	40	0.97
58039672--58039720	12	4.2	12	84	5	55	57	2	0	40	1.10
58042821--58043865	45	22.7	45	72	12	538	30	19	16	33	1.94
58042892--58043172	96	2.9	96	87	1	377	29	20	17	32	1.95
58043010--58043313	141	2.2	141	89	0	464	30	19	17	33	1.94
58043091--58043674	96	6.4	96	79	8	513	30	20	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58042909--58043361	237	1.9	236	88	0	672	30	19	16	33	1.95
58043329--58043392	31	2.1	31	90	0	101	31	18	20	29	1.96
58043329--58043410	31	2.7	31	84	5	87	30	18	18	32	1.95
58043278--58043443	82	2.0	82	92	0	278	31	18	17	31	1.94
58043360--58043584	95	2.4	96	86	2	301	31	20	16	32	1.94
58043926--58044051	51	2.5	51	88	0	180	30	18	16	34	1.93
58043832--58044189	196	1.8	196	90	0	572	29	19	17	32	1.95
58044071--58044308	119	2.0	119	90	1	370	27	23	17	32	1.96
58044242--58044357	51	2.3	51	80	4	128	28	19	19	31	1.97
58050914--58050951	12	3.2	12	85	10	51	55	2	0	42	1.14
58060754--58060796	22	2.0	22	100	0	86	23	25	13	37	1.92
58064680--58064734	25	2.3	24	79	11	60	54	7	1	36	1.39
58068944--58068996	25	2.1	25	82	6	63	45	32	7	15	1.74
58074480--58074698	50	4.3	50	92	1	357	28	24	14	32	1.94
58074480--58074698	101	2.2	101	95	0	393	28	24	14	32	1.94
58074674--58074717	7	6.3	7	91	0	61	25	29	6	38	1.81
58074685--58074800	51	2.3	51	89	0	178	29	21	12	36	1.91
58074620--58074763	65	2.2	65	88	0	216	28	25	11	35	1.90
58080335--58080384	21	2.4	21	86	0	73	42	18	26	14	1.87
58086300--58086347	24	2.0	24	100	0	96	37	25	8	29	1.85
58087699--58088052	166	2.1	165	82	2	415	44	19	11	24	1.84
58090097--58090126	7	4.3	7	95	0	51	53	30	0	16	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58092452--58092505	25	2.2	25	86	3	74	29	1	5	62	1.28
58095860--58096065	108	1.9	105	89	2	313	33	18	18	29	1.95
58096702--58096766	30	2.1	31	85	2	87	56	1	9	32	1.40
58096796--58096831	3	12.0	3	100	0	72	66	0	0	33	0.92
58096875--58096912	17	2.3	16	91	8	67	63	5	0	31	1.17
58100999--58101023	8	3.1	8	100	0	50	76	12	0	12	1.04
58101052--58101098	17	2.6	18	83	6	51	78	4	6	10	1.06
58101061--58101100	20	2.0	20	90	4	64	80	2	5	12	0.98
58101119--58101261	3	48.0	3	79	1	135	62	2	3	31	1.23
58103345--58103432	29	3.0	29	84	0	113	21	30	36	11	1.89
58109986--58110034	25	2.0	25	100	0	98	36	24	8	30	1.85
58111383--58111734	166	2.1	163	83	4	440	44	20	11	23	1.84
58113418--58113542	22	5.7	22	89	0	178	32	14	25	27	1.94
58120623--58120979	46	7.5	46	87	7	516	29	20	15	34	1.93
58120562--58120979	144	2.9	144	84	9	604	28	22	14	34	1.93
58120747--58120979	52	4.7	52	81	10	276	29	20	13	36	1.91
58120562--58120979	98	4.4	98	91	4	667	28	22	14	34	1.93
58125850--58125883	12	2.8	12	86	0	50	38	5	35	20	1.77
58138517--58138567	17	3.2	17	70	13	54	35	3	3	56	1.36
58141512--58141608	40	2.4	40	81	6	106	34	7	11	47	1.67
58141539--58141618	40	2.0	42	85	9	112	36	7	11	45	1.68
58141808--58141868	30	2.0	30	100	0	122	42	9	6	40	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58145378--58145413	16	2.2	16	95	0	63	86	0	11	2	0.68
58149599--58149804	108	1.9	107	93	1	358	32	14	20	33	1.92
