genome.fa.s11.2.7.7.80.10.50.1000.18.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  18  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)
6247915--6247943	15	1.9	15	100	0	58	55	0	0	44	0.99
6251256--6251316	30	2.0	31	83	6	79	57	0	8	34	1.29
6253028--6253691	89	7.5	89	94	1	1127	27	24	16	30	1.97
6254961--6255009	21	2.3	21	89	6	73	14	16	0	69	1.19
6254961--6255009	7	7.0	7	82	17	66	14	16	0	69	1.19
6255958--6255996	17	2.2	17	86	4	51	66	7	15	10	1.43
6257886--6257927	19	2.2	19	83	8	50	40	9	21	28	1.84
6257957--6257982	13	2.0	13	100	0	52	46	15	7	30	1.74
6259649--6259709	30	2.0	31	83	6	79	57	0	8	34	1.29
6262339--6262423	32	2.6	32	83	1	98	22	35	17	24	1.95
6264541--6264591	2	25.5	2	95	0	93	49	0	1	49	1.12
6266801--6266847	23	2.0	23	83	4	58	19	2	6	72	1.17
6266804--6266872	29	2.4	29	77	15	72	20	1	4	73	1.07
6268797--6268993	98	2.0	98	93	0	340	30	9	23	36	1.87
6277477--6277662	41	4.6	40	83	4	176	20	29	20	29	1.98
6277518--6277675	41	3.9	41	88	1	219	20	29	22	27	1.99
6278247--6278275	2	14.5	2	100	0	58	48	0	0	51	1.00
6278410--6278454	2	22.5	2	90	0	72	46	4	0	48	1.22
6283620--6284308	44	15.8	42	70	13	278	28	19	23	28	1.98
6283753--6283963	84	2.4	85	78	11	225	28	20	22	27	1.99
6283608--6284106	217	2.3	217	93	0	836	28	19	22	29	1.98
6283608--6284219	217	2.8	217	87	2	712	28	19	23	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6284189--6284308	45	2.7	43	73	15	102	29	19	25	26	1.98
6286336--6286532	98	2.0	98	95	0	358	29	10	23	37	1.88
6287456--6287505	26	2.0	26	84	4	66	58	6	2	34	1.34
6287579--6287627	19	2.5	20	83	9	66	61	8	2	28	1.36
6287662--6287703	21	2.1	21	86	8	61	19	4	4	71	1.22
6287727--6287760	15	2.1	17	89	10	54	32	2	0	64	1.08
6288282--6288323	15	2.8	14	89	10	57	38	0	9	52	1.34
6288299--6288339	19	2.2	18	86	4	55	43	2	4	48	1.37
6294585--6294653	25	2.8	25	75	4	77	34	15	23	26	1.95
6294759--6294822	26	2.5	27	85	14	91	39	21	26	12	1.89
6295652--6295711	31	1.9	31	93	0	102	40	5	25	30	1.77
6299339--6299391	18	2.9	18	94	5	90	18	7	22	50	1.72
6301006--6301173	10	18.0	9	68	20	71	64	3	1	30	1.18
6301022--6301081	9	6.4	9	79	12	50	63	5	0	31	1.16
6301018--6301167	19	7.8	19	70	20	98	64	4	1	30	1.20
6301050--6301097	18	2.5	18	86	10	60	66	2	0	31	1.03
6301103--6301150	18	2.6	19	80	12	55	64	2	4	29	1.23
6301088--6301187	49	2.0	49	84	3	130	63	4	3	30	1.28
6303912--6304021	42	2.6	42	77	5	123	23	20	30	24	1.98
6314411--6314570	49	3.2	49	68	10	144	33	23	17	25	1.96
6314422--6314610	100	1.9	100	88	0	288	33	21	21	23	1.97
6315932--6315960	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6316954--6317223	41	6.6	41	94	0	450	29	21	27	21	1.99
6319993--6320076	3	28.0	3	97	0	141	33	3	0	63	1.12
6321745--6321939	98	2.0	98	94	0	345	36	23	10	29	1.88
6322456--6322495	17	2.4	16	87	4	53	40	2	12	45	1.56
6322808--6322851	12	3.7	12	79	11	54	56	0	9	34	1.31
6334069--6334129	20	3.0	20	90	0	95	9	45	14	29	1.77
6334195--6334219	13	1.9	13	100	0	50	68	0	32	0	0.90
6334956--6334995	18	2.1	19	86	9	55	35	0	7	57	1.27
6334959--6335001	20	2.0	22	82	8	54	39	0	9	51	1.34
6336822--6336863	6	7.0	6	88	0	57	30	33	35	0	1.58
6337011--6337102	33	2.8	33	81	3	105	16	43	11	28	1.83
6340554--6340616	27	2.3	27	86	0	90	19	33	25	22	1.97
6341256--6341303	22	2.3	21	79	17	55	39	4	4	52	1.40
6345676--6345709	16	2.1	17	88	5	52	29	0	50	20	1.49
6348166--6348203	20	1.9	20	88	0	58	47	10	18	23	1.79
6357997--6358043	24	2.0	24	84	16	62	51	14	0	34	1.43
6358398--6358433	18	1.9	19	88	5	56	33	22	0	44	1.53
