genome.fa.s3.2.7.7.80.10.50.1000.114.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  114  of  150  ( 17918 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)
35255519--35255703	25	7.4	25	74	7	142	37	18	24	18	1.94
35255534--35255673	75	1.9	75	83	3	174	37	17	25	18	1.93
35255575--35255711	50	2.7	50	87	2	186	37	18	26	18	1.93
35255565--35255713	75	2.0	75	81	9	178	37	17	26	18	1.93
35261694--35261840	75	2.0	75	82	5	181	37	19	23	19	1.94
35261732--35261896	75	2.2	75	83	7	210	38	17	26	18	1.92
35261727--35261898	25	6.9	25	81	5	186	37	17	26	18	1.93
35270587--35270638	3	17.3	3	100	0	104	65	0	0	34	0.93
35272940--35272976	5	7.4	5	100	0	74	59	0	0	40	0.97
35296729--35296773	23	2.0	23	82	8	56	44	6	2	46	1.42
35298235--35298443	92	2.3	91	85	5	269	45	3	4	45	1.41
35298371--35298418	26	1.9	25	84	16	64	45	0	2	52	1.12
35298489--35298707	66	3.5	63	69	21	190	41	3	6	48	1.44
35298459--35298751	120	2.4	120	92	4	468	42	2	5	49	1.39
35298584--35298635	15	3.6	15	80	12	56	44	0	1	53	1.11
35298713--35298754	15	2.7	16	82	14	52	45	0	2	52	1.13
35298704--35298745	15	2.9	15	82	10	52	47	0	0	52	1.00
35298688--35299004	157	2.0	157	96	0	580	47	4	2	44	1.38
35298857--35298907	18	3.0	18	78	18	56	47	0	0	52	1.00
35299127--35299162	16	2.2	16	95	0	63	38	33	0	27	1.57
35300728--35300779	26	2.0	26	100	0	104	34	3	30	30	1.76
35302635--35302819	46	4.0	46	94	0	325	29	27	9	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35304051--35304092	17	2.6	16	85	7	57	52	23	0	23	1.47
35308622--35308663	19	2.2	19	87	8	59	71	2	0	26	0.98
35309007--35309054	24	2.0	24	100	0	96	20	20	4	54	1.61
35310170--35310211	19	2.2	19	83	8	50	38	16	2	42	1.61
35310823--35310854	16	2.1	16	94	5	57	12	50	0	37	1.41
35310930--35310969	14	2.5	17	73	23	50	20	55	12	12	1.69
35312997--35313044	24	2.0	24	95	0	87	33	6	10	50	1.62
35321913--35321948	17	2.2	17	90	5	56	44	8	0	47	1.33
35326460--35326523	15	4.5	14	80	7	58	25	23	25	26	2.00
35326471--35326512	15	2.9	15	89	3	59	26	23	21	28	1.99
35328432--35328470	15	2.6	15	88	8	53	25	10	28	35	1.89
35328538--35328620	16	5.4	16	74	7	64	20	18	38	22	1.93
35328579--35328622	15	2.8	16	79	3	54	25	20	34	20	1.97
35330114--35330146	16	2.0	17	88	5	50	33	3	3	60	1.27
35331088--35331150	30	2.1	29	85	2	81	33	7	1	57	1.37
35331139--35331229	10	9.0	10	69	17	55	53	1	5	39	1.31
35335216--35335371	79	2.0	77	89	2	240	28	14	8	47	1.75
35346966--35347069	52	2.0	52	100	0	208	55	9	5	28	1.55
35348411--35348436	11	2.4	11	100	0	52	0	7	0	92	0.39
35353971--35354125	43	3.7	43	76	10	167	28	27	19	25	1.99
35353971--35354079	41	2.6	43	84	5	134	29	25	19	25	1.98
35353971--35354126	84	1.9	84	85	10	221	28	27	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35355279--35355307	14	2.0	15	93	6	51	51	20	0	27	1.47
35361467--35361541	26	2.8	26	82	6	80	29	20	10	40	1.86
35372812--35372872	32	1.9	32	100	0	122	32	13	21	32	1.91
35376066--35376167	37	2.7	37	84	1	123	30	22	10	36	1.88
35377180--35377206	11	2.5	11	100	0	54	77	0	0	22	0.76
35377445--35377515	19	3.9	18	77	10	74	28	5	1	64	1.24
35377445--35377515	18	3.9	19	74	18	62	28	5	1	64	1.24
35377555--35377618	18	3.5	18	71	12	67	31	6	3	59	1.38
35377549--35377701	37	4.1	35	77	17	139	33	5	2	58	1.34
35377559--35377618	17	3.4	17	70	20	59	30	6	3	60	1.39
35377549--35377700	77	2.0	77	81	12	179	33	5	2	58	1.34
35377612--35377666	22	2.5	22	82	5	67	34	5	1	58	1.32
35377944--35377990	2	23.5	2	100	0	94	48	0	0	51	1.00
35378660--35378711	10	4.9	10	81	11	59	55	0	3	40	1.18
35378660--35378711	11	4.8	11	84	11	54	55	0	3	40	1.18
35378667--35378778	41	2.8	40	84	11	147	60	0	2	36	1.11