58154088--58154275	61	3.1	61	67	17	165	43	2	5	47	1.41
58154022--58154310	120	2.4	120	90	2	454	44	1	5	48	1.35
58154089--58154272	59	3.1	59	65	21	139	43	2	5	47	1.42
58154256--58154290	18	2.0	17	88	5	52	45	0	0	54	0.99
58154455--58154545	45	2.0	45	87	2	130	34	28	5	31	1.80
58154524--58154577	16	3.4	16	89	0	81	31	33	0	35	1.58
58158250--58158292	15	2.9	14	90	10	68	86	4	2	6	0.79
58158257--58158298	15	2.8	15	96	0	75	88	4	0	7	0.64
58158259--58158300	21	2.0	20	86	4	57	85	7	0	7	0.73
58158250--58158298	14	3.5	13	84	13	53	85	4	2	8	0.79
58160033--58160118	44	2.0	41	86	8	120	29	20	13	36	1.92
58160058--58160829	45	17.3	44	72	7	493	28	23	17	29	1.97
58160080--58160339	89	2.9	89	79	2	288	28	23	17	29	1.97
58160326--58160829	89	5.7	89	89	0	704	29	24	17	28	1.97
58162066--58162210	52	3.0	48	84	12	181	12	25	17	44	1.84
58162066--58162208	47	2.9	50	83	9	186	12	24	18	44	1.84
58162119--58162219	47	2.1	48	85	5	134	13	26	16	42	1.86
58162119--58162219	48	2.1	48	87	3	141	13	26	16	42	1.86
58167168--58167227	9	6.9	9	79	11	54	73	0	3	23	0.98
58168926--58169458	89	6.0	88	83	5	391	26	23	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58168919--58169486	45	12.7	45	74	3	441	26	23	19	30	1.98
58169026--58169780	89	8.5	89	78	8	694	27	23	18	30	1.98
58169632--58169778	44	3.3	44	78	1	177	29	22	19	28	1.98
58178136--58178187	25	2.1	25	85	7	70	0	30	3	65	1.10
58178176--58178205	15	1.9	16	93	6	53	10	13	10	66	1.44
58178202--58178238	4	9.0	4	88	5	56	29	0	0	70	0.88
58178202--58178241	13	3.2	13	92	3	64	32	0	0	67	0.91
58180766--58180818	21	2.5	21	87	0	70	18	16	26	37	1.93
58181296--58181338	16	2.6	16	85	3	50	9	20	0	69	1.15
58183686--58183770	3	28.0	3	79	11	93	31	3	1	63	1.19
58183948--58183988	2	21.0	2	85	5	57	48	2	0	48	1.14
58185690--58185824	65	2.1	65	88	5	202	37	8	12	41	1.74
58187654--58187686	16	2.0	17	88	5	50	51	0	0	48	1.00
58190616--58190652	17	2.2	17	90	0	56	59	16	10	13	1.61
58197148--58197186	20	2.0	20	85	10	53	61	2	0	35	1.10
58197620--58197658	19	2.0	20	85	5	53	48	0	0	51	1.00
58198690--58198750	27	2.3	27	94	0	104	36	9	9	44	1.71
58201090--58201645	193	2.8	194	89	2	803	34	16	17	31	1.92
58208953--58208989	17	2.2	17	90	0	56	59	16	10	13	1.61
58219666--58219704	19	2.0	20	85	5	53	48	0	0	51	1.00
58219672--58219726	21	2.6	22	80	11	62	52	1	0	45	1.11
58219683--58219726	22	2.0	21	87	12	63	54	2	0	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58220109--58220172	29	2.2	29	83	5	76	29	7	7	54	1.57
58222999--58223025	14	1.9	14	100	0	54	48	7	0	44	1.31
58223187--58223288	3	35.7	3	78	9	115	64	1	1	31	1.15
58225122--58225587	181	2.6	181	93	1	803	24	24	19	31	1.98
58225125--58225614	89	5.4	90	88	3	709	25	24	20	30	1.98
58226875--58226979	48	2.1	48	80	5	111	13	27	14	44	1.82
58226903--58226997	48	2.0	48	89	0	145	11	25	16	46	1.81
58226907--58227008	48	2.1	48	83	0	123	11	26	15	46	1.81
58231637--58231735	37	2.9	33	79	10	103	54	5	8	32	1.51
58231637--58231739	34	3.0	33	76	9	100	54	5	7	32	1.53

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