genome.fa.s1.2.7.7.80.10.50.1000.137.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  137  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)
41265720--41265745	13	2.0	13	100	0	52	53	7	0	38	1.30
41268237--41268266	10	3.1	10	95	4	53	43	0	0	56	0.99
41268510--41268568	30	1.9	31	89	3	93	47	8	23	20	1.77
41269217--41269255	15	2.7	15	84	7	55	46	20	0	33	1.51
41279216--41279256	19	2.2	19	90	0	64	34	12	14	39	1.84
41281269--41281392	40	3.1	39	80	6	142	36	18	20	24	1.95
41281443--41281765	41	7.9	40	90	0	439	20	24	26	28	1.99
41281806--41281881	38	2.0	38	100	0	152	34	7	5	52	1.53
41282052--41282120	36	1.9	36	100	0	138	59	1	5	33	1.30
41282188--41282224	14	2.6	14	91	0	65	24	0	29	45	1.53
41282438--41282476	20	2.0	19	90	5	60	15	0	46	38	1.46
41282531--41282576	14	3.3	14	87	0	65	21	0	45	32	1.52
41282531--41282568	7	5.4	7	87	0	58	18	0	47	34	1.49
41282525--41282576	21	2.5	21	77	0	59	25	0	42	32	1.55
41285726--41286123	199	2.0	198	99	0	787	28	12	19	40	1.88
41286219--41286284	19	3.3	19	69	19	62	16	3	21	59	1.51
41286232--41286311	25	3.6	23	66	29	57	15	7	17	60	1.57
41286219--41286300	41	2.0	41	95	0	146	15	6	20	57	1.60
41286621--41286747	43	3.0	43	89	1	193	21	16	34	27	1.95
41286756--41286900	43	3.4	43	97	0	263	18	19	31	30	1.96
41286645--41286859	114	1.9	114	93	0	367	19	17	34	28	1.94
41286990--41287034	22	2.1	21	91	4	72	42	28	17	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41289997--41290042	21	2.2	20	84	3	56	67	0	8	23	1.18
41290264--41290390	24	5.5	24	70	16	81	47	3	10	38	1.56
41290290--41290419	24	5.7	23	77	16	110	50	3	8	38	1.49
41290339--41290418	22	3.7	21	79	12	81	51	3	7	37	1.48
41291881--41292118	50	4.8	50	70	6	176	24	17	23	34	1.96
41291866--41292118	100	2.5	100	85	2	312	25	17	22	33	1.96
41292306--41292545	44	5.2	45	69	17	147	27	20	20	32	1.97
41292191--41292703	142	3.6	142	92	0	839	26	20	19	33	1.97
41292331--41292517	98	1.9	97	80	6	216	26	21	20	32	1.98
41292425--41292741	44	7.0	44	72	14	209	26	21	19	32	1.97
41292790--41292935	45	3.3	43	72	8	141	22	28	23	25	2.00
41292781--41292952	88	2.0	88	91	2	283	23	26	25	25	2.00
41292812--41292950	43	3.2	43	72	8	145	24	27	25	23	2.00
41292894--41293006	57	2.0	57	91	0	181	30	26	25	17	1.98
41292951--41293149	87	2.3	87	90	1	301	26	24	21	27	1.99
41292806--41293096	144	2.0	145	86	0	404	27	26	23	22	2.00
41294338--41294379	7	5.6	8	86	8	54	11	11	0	76	1.03
41295118--41295191	14	5.6	13	77	15	64	4	13	2	79	0.98
41295113--41295180	6	11.2	6	72	17	52	4	14	1	79	0.96
41295183--41295216	6	5.7	6	89	0	50	11	2	14	70	1.27
41295800--41295826	12	2.2	12	100	0	54	55	7	18	18	1.65
41299824--41299869	21	2.2	20	84	3	56	67	0	8	23	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41300107--41300236	24	5.7	23	76	17	94	48	3	8	40	1.49
41300154--41300235	22	3.7	22	78	16	82	50	3	7	39	1.48
41303691--41303732	17	2.4	17	88	8	57	14	21	42	21	1.88
41303699--41303732	17	1.9	18	94	5	61	11	20	44	23	1.84
41304668--41304729	33	1.9	32	87	9	90	32	17	24	25	1.97
41309483--41309551	33	2.2	31	85	12	88	49	1	2	46	1.25
41309938--41309970	16	2.1	16	94	0	57	36	3	36	24	1.71
41309950--41310058	45	2.6	43	80	12	129	33	4	29	32	1.78
41310184--41310225	15	2.7	16	82	14	52	52	2	0	45	1.13
41310193--41310234	15	2.9	15	82	10	52	52	0	0	47	1.00
41310304--41310355	15	3.6	15	80	12	56	53	1	0	44	1.11
41310182--41310600	120	3.5	120	94	1	714	48	5	2	42	1.41
41310629--41310697	26	2.6	25	70	19	59	46	4	4	44	1.43
41315959--41316025	34	2.0	34	82	2	82	37	0	8	53	1.32
41319101--41319139	21	1.9	20	89	5	60	33	7	2	56	1.41