35378969--35379028	30	2.0	31	83	9	79	41	0	38	20	1.52
35385298--35385343	22	2.1	22	95	0	83	15	17	19	47	1.82
35391479--35391522	19	2.3	19	84	7	63	18	0	0	81	0.68
35402953--35403182	114	2.0	114	95	1	415	29	10	10	50	1.69
35403348--35403452	20	5.2	20	69	21	60	18	32	18	31	1.94
35403325--35403455	40	3.3	40	82	4	131	16	30	19	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35404302--35404376	33	2.3	33	100	0	150	17	10	26	45	1.81
35408241--35408533	67	4.4	65	79	4	253	36	16	23	23	1.94
35408241--35408533	134	2.2	134	83	1	354	36	16	23	23	1.94
35408241--35408574	134	2.5	134	81	2	321	36	16	23	23	1.94
35412157--35412274	62	1.9	60	86	6	166	47	4	2	45	1.35
35418502--35418546	24	1.9	23	81	4	54	46	11	17	24	1.81
35425756--35425799	21	2.1	21	82	0	52	29	4	4	61	1.36
35426006--35426047	22	1.9	22	85	9	59	50	16	2	30	1.58
35438923--35438966	2	22.0	2	100	0	88	50	0	0	50	1.00
35439693--35439748	28	2.0	28	82	0	67	33	17	26	21	1.96
35441569--35441605	18	2.0	19	89	5	58	27	5	5	62	1.39
35443043--35443269	43	5.3	43	80	3	226	25	29	18	25	1.98
35443043--35443281	86	2.8	86	82	3	252	26	29	17	26	1.98
35443109--35443281	85	2.0	84	84	3	222	27	28	16	27	1.97
35443537--35443620	43	2.0	43	82	0	105	42	11	13	32	1.80
35446086--35446123	3	12.7	3	100	0	76	31	0	0	68	0.90
35446820--35446872	21	2.6	21	84	3	72	33	0	41	24	1.55
35447848--35447888	21	2.0	21	85	4	57	39	36	0	24	1.56
35447699--35448305	311	2.0	302	89	5	931	41	28	2	27	1.71
35448122--35448167	7	6.4	7	80	5	56	34	45	2	17	1.61
35448122--35448160	15	2.7	15	88	4	53	35	43	2	17	1.63
35448186--35448234	14	3.4	14	83	5	62	38	34	0	26	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35448186--35448232	15	3.3	15	85	5	62	40	31	0	27	1.57
35448439--35448493	25	2.2	25	75	12	60	21	9	7	61	1.50
35448577--35448895	41	7.8	41	81	0	350	33	27	16	22	1.95
35448577--35448895	123	2.6	122	84	2	386	33	27	16	22	1.95
35448934--35449012	39	2.0	40	87	2	115	22	21	20	35	1.96
35452324--35452443	36	3.4	35	82	4	134	13	11	34	40	1.81
35453030--35453087	19	2.7	22	84	10	68	36	8	17	37	1.80
35453291--35453335	23	2.0	23	81	0	54	22	0	15	62	1.33
35453616--35453693	38	2.0	38	80	11	88	37	8	1	52	1.41
35453795--35453837	23	1.9	22	90	4	68	34	6	2	55	1.39
35462032--35462080	18	2.6	18	83	6	62	48	2	4	44	1.33
35466060--35466212	36	4.3	36	89	1	146	11	11	37	38	1.79
35466088--35466215	36	3.6	36	95	1	231	11	10	39	37	1.77
35481065--35481132	30	2.2	31	89	2	102	47	2	5	44	1.42
35495675--35496224	44	12.3	43	71	13	217	32	18	20	28	1.96
35495675--35496086	137	3.0	135	83	3	490	31	19	21	27	1.97
35495735--35496180	88	5.0	88	76	7	380	32	18	20	28	1.96
35495735--35496169	132	3.3	132	82	3	444	31	18	20	28	1.97
35501258--35501296	20	1.9	20	84	5	51	46	7	10	35	1.67
35510051--35510083	17	1.9	18	88	11	52	45	0	12	42	1.41
35511605--35511731	62	2.0	62	96	0	236	27	21	22	28	1.99
35513489--35513574	39	2.2	40	95	2	156	63	3	8	24	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35515431--35515464	15	2.3	15	94	0	59	64	17	0	17	1.29
35515471--35515508	13	2.8	14	80	19	53	65	7	5	21	1.38
35517455--35517580	63	2.0	63	98	0	243	30	18	7	42	1.79
35519824--35520221	195	2.0	197	93	3	674	35	20	3	40	1.70
35524190--35524221	2	16.0	2	93	0	55	46	0	3	50	1.17
35524355--35524497	76	1.9	78	86	2	209	37	3	18	41	1.67
35528957--35529017	28	2.1	30	82	11	74	22	0	18	59	1.38
35529916--35530088	45	3.9	44	78	6	147	43	13	21	21	1.87
35529925--35530088	44	3.7	44	79	7	154	42	14	20	22	1.88
35534759--35534788	14	2.2	13	94	5	51	33	26	0	40	1.57

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