genome.fa.s11.2.7.7.80.10.50.1000.131.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  131  of  210  ( 25152 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)
39842742--39842872	27	4.9	27	83	5	167	23	15	19	41	1.90
39842742--39842872	53	2.4	54	84	3	176	23	15	19	41	1.90
39844371--39844424	25	2.2	25	82	0	63	16	42	12	27	1.85
39846367--39846646	114	2.5	113	85	2	373	35	16	16	32	1.91
39850016--39850043	2	14.0	2	100	0	56	50	0	0	50	1.00
39850068--39850153	44	2.0	41	82	13	102	52	4	9	33	1.54
39850131--39850193	30	2.0	31	84	9	83	46	4	7	41	1.54
39851706--39851821	44	2.7	44	86	1	162	31	25	14	28	1.95
39851954--39852148	45	4.1	48	65	18	113	30	19	17	32	1.95
39851933--39852247	139	2.3	138	90	0	486	29	20	18	31	1.96
39852173--39852517	44	7.8	44	76	3	282	29	23	17	30	1.97
39852179--39852513	133	2.5	131	80	3	348	29	23	17	30	1.97
39852642--39852757	45	2.7	44	80	6	112	27	24	18	29	1.98
39852683--39852974	103	2.8	102	79	5	311	31	23	16	28	1.96
39852934--39853454	44	11.6	44	70	14	253	29	22	18	30	1.97
39853377--39853486	45	2.4	45	80	3	105	30	25	12	30	1.93
39853961--39854018	24	2.4	24	82	5	73	31	20	12	36	1.89
39855074--39855117	7	5.7	7	80	19	52	0	18	0	81	0.68
39855069--39855117	16	3.1	16	96	0	89	0	22	0	77	0.77
39855093--39855226	68	2.1	67	81	13	165	8	23	13	54	1.67
39855781--39855821	21	1.9	21	85	5	55	41	7	4	46	1.53
39856726--39856788	30	2.0	31	84	9	83	46	4	7	41	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39858934--39858985	21	2.6	20	93	6	88	36	11	15	36	1.84
39859552--39859589	13	2.8	14	80	19	53	65	5	5	23	1.34
39859612--39859669	31	1.9	31	85	3	82	34	5	3	56	1.38
39860533--39860565	12	2.8	12	95	0	57	9	21	36	33	1.85
39860652--39860961	114	2.7	115	84	5	400	25	23	25	25	2.00
39860757--39861146	185	2.1	186	87	2	568	26	24	22	26	2.00
39860940--39861523	115	5.1	114	85	4	698	25	22	23	28	1.99
39862126--39862206	24	3.2	24	78	13	99	44	0	9	45	1.37
39862123--39862206	28	3.1	28	70	13	86	46	0	9	44	1.36
39862256--39862961	365	1.9	365	92	0	1171	30	14	19	35	1.91
39863633--39863670	18	2.1	18	95	0	67	23	10	15	50	1.75
39864715--39864758	23	1.9	23	95	0	79	43	18	0	38	1.50
39864866--39865202	9	38.8	9	73	14	271	45	21	1	31	1.59
39864855--39865171	70	4.7	68	70	21	172	47	21	0	30	1.57
39864877--39865151	88	3.1	88	89	4	371	45	21	1	31	1.59
39865109--39865202	25	3.7	25	82	1	107	43	21	2	32	1.64
39864866--39865197	34	9.6	34	74	14	197	46	21	1	31	1.59
39867744--39867817	21	3.5	21	86	0	103	32	17	44	5	1.71
39867744--39867829	21	4.1	21	86	0	100	32	17	45	4	1.69
39868238--39868397	43	3.8	42	87	6	216	27	20	20	31	1.97
39869612--39869648	13	2.7	14	80	19	51	62	8	16	13	1.54
39883996--39884055	24	2.5	24	73	10	59	50	26	8	15	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39886099--39886154	19	2.9	19	76	10	60	39	21	17	21	1.93
39893887--39893911	13	1.9	13	100	0	50	36	24	16	24	1.94
39895462--39895487	12	2.2	12	100	0	52	0	42	0	57	0.98
39896162--39896384	27	8.3	27	87	3	306	43	19	19	17	1.88
39898542--39898594	13	4.1	13	85	0	79	35	28	7	28	1.84
39903885--39904320	40	10.9	40	80	1	442	14	14	26	43	1.85
39904931--39905029	30	3.3	30	84	10	132	22	25	8	44	1.80
39906017--39906076	10	5.9	10	76	16	52	76	0	21	1	0.87
39906021--39906083	21	2.9	22	77	17	69	76	0	20	3	0.93
39906017--39906071	17	3.2	17	80	14	60	78	0	20	1	0.85
39906024--39906080	11	5.2	11	77	14	55	77	0	21	1	0.86
39906017--39906070	27	2.0	27	82	7	65	79	0	18	1	0.82
39906138--39906235	28	3.2	31	70	15	87	37	38	16	7	1.76
39917810--39917963	76	2.1	74	80	4	175	27	14	20	36	1.93
39926733--39926784	23	2.3	23	93	0	86	32	25	21	21	1.98
