genome.fa.s1.2.7.7.80.10.50.1000.124.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  124  of  187  ( 22383 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)
37569551--37569593	15	3.0	14	83	12	52	2	18	0	79	0.85
37585102--37585210	29	3.8	29	88	2	157	18	27	12	41	1.87
37590203--37590278	23	3.3	23	96	0	143	31	26	21	21	1.98
37590365--37590393	8	3.6	8	100	0	58	34	27	13	24	1.93
37590512--37590550	18	2.2	17	86	13	53	46	20	0	33	1.51
37625746--37625813	25	2.7	25	86	4	102	30	22	20	26	1.98
37635464--37635569	53	2.0	53	100	0	212	22	13	28	35	1.92
37645553--37645584	14	2.3	14	100	0	64	37	31	9	21	1.85
37647713--37647780	27	2.5	28	78	2	75	32	30	8	27	1.87
37650395--37650512	25	4.7	25	79	9	98	29	22	23	23	1.99
37651723--37651780	25	2.3	25	87	0	80	34	20	20	24	1.97
37654412--37654450	20	1.9	20	84	5	51	20	23	12	43	1.86
37661413--37661448	14	2.6	14	91	4	56	38	33	0	27	1.57
37665040--37665139	39	2.6	38	85	4	130	49	10	5	36	1.58
37669963--37670017	20	2.8	20	91	0	92	5	25	21	47	1.72
37669957--37670025	20	3.5	20	83	0	75	8	23	23	44	1.80
37678786--37678930	72	2.0	72	98	0	281	35	12	15	36	1.86
37688488--37688525	19	2.0	19	94	0	67	36	5	23	34	1.78
37689539--37689573	16	2.1	16	89	10	52	54	0	0	45	0.99
37703031--37703113	41	2.0	41	90	4	132	50	10	14	24	1.74
37708045--37708090	18	2.6	18	100	0	92	28	17	8	45	1.78
37708090--37708159	3	23.3	3	100	0	140	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37709166--37709195	7	4.3	7	100	0	60	60	13	0	26	1.34
37709351--37709384	17	1.9	18	88	5	52	35	11	0	52	1.38
37712595--37712701	20	5.3	20	76	7	92	38	19	31	10	1.85
37715078--37715117	21	1.9	21	85	10	55	17	2	25	55	1.55
37718141--37718174	16	2.1	16	88	5	50	8	0	14	76	1.01
37720633--37720658	13	2.0	13	100	0	52	46	23	0	30	1.53
37731553--37731932	188	2.0	189	99	0	753	42	16	9	30	1.80
37746820--37746912	42	2.2	42	90	0	141	18	32	24	24	1.97
37746958--37747068	43	2.6	43	89	0	177	24	33	25	17	1.96
37751518--37751549	7	4.6	7	100	0	64	43	25	0	31	1.55
37753581--37753608	4	7.0	4	100	0	56	25	0	0	75	0.81
37757557--37757846	50	5.8	50	85	1	343	21	28	21	27	1.99
37757557--37757846	149	1.9	149	82	2	359	21	28	21	27	1.99
37765103--37765393	50	5.8	50	81	6	313	22	28	21	27	1.99
37771656--37771701	21	2.1	22	84	4	58	60	2	0	36	1.09
37779440--37779507	25	2.6	25	81	4	73	23	23	23	29	1.99
37782811--37782896	25	3.4	25	70	17	70	25	22	23	29	1.99
37783028--37783061	17	1.9	18	88	5	52	52	11	0	35	1.38
37792936--37792979	22	2.0	22	81	4	52	31	29	11	27	1.91
37794289--37794469	51	3.6	49	83	5	204	29	25	16	29	1.96
37801978--37802003	9	2.9	9	100	0	52	57	23	11	7	1.59
37803478--37803552	37	2.0	37	94	0	132	37	17	12	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37804155--37804196	22	2.0	21	90	4	66	30	4	33	30	1.78
37807921--37807966	14	3.3	14	84	0	56	60	6	17	15	1.55
37807948--37807974	14	1.9	14	100	0	54	51	11	22	14	1.73
37809842--37809924	26	3.2	26	70	5	60	44	1	31	22	1.61
37809841--37809958	54	2.2	54	88	5	170	38	0	33	27	1.63
37809941--37809991	20	2.6	19	87	6	75	39	1	33	25	1.67
37810594--37810636	23	1.9	22	85	4	59	34	9	13	41	1.77
37812315--37812371	29	2.0	29	92	0	96	42	0	8	49	1.34
37812321--37812371	15	3.5	15	71	15	52	45	0	5	49	1.26
37818297--37818323	2	13.5	2	100	0	54	48	0	0	51	1.00
37819033--37819148	52	2.2	52	90	1	180	28	28	0	42	1.62
37819149--37819214	10	6.5	10	75	1	60	34	0	0	65	0.93
37819151--37819214	30	2.1	30	100	0	128	34	0	0	65	0.93
37819291--37819353	18	3.5	18	72	20	51	33	0	3	63	1.10
37820296--37820320	7	3.6	7	100	0	50	28	0	12	60	1.32
37820972--37821006	18	1.9	18	88	0	52	25	34	8	31	1.86
