genome.fa.s8.2.7.7.80.10.50.1000.139.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  139  of  190  ( 22705 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)
40926753--40927389	70	9.1	70	86	3	863	26	14	16	42	1.86
40926753--40927419	139	4.8	139	90	2	991	26	14	16	42	1.86
40926753--40927387	47	13.6	48	70	13	309	26	14	16	42	1.86
40927258--40927305	25	1.9	25	82	0	60	27	14	18	39	1.90
40928535--40928593	18	3.3	18	80	4	57	44	8	1	45	1.44
40928553--40928593	18	2.3	19	83	12	59	43	9	0	46	1.36
40929862--40929929	35	1.9	36	84	3	93	7	10	7	75	1.20
40929889--40929960	29	2.5	28	78	14	83	5	9	6	77	1.11
40930870--40930926	25	2.3	25	84	0	69	40	12	5	42	1.65
40931167--40931255	23	3.7	22	81	13	97	31	20	24	23	1.98
40932755--40932796	19	2.2	19	95	4	75	26	0	14	59	1.35
40938483--40938877	213	1.9	213	97	0	754	33	18	13	33	1.91
40947632--40947658	2	13.5	2	100	0	54	48	0	0	51	1.00
40954640--40954690	24	2.2	22	83	16	59	52	11	13	21	1.72
40955472--40955514	22	2.0	22	100	0	86	37	13	25	23	1.92
40959487--40959524	19	2.0	20	89	5	60	57	7	5	28	1.49
40960825--40960866	20	2.0	21	86	4	59	33	0	0	66	0.92
40960822--40960886	27	2.5	26	77	5	76	38	0	0	61	0.96
40960833--40960886	27	2.0	27	88	0	81	31	0	0	68	0.90
40969122--40969147	12	2.2	12	100	0	52	61	7	15	15	1.55
40970319--40970388	33	2.1	33	97	0	131	21	5	37	35	1.77
40977489--40977541	26	2.2	25	86	10	74	28	28	1	41	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40982440--40982628	59	3.2	59	73	11	213	42	0	3	53	1.20
40982499--40982687	61	3.1	61	72	11	217	43	1	4	50	1.30
40982439--40982687	120	2.1	120	99	0	489	43	0	4	51	1.26
40982476--40982659	59	3.1	59	71	12	203	41	1	4	52	1.30
40982503--40982686	56	3.1	59	71	20	200	43	1	4	50	1.30
40982916--40983009	44	2.1	45	88	5	138	34	29	5	30	1.80
40983613--40983658	6	7.7	6	100	0	92	50	34	15	0	1.44
40983752--40983783	2	16.0	2	100	0	64	0	50	0	50	1.00
40985140--40985172	3	11.0	3	100	0	66	33	0	0	66	0.92
40996891--40996919	14	2.1	14	100	0	58	17	13	13	55	1.70
41000974--41001126	45	3.4	45	91	0	243	41	21	18	18	1.91
41000978--41001153	45	4.2	39	77	17	149	39	21	19	19	1.92
41003087--41003363	90	3.1	90	86	1	367	29	24	14	30	1.95
41013220--41013440	43	5.1	43	90	0	343	31	28	18	21	1.97
41018149--41018195	16	2.8	16	84	15	60	36	42	0	21	1.53
41018451--41019132	114	5.9	114	87	4	870	26	26	21	25	2.00
41019753--41019982	50	4.5	50	85	3	280	22	29	21	27	1.99
41023575--41023705	43	3.0	44	69	10	133	25	22	21	29	1.99
41023563--41023721	87	1.8	87	94	0	282	23	23	21	31	1.98
41023562--41023693	44	3.0	44	70	9	117	24	22	23	29	1.99
41023739--41024043	44	6.9	44	89	0	448	21	27	20	29	1.98
41025339--41025428	47	1.9	46	88	2	135	15	21	18	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41030907--41030963	6	9.3	6	77	9	53	77	5	5	12	1.11
41031195--41031247	22	2.4	22	93	3	88	13	15	45	26	1.82
41031536--41031573	20	1.9	19	89	5	58	71	2	26	0	1.00
41042543--41042904	83	4.3	84	71	12	292	28	24	21	26	1.99
41042412--41043081	127	5.3	127	94	0	1178	27	23	21	27	1.99
41044250--41044397	1	148.0	1	65	0	71	0	16	0	83	0.66
41044251--41044397	8	17.6	8	75	17	122	0	17	0	82	0.66
41044244--41044397	5	31.8	5	79	18	143	0	17	0	82	0.67
41044243--41044388	36	4.1	35	78	18	149	0	17	0	82	0.68
41044250--41044397	54	2.8	51	83	13	185	0	16	0	83	0.66
41044250--41044394	19	7.8	19	78	19	164	0	17	0	82	0.66
41044243--41044394	35	4.5	35	80	14	176	0	17	0	82	0.67
41047745--41047803	28	2.1	28	87	0	82	64	8	11	15	1.49
41055006--41055035	13	2.2	14	94	5	53	36	0	0	63	0.95
41075781--41075815	17	2.1	17	88	0	52	22	0	0	77	0.78
