genome.fa.s8.2.7.7.80.10.50.1000.98.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  98  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)
29602194--29602232	17	2.3	17	86	0	51	38	30	12	17	1.88
29603799--29603856	5	11.6	5	79	0	62	24	36	1	37	1.66
29603799--29603856	15	3.9	15	93	0	80	24	36	1	37	1.66
29606701--29606804	6	17.3	6	97	0	199	0	31	0	68	0.90
29609177--29609202	12	2.2	12	100	0	52	61	7	0	30	1.24
29621018--29621057	16	2.5	17	92	8	66	17	5	0	77	0.94
29622851--29622941	45	2.0	45	93	0	155	17	20	10	50	1.76
29622907--29622985	33	2.4	33	87	4	106	21	22	10	45	1.81
29623462--29623500	15	2.7	15	84	4	53	69	2	7	20	1.26
29626008--29626082	26	2.8	27	78	11	73	37	22	18	21	1.94
29626007--29626241	27	8.7	27	82	4	217	35	20	20	23	1.96
29626530--29626712	32	5.7	32	85	5	174	20	19	22	36	1.95
29626530--29626704	64	2.7	64	81	5	194	20	18	23	37	1.94
29626592--29626734	64	2.2	65	79	9	152	18	19	23	38	1.93
29626626--29626734	32	3.4	33	83	7	109	18	20	22	38	1.93
29626724--29626788	22	3.0	22	74	0	67	18	20	16	44	1.87
29637541--29637590	11	4.5	11	77	5	55	34	2	4	60	1.27
29643094--29643144	26	2.0	26	84	0	66	35	23	23	17	1.95
29643105--29643161	26	2.2	26	84	6	71	33	24	24	17	1.96
29655719--29655755	17	2.2	17	95	0	65	24	2	21	51	1.61
29656975--29657160	46	4.0	46	92	0	300	34	7	26	30	1.84
29657540--29657650	47	2.3	50	81	7	131	24	13	26	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29661438--29661463	2	13.0	2	100	0	52	50	0	0	50	1.00
29661524--29661679	48	3.2	48	87	0	141	25	27	19	27	1.99
29661564--29661692	48	2.7	48	86	4	179	25	25	20	28	1.99
29675203--29675237	12	2.9	12	82	0	52	51	31	0	17	1.45
29678189--29678221	13	2.4	14	95	5	59	0	15	0	84	0.61
29678358--29678423	33	2.0	33	96	0	123	36	19	15	28	1.92
29682815--29682982	46	3.7	46	76	6	151	29	23	17	29	1.97
29682815--29682993	92	1.9	92	80	2	207	29	24	17	29	1.97
29694236--29694301	19	3.5	18	78	15	62	46	1	25	25	1.61
29713799--29713985	51	3.7	49	81	7	232	31	28	16	23	1.96
29713795--29713981	101	1.8	101	91	3	313	31	28	16	22	1.96
29717356--29717384	2	14.5	2	100	0	58	51	0	0	48	1.00
29726020--29726086	33	2.0	33	82	5	82	50	8	11	28	1.69
29726322--29726360	14	2.8	14	80	0	51	51	0	5	43	1.24
29726333--29726401	28	2.6	28	72	25	69	50	0	1	47	1.09
29729066--29729204	43	3.3	43	91	1	226	25	26	18	29	1.98
29729545--29729593	21	2.3	21	89	0	71	8	38	18	34	1.80
29729544--29729720	87	2.0	87	90	0	273	12	31	16	38	1.87
29729630--29729680	21	2.4	21	86	0	66	3	47	13	35	1.62
29731483--29731520	19	2.0	19	89	0	58	44	2	15	36	1.61
29731542--29731783	37	6.6	37	80	13	247	40	2	7	49	1.45
29731617--29731804	56	3.3	56	98	0	358	40	2	8	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29731867--29731945	16	4.7	16	71	11	59	43	3	12	40	1.61
29731881--29731965	27	3.2	27	70	6	93	47	5	10	36	1.63
29731863--29731968	52	2.0	52	100	0	212	47	5	11	35	1.63
29732148--29732236	30	3.0	30	72	6	81	43	5	8	41	1.59
29734528--29734564	19	1.9	19	88	0	56	27	2	40	29	1.70
29735591--29735701	7	15.9	7	77	3	80	45	45	0	9	1.41
29735593--29735683	21	4.3	21	78	2	94	43	46	0	9	1.37
29736648--29736979	114	2.9	113	83	5	393	27	24	23	25	2.00
29739400--29739432	16	2.1	16	100	0	66	36	6	36	21	1.78
29743701--29743749	23	2.1	24	84	3	64	38	2	18	40	1.62
29751608--29751694	41	2.2	40	89	2	129	31	26	18	24	1.98
29772018--29772069	26	2.0	26	100	0	104	19	19	11	50	1.77
29772623--29772724	27	3.8	27	84	2	125	34	16	22	26	1.95
29772685--29772755	27	2.6	27	80	4	81	26	18	23	30	1.97
29778875--29778937	3	20.7	3	84	9	83	3	31	0	65	1.09
29783030--29783084	28	2.0	28	86	6	78	58	9	10	21	1.60