37821410--37821478	25	2.7	25	88	2	102	47	2	10	39	1.52
37821474--37821522	18	2.7	18	90	0	71	48	22	0	28	1.50
37821499--37821580	29	2.8	29	96	0	146	43	29	0	26	1.55
37821528--37821731	47	4.1	47	82	14	266	45	26	0	27	1.54
37821557--37821598	18	2.3	18	95	0	75	47	23	0	28	1.52
37821481--37821731	76	3.3	76	87	6	334	45	26	0	27	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37821575--37821684	29	3.8	29	92	1	177	44	27	0	28	1.55
37821499--37821744	104	2.4	104	96	0	447	44	27	0	28	1.54
37821662--37821702	17	2.3	18	91	4	66	46	24	0	29	1.53
37821633--37821731	46	2.1	47	92	1	164	45	26	0	28	1.54
37821679--37821741	29	2.2	29	97	0	117	46	30	0	23	1.53
37821743--37821985	55	4.2	55	78	15	240	37	10	6	45	1.64
37821848--37821882	18	1.9	18	94	0	61	37	8	2	51	1.47
37821904--37821930	10	2.7	10	100	0	54	40	7	0	51	1.30
37821848--37821993	65	2.2	64	87	6	204	39	8	4	47	1.54
37821969--37821993	10	2.5	10	100	0	50	44	8	0	48	1.32
37825180--37825525	125	2.8	125	93	1	588	32	20	16	30	1.95
37825746--37825808	29	2.2	28	77	5	74	41	17	15	25	1.89
37828323--37828395	5	14.6	5	79	0	83	26	34	0	39	1.56
37828323--37828394	15	4.8	15	92	0	117	26	34	0	38	1.57
37829299--37829587	51	5.7	50	79	6	271	29	24	14	30	1.95
37829299--37829598	102	3.0	102	83	2	347	29	24	14	31	1.94
37829931--37830007	37	2.1	37	97	0	145	38	24	1	35	1.64
37831095--37831130	18	1.9	19	88	5	56	33	22	0	44	1.53
37832656--37832718	5	12.6	5	82	0	81	25	34	0	39	1.56
37832656--37832718	15	4.2	15	89	0	99	25	34	0	39	1.56
37833618--37834068	102	4.4	102	87	2	570	29	25	14	30	1.95
37833618--37834067	51	8.9	51	75	6	369	28	25	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37841358--37841398	19	2.0	20	86	9	57	80	7	0	12	0.90
37844340--37844398	30	2.0	29	84	15	77	59	6	13	20	1.57
37863887--37864058	43	4.0	42	81	5	204	29	16	22	31	1.96
37863887--37864058	85	2.0	85	84	6	224	29	16	22	31	1.96
37865401--37865430	15	1.9	16	93	6	53	23	16	0	60	1.36
37866601--37866661	32	1.9	32	100	0	122	13	19	24	42	1.87
37866637--37866677	21	2.0	21	100	0	82	19	19	26	34	1.96
37868216--37868255	20	2.0	20	90	0	62	50	12	10	27	1.72
37869589--37869823	27	8.6	27	87	1	317	39	24	18	17	1.92
37869589--37869842	82	3.1	80	86	3	348	38	23	19	18	1.93
37869589--37869823	109	2.2	109	88	0	353	39	24	18	17	1.92
37869849--37869897	24	2.0	24	84	4	62	24	18	24	32	1.97
37869884--37869952	24	2.9	24	80	4	77	27	5	21	44	1.75
37870073--37870220	32	4.7	32	76	1	154	20	20	22	36	1.95
37870073--37870220	63	2.3	64	87	1	208	20	20	22	36	1.95
37870226--37870275	22	2.3	22	78	0	55	22	16	14	48	1.81
37879314--37879374	25	2.4	25	80	0	68	26	16	16	40	1.89
37886208--37886321	53	2.2	53	98	1	221	40	8	18	32	1.81
37886845--37886912	22	3.0	23	72	20	79	36	5	11	45	1.65
37886841--37886911	23	3.1	23	73	18	85	35	7	11	46	1.67
37890941--37890980	21	1.9	21	84	0	53	52	10	12	25	1.70
37891508--37891542	12	2.8	13	86	8	54	71	0	8	20	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37891925--37892025	40	2.5	40	90	1	157	23	22	17	35	1.95
37893510--37893547	19	2.0	20	90	10	62	36	5	0	57	1.21
37898045--37898088	16	2.8	15	83	10	52	47	0	11	40	1.39
37898016--37898087	32	2.3	31	85	9	92	43	0	12	44	1.42
37898842--37898973	40	3.3	39	84	8	167	19	28	18	33	1.96
37901027--37901316	50	5.7	50	82	4	287	26	22	28	22	1.99
37902714--37902739	12	2.2	12	100	0	52	23	38	30	7	1.83
37904409--37904447	20	2.0	20	94	0	69	7	28	25	38	1.83
37906737--37906826	24	3.8	24	82	5	101	21	16	16	45	1.85
37909007--37909049	19	2.2	20	88	12	63	18	4	2	74	1.10

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