41081103--41081175	33	2.2	32	80	7	83	35	16	23	24	1.95
41083624--41083684	21	3.0	21	76	4	63	18	21	14	45	1.84
41087812--41087884	33	2.2	33	97	0	137	34	8	23	34	1.84
41090792--41091213	4	105.2	4	99	0	835	25	0	24	50	1.50
41095179--41095215	18	2.1	18	90	10	58	56	0	8	35	1.29
41095297--41095602	157	1.9	156	80	5	348	36	13	11	38	1.80
41109702--41109745	19	2.2	20	92	4	72	27	11	11	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41115613--41115688	25	2.9	25	71	13	64	38	0	0	61	0.96
41115755--41115793	16	2.5	16	83	4	53	64	5	0	30	1.15
41117391--41117432	22	2.0	22	86	13	61	64	2	11	21	1.38
41117495--41117545	14	3.6	14	80	17	52	62	0	9	27	1.26
41118143--41118182	20	2.0	21	90	5	64	37	5	5	52	1.45
41118621--41119107	243	2.0	243	100	0	974	20	20	23	35	1.96
41119128--41119714	143	4.1	143	89	0	861	27	22	20	28	1.99
41128380--41128642	46	6.2	45	78	17	310	34	15	20	28	1.93
41128416--41128570	36	4.0	36	78	15	175	36	14	20	28	1.92
41128380--41128616	82	2.9	82	94	0	411	35	13	21	28	1.92
41128534--41128655	46	2.7	46	93	3	205	32	17	22	27	1.96
41129529--41129571	22	2.0	21	86	13	61	62	2	11	23	1.40
41130873--41130905	16	2.0	17	94	5	59	42	15	0	42	1.46
41132614--41132666	23	2.5	20	82	14	70	39	1	0	58	1.09
41135120--41135157	15	2.6	15	95	4	69	28	0	34	36	1.58
41135290--41135344	14	4.0	14	73	20	53	18	0	45	36	1.49
41136413--41136472	3	20.0	3	100	0	120	33	0	0	66	0.92
41136571--41136602	2	16.0	2	93	0	55	50	3	0	46	1.17
41137653--41137712	14	4.3	14	79	8	50	25	0	40	35	1.56
41137653--41137712	21	2.9	21	82	9	61	25	0	40	35	1.56
41137856--41137904	14	3.4	14	72	5	53	28	0	34	36	1.58
41139684--41139714	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41139768--41139804	9	4.1	9	86	13	58	45	10	10	32	1.74
41143649--41143736	42	2.1	42	80	4	97	25	12	26	36	1.91
41144999--41145072	37	2.0	37	97	0	139	33	5	9	51	1.57
41146213--41146270	25	2.4	24	77	5	62	15	31	17	36	1.91
41152822--41152861	2	19.5	2	94	5	71	47	2	0	50	1.14
41153272--41153310	16	2.6	14	84	8	51	56	7	0	35	1.28
41154611--41154645	3	11.7	3	100	0	70	34	0	0	65	0.93
41156943--41157004	31	2.0	31	100	0	124	25	19	6	48	1.72
41161319--41161351	6	5.7	6	96	3	59	54	0	33	12	1.37
41162525--41162560	9	3.9	9	96	3	63	33	0	8	58	1.28
41162525--41162560	19	1.9	18	94	5	63	33	0	8	58	1.28
41162633--41162670	19	1.9	20	89	10	60	18	2	7	71	1.23
41162632--41162679	21	2.3	21	79	13	55	22	2	6	68	1.23
41163755--41163804	23	2.1	24	85	3	66	74	18	0	8	1.06
41164613--41164703	45	2.0	45	85	2	121	27	6	28	37	1.82
41164848--41164902	15	3.4	16	80	16	53	54	1	0	43	1.10
41164854--41164902	16	2.9	18	80	20	61	55	0	0	44	0.99
41171693--41171732	19	2.0	20	85	4	55	40	0	2	57	1.12
41174690--41174732	3	14.7	3	80	4	52	30	4	2	62	1.28
41174633--41174732	9	10.9	9	71	15	53	32	7	3	58	1.40
41174828--41174873	23	2.0	23	86	0	65	39	4	2	54	1.32
41176366--41176519	21	7.3	21	66	5	87	43	14	25	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41176360--41176512	42	3.6	42	88	0	216	43	15	24	16	1.86
41182543--41182578	15	2.4	16	90	9	58	5	2	47	44	1.41
41188541--41188571	3	10.3	3	100	0	62	0	32	0	67	0.91
41194038--41194193	43	3.7	41	77	14	167	22	19	28	29	1.98
41194354--41194385	16	1.9	17	93	6	57	40	0	21	37	1.54
41199029--41199131	21	5.0	22	73	15	76	42	15	18	23	1.88
41206403--41206520	59	2.0	60	83	5	150	41	16	12	29	1.85
41207230--41207270	21	2.0	21	90	0	64	14	24	0	60	1.34
41214780--41214823	14	3.2	13	84	12	52	29	2	2	65	1.16
41215074--41215115	10	4.2	10	79	11	50	42	4	0	52	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