41319154--41319212	27	2.1	28	87	3	84	27	1	5	66	1.22
41323661--41323759	44	2.2	44	87	5	137	32	5	29	33	1.79
41323915--41323949	18	2.0	17	88	5	52	54	0	0	45	0.99
41323991--41324299	59	5.2	59	68	12	234	47	4	3	44	1.40
41323901--41324319	120	3.5	120	97	0	793	47	5	2	44	1.39
41324153--41324189	16	2.2	17	86	13	51	54	0	2	43	1.14
41323943--41324250	61	5.1	61	68	12	258	47	6	3	43	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41324273--41324309	16	2.2	17	86	13	51	54	0	2	43	1.14
41324351--41324503	44	3.4	43	70	18	130	49	3	1	45	1.29
41324317--41324533	92	2.4	91	91	1	353	46	4	2	47	1.34
41328652--41328696	18	2.5	18	92	0	81	57	20	8	13	1.62
41337243--41337346	48	2.2	48	85	3	138	48	18	20	13	1.81
41338686--41339234	89	6.2	88	83	1	648	29	21	22	25	1.99
41338994--41339138	44	3.3	44	67	9	105	29	22	24	22	1.99
41338686--41339206	267	2.0	267	87	2	769	29	21	22	26	1.99
41338704--41339192	45	11.0	45	64	13	177	29	21	22	26	1.99
41340853--41340891	21	1.9	21	89	5	62	30	7	5	56	1.49
41341330--41341362	17	1.9	17	93	0	57	27	3	9	60	1.42
41345771--41345843	33	2.3	33	80	4	87	54	6	4	34	1.46
41346187--41346237	26	2.0	24	81	7	57	37	7	0	54	1.29
41348599--41348640	21	2.0	21	95	0	75	42	0	21	35	1.53
41350318--41350481	45	3.6	45	69	4	141	25	21	11	42	1.86
41350261--41350465	90	2.3	91	82	2	243	24	23	13	38	1.91
41359476--41359514	17	2.4	16	91	4	60	53	15	12	17	1.72
41359500--41359566	20	3.5	19	74	12	66	38	14	10	35	1.81
41359483--41359590	36	3.0	36	77	5	110	43	13	9	33	1.76
41359519--41359636	53	2.2	53	82	5	141	43	12	11	32	1.79
41359572--41359655	36	2.3	37	87	6	118	42	9	14	33	1.78
41359592--41359646	18	3.1	18	71	10	58	40	9	16	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41359572--41359723	36	4.3	35	73	14	98	42	12	10	34	1.77
41359678--41359763	44	2.0	44	88	4	129	43	12	6	37	1.70
41359796--41359867	35	2.1	34	85	12	94	44	12	16	26	1.83
41359789--41360044	18	14.3	18	73	18	160	45	10	12	31	1.77
41359970--41360028	19	3.2	19	88	9	86	38	6	15	38	1.74
41359483--41360045	17	31.2	18	68	21	151	42	11	11	33	1.77
41360058--41360119	19	3.3	18	74	12	63	40	11	8	40	1.70
41360223--41360331	21	5.4	20	71	20	66	43	11	12	33	1.78
41360249--41360324	38	2.0	39	82	7	93	47	13	14	25	1.80
41360481--41360511	14	2.3	13	94	5	53	70	0	0	29	0.87
41360646--41360735	9	9.9	9	79	16	73	0	18	0	81	0.70
41360646--41360731	11	8.8	10	83	15	85	0	19	0	80	0.72
41360646--41360739	32	2.9	32	82	4	118	0	20	0	79	0.73
41361054--41361083	3	10.0	3	92	0	51	0	36	0	63	0.95
41361420--41361592	30	5.8	30	78	6	138	41	5	23	30	1.76
41361455--41361592	59	2.3	60	81	3	163	41	5	22	31	1.75
41361767--41363060	78	16.8	78	84	6	1425	35	20	17	27	1.95
41363917--41364011	17	5.5	17	80	12	95	4	3	7	85	0.82
41363926--41364010	15	4.9	16	81	17	82	4	2	8	84	0.83
41363917--41364013	9	11.0	9	81	10	96	4	3	8	84	0.85
41363917--41364011	1	95.0	1	70	0	64	4	3	7	85	0.82
41372702--41372728	4	6.8	4	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41375039--41375089	23	2.1	25	82	13	63	29	3	7	58	1.44
41375135--41375196	26	2.3	27	94	2	108	25	6	6	61	1.45
41375117--41375215	27	3.6	28	78	20	104	25	5	7	62	1.41
41375760--41375793	17	1.9	18	88	5	52	17	2	20	58	1.51
41380539--41380605	17	3.7	18	72	18	59	38	1	0	59	1.06
41380546--41380617	36	2.0	36	89	10	112	43	1	0	55	1.08
41380566--41380618	17	3.1	17	75	8	54	45	0	0	54	0.99
41387835--41388153	43	7.5	43	85	3	387	24	28	19	27	1.99
41387835--41388153	86	3.7	86	87	3	432	24	28	19	27	1.99
41388474--41388565	21	4.4	21	79	5	96	5	43	15	35	1.69

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