39933245--39933289	10	4.3	10	81	10	54	55	13	0	31	1.38
39942963--39942987	13	1.9	13	100	0	50	36	0	16	48	1.46
39943382--39943431	11	4.6	11	80	14	59	12	4	48	36	1.59
39943382--39943431	22	2.3	21	86	10	66	12	4	48	36	1.59
39943382--39943440	22	2.7	22	82	12	61	15	3	47	33	1.62
39958757--39958815	31	1.9	31	85	0	82	42	11	6	38	1.68
39958986--39959012	8	3.4	8	100	0	54	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39960172--39960255	44	1.9	44	87	4	125	38	8	4	48	1.54
39965915--39966011	27	3.7	26	78	10	90	19	15	6	58	1.58
39966268--39966344	34	2.3	34	82	8	86	27	11	18	42	1.84
39966346--39966417	35	2.1	35	91	0	117	36	11	13	38	1.81
39966589--39966646	18	3.0	18	79	16	71	25	18	24	31	1.98
39967606--39967635	6	5.2	6	96	4	53	46	0	0	53	1.00
39968062--39968109	24	2.0	23	84	4	60	35	2	0	62	1.07
39969574--39969624	23	2.2	24	82	10	61	78	0	15	5	0.93
39978793--39978854	28	2.3	28	77	5	74	17	17	17	46	1.84
39997239--39997281	22	2.0	22	85	0	59	16	23	6	53	1.67
40000415--40000505	27	3.3	27	70	17	87	38	14	3	43	1.61
40000410--40000521	56	2.0	56	96	0	206	37	14	4	43	1.65
40009678--40009721	20	2.2	20	84	8	54	31	27	2	38	1.69
40025570--40025783	107	2.0	106	89	2	331	33	17	17	31	1.94
40026388--40026454	3	22.0	3	80	3	62	55	1	4	38	1.29
40026388--40026453	24	2.7	24	83	6	80	54	1	4	39	1.30
40034917--40034975	24	2.4	26	72	16	63	49	8	13	28	1.71
40037004--40037043	20	2.0	21	85	14	57	50	10	2	37	1.50
40038000--40038040	18	2.3	18	100	0	82	36	21	17	24	1.94
40038299--40038623	27	12.1	27	82	0	382	19	18	21	41	1.91
40040750--40040801	25	2.1	25	89	7	79	19	1	5	73	1.14
40040774--40040799	10	2.6	10	100	0	52	19	0	7	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40041879--40041919	23	1.9	22	85	14	59	39	12	9	39	1.76
40045532--40045594	32	2.0	32	96	3	119	19	6	19	55	1.63
40050401--40050613	101	2.1	101	89	0	327	29	26	15	29	1.96
40050609--40050681	27	2.7	27	93	2	130	30	10	0	58	1.32
40051581--40051606	11	2.4	11	100	0	52	50	15	0	34	1.45
40051986--40052104	59	2.0	59	100	0	238	41	13	8	36	1.75
40058249--40058321	29	2.5	29	97	0	137	47	27	9	15	1.76
40060430--40060482	24	2.2	25	82	3	63	28	20	24	26	1.99
40062904--40062951	25	1.9	25	100	0	96	58	0	8	33	1.28
40064002--40064291	122	2.4	123	86	0	393	23	19	20	37	1.94
40063976--40064284	41	7.6	41	86	0	368	23	18	21	37	1.94
40073823--40073877	29	2.0	27	82	13	67	60	10	14	14	1.60
40075292--40075320	12	2.3	13	94	5	51	20	6	6	65	1.40
40087912--40087962	26	2.0	26	92	0	84	39	23	19	17	1.92
40087954--40088006	27	2.0	27	85	7	72	37	24	18	18	1.94
40088088--40088130	11	3.7	11	76	11	50	51	27	6	13	1.67
40088078--40088154	24	3.2	24	84	0	82	49	24	6	19	1.72
40088115--40088162	24	2.0	24	87	0	69	52	18	4	25	1.63
40088159--40088220	27	2.3	27	97	0	115	20	22	19	37	1.95
40088211--40088325	27	4.3	27	80	8	108	26	15	15	42	1.87
40102850--40102902	24	2.2	24	93	0	88	66	16	11	5	1.42
40105468--40105531	32	1.9	33	81	15	78	40	18	1	39	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40107595--40107697	51	2.0	51	98	0	197	34	23	9	32	1.87
40110768--40110807	18	2.2	18	86	0	53	17	27	7	47	1.74
40112854--40112895	12	3.5	12	75	12	50	33	0	42	23	1.55
40112854--40112900	24	1.9	24	91	4	76	34	0	38	27	1.57
40113566--40113788	27	8.3	27	87	2	277	43	20	16	18	1.87
40114156--40114303	28	5.3	28	85	3	192	21	21	24	32	1.98
40114298--40114335	14	2.7	14	91	0	58	21	13	21	44	1.85
40116026--40116051	7	3.7	7	100	0	52	53	0	0	46	1.00
40126018--40126064	20	2.3	21	78	10	53	74	2	4	19	1.09
40144010--40144039	13	2.3	13	94	0	51	30	20	6	43	1.77

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   
          209   210