6358718--6358765	25	2.0	24	83	4	60	2	14	6	77	1.06
6363326--6363421	25	3.8	25	80	6	97	33	19	27	19	1.96
6363642--6363689	24	2.0	25	91	4	80	35	16	25	22	1.95
6371169--6371315	25	5.9	25	76	10	108	35	19	26	18	1.95
6373883--6373939	9	6.2	9	80	11	62	56	17	0	26	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6373878--6373937	28	2.1	28	96	0	111	55	15	0	30	1.41
6373883--6373930	14	3.4	14	76	21	55	56	18	0	25	1.42
6373878--6373947	28	2.5	28	90	4	97	54	17	0	28	1.43
6373851--6373981	68	1.9	67	84	4	174	50	18	1	29	1.56
6383034--6383088	17	3.1	18	77	15	62	18	7	3	70	1.25
6383162--6383235	38	1.9	39	83	8	98	36	1	6	55	1.35
6383169--6383232	18	3.6	17	75	6	65	39	1	7	51	1.40
6385835--6385864	15	2.0	15	100	0	60	66	0	6	26	1.16
6385839--6385873	15	2.3	15	90	0	52	71	0	8	20	1.11
6385834--6385873	18	2.2	18	86	8	55	70	0	7	22	1.12
6393953--6393985	7	4.6	7	96	3	57	54	15	0	30	1.41
6396330--6396358	13	2.2	13	100	0	58	37	0	27	34	1.57
6398131--6398285	46	3.4	46	87	0	211	32	23	18	25	1.97
6401168--6401212	23	2.0	23	90	0	72	33	8	17	40	1.81
6401361--6401413	26	2.0	26	82	7	63	45	5	3	45	1.45
6403407--6404010	300	2.0	300	99	0	1199	35	16	14	33	1.89
6404333--6404374	18	2.3	18	100	0	84	28	9	30	30	1.89
6412980--6413070	31	3.0	31	81	12	125	27	17	12	42	1.85
6412991--6413070	29	2.7	29	86	11	101	28	18	10	42	1.83
6419694--6419736	17	2.5	17	81	7	52	62	4	2	30	1.28
6419725--6419757	11	2.8	12	86	9	50	63	3	0	33	1.10
6419836--6419880	23	2.0	24	82	8	58	66	2	8	22	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6421356--6421390	19	1.9	17	88	11	52	68	0	11	20	1.20
6423500--6423541	19	2.2	20	86	4	59	45	4	0	50	1.23
6423735--6423838	44	2.5	39	78	14	118	39	22	0	38	1.54
6423752--6423850	44	2.2	44	90	0	162	42	23	0	34	1.54
6425576--6425633	26	2.2	26	87	0	80	43	12	1	43	1.52
6448083--6448128	7	6.9	7	87	2	60	86	10	0	2	0.64
6448084--6448143	24	2.5	24	86	8	86	85	10	0	5	0.75
6448982--6449016	17	2.1	17	89	5	54	82	0	11	5	0.82
6450269--6451369	46	23.9	46	88	0	1547	25	15	29	29	1.96
6451422--6452154	44	16.7	44	63	13	238	31	18	23	26	1.98
6451359--6452155	132	6.0	132	93	0	1317	31	18	23	26	1.97
6453609--6453658	26	2.0	25	84	4	64	32	10	2	56	1.44
6459916--6459967	20	2.6	20	84	6	70	21	19	7	51	1.71
6460060--6460101	22	2.0	22	90	9	70	21	9	14	54	1.68
6460493--6460533	20	2.0	20	90	0	64	53	9	9	26	1.65
6461719--6461897	33	5.4	33	73	5	137	45	15	22	16	1.85
6461725--6461936	66	3.2	66	88	1	309	45	15	22	16	1.84
6485003--6485033	11	2.7	11	95	5	53	6	19	3	70	1.22
6488433--6488611	94	1.9	94	96	0	331	41	1	5	51	1.34
6488433--6488632	94	2.1	94	90	2	310	42	1	5	50	1.34
6496574--6496641	33	2.1	33	97	0	127	39	0	30	29	1.57
6510250--6511368	153	7.3	152	88	5	1518	52	7	9	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6511634--6511695	23	2.6	24	83	16	69	50	0	1	48	1.10
6514580--6514610	6	5.3	6	92	7	55	64	0	0	35	0.94
6514582--6514606	11	2.3	11	100	0	50	68	0	0	32	0.90
6519651--6519687	2	18.5	2	94	0	56	48	5	0	45	1.25
6533318--6533722	105	3.8	105	84	3	492	35	6	12	45	1.68
6533320--6533722	212	1.9	210	86	1	563	35	6	11	45	1.67
6542794--6542833	19	2.1	19	85	0	53	42	22	5	30	1.75
6544763--6544804	22	1.9	22	90	9	68	47	33	2	16	1.60
6547402--6547446	23	2.0	23	90	0	72	53	2	0	44	1.13
6555000--6555029	11	2.7	11	100	0	60	0	53	0	46	1.00

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   200   201   202   203   204   205   206   207   208   
          209   210