29788053--29788928	434	2.0	434	89	2	1339	34	13	15	36	1.87
29806286--29806327	4	10.5	4	100	0	84	50	23	0	26	1.50
29810088--29810151	28	2.3	28	100	0	128	35	28	3	32	1.73
29812844--29813013	27	6.3	27	81	8	188	42	20	16	20	1.89
29812835--29813001	81	2.1	80	88	3	246	44	17	16	20	1.86
29813168--29813236	26	2.7	26	93	0	120	15	17	26	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29813355--29813412	28	2.1	28	93	3	100	20	22	25	31	1.98
29819547--29819579	17	1.9	17	93	0	57	57	9	12	21	1.62
29821793--29821836	15	2.9	15	80	16	54	61	6	0	31	1.22
29827347--29827380	17	2.1	16	88	5	50	76	14	0	8	1.01
29832013--29832060	24	1.9	25	83	8	62	72	4	14	8	1.23
29833926--29834021	31	3.1	31	95	3	174	31	9	13	45	1.75
29834579--29834625	19	2.4	19	86	10	60	76	14	8	0	1.01
29837270--29837297	2	14.0	2	100	0	56	50	0	0	50	1.00
29837397--29837458	28	2.2	29	82	8	74	43	11	16	29	1.82
29837852--29837882	16	1.9	16	93	0	53	48	0	9	41	1.36
29839294--29839412	40	2.8	43	78	14	124	24	18	26	31	1.98
29852260--29852295	18	2.1	17	89	5	54	0	33	0	66	0.92
29855535--29855598	29	2.2	29	88	0	92	40	1	26	31	1.65
29855636--29855664	14	2.1	14	93	6	51	27	0	6	65	1.18
29857900--29857938	19	2.1	19	85	9	53	17	0	28	53	1.44
29863576--29863613	19	2.0	19	100	0	76	31	21	21	26	1.98
29867124--29867171	10	5.0	10	82	7	55	37	0	35	27	1.57
29869562--29869624	30	2.0	32	81	6	76	30	3	4	61	1.32
29869648--29869708	29	2.0	29	84	6	77	39	1	1	57	1.18
29870155--29870205	2	25.5	2	82	7	59	43	5	0	50	1.26
29870627--29870664	13	2.8	14	80	19	53	21	5	7	65	1.38
29875616--29875656	18	2.3	18	87	8	57	78	0	21	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29875615--29875662	19	2.6	17	81	12	51	79	0	18	2	0.84
29877966--29878191	44	5.1	44	68	10	147	25	26	24	23	2.00
29877863--29878398	88	6.1	88	83	2	637	26	25	25	22	2.00
29878009--29878323	44	7.2	44	62	5	116	25	26	25	22	2.00
29877863--29878398	264	2.0	264	86	1	734	26	25	25	22	2.00
29877863--29878394	176	3.0	176	88	0	760	26	25	25	22	2.00
29878445--29878781	44	7.7	43	75	8	234	29	21	24	24	1.99
29878377--29878911	217	2.5	217	94	1	919	29	19	25	25	1.99
29878580--29879198	44	14.3	44	68	9	153	29	20	23	26	1.99
29878574--29879198	346	1.8	344	80	6	762	29	20	23	26	1.99
29880793--29880851	25	2.3	27	79	5	68	33	1	5	59	1.29
29881328--29881365	13	2.8	14	80	19	53	21	5	7	65	1.38
29882872--29883068	108	1.8	108	87	0	286	29	21	16	31	1.96
29883081--29883111	7	4.4	7	100	0	62	48	38	0	12	1.42
29888997--29889085	40	2.2	40	97	2	169	28	10	12	49	1.72
29891608--29891688	37	2.2	37	90	0	126	37	29	17	16	1.91
29897674--29897702	2	14.5	2	100	0	58	48	0	51	0	1.00
29900147--29900219	36	2.0	36	100	0	146	24	19	26	30	1.98
29904374--29904404	2	15.5	2	100	0	62	51	48	0	0	1.00
29906197--29906263	34	1.9	35	93	3	118	32	8	11	46	1.72
29917233--29917282	26	1.9	26	84	8	66	34	14	10	42	1.78
29917517--29917557	10	4.4	10	79	17	52	17	21	0	60	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29919362--29919618	104	2.5	104	97	0	480	30	29	19	19	1.97
29920051--29920114	30	2.2	29	81	10	76	29	28	6	35	1.82
29920058--29920114	30	1.9	30	85	3	80	29	24	7	38	1.82
29922460--29922794	27	12.4	27	81	4	329	44	20	17	17	1.87
29922460--29922794	81	4.1	81	83	4	383	44	20	17	17	1.87
29923110--29923191	28	2.9	28	88	0	128	28	20	21	29	1.98
29923110--29923222	28	3.9	28	81	10	111	26	21	23	29	1.99
29929150--29929189	20	2.0	20	85	5	53	45	2	22	30	1.66
29932666--29932941	27	10.2	27	78	5	290	44	19	18	17	1.87
29933136--29933212	26	3.0	26	90	0	109	16	22	20	40	1.91

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