genome.fa.s2.2.7.7.80.10.50.1000.115.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  115  of  206  ( 24623 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)
34293125--34293397	91	3.0	90	81	4	307	44	12	21	21	1.85
34296783--34296913	67	2.0	64	83	8	165	46	6	4	42	1.49
34301409--34301461	19	2.7	19	79	2	61	67	3	1	26	1.17
34301402--34301449	25	1.9	25	82	0	60	72	2	2	22	1.05
34302757--34302821	31	2.1	31	82	5	78	50	4	0	44	1.22
34303170--34303252	43	1.9	43	85	0	112	31	24	22	21	1.98
34304095--34304412	45	7.0	45	80	2	289	23	22	12	41	1.87
34310953--34311095	45	3.2	45	84	2	169	23	19	10	46	1.81
34311074--34311146	23	3.2	23	67	18	62	15	17	15	52	1.76
34310986--34311156	45	3.8	45	82	4	148	20	17	11	50	1.77
34314217--34314304	25	3.4	25	77	13	88	57	6	6	28	1.50
34318714--34318801	25	3.4	25	77	13	88	57	6	6	28	1.50
34320270--34320386	45	2.6	46	86	1	155	21	20	11	47	1.81
34329176--34329231	25	2.2	25	87	6	78	23	10	26	39	1.87
34330200--34330238	16	2.4	16	82	0	51	35	23	25	15	1.94
34331605--34331666	3	20.7	3	77	12	65	33	1	1	62	1.14
34331606--34331660	27	2.0	27	89	7	83	36	1	1	60	1.18
34337181--34337227	17	2.9	16	90	6	69	72	0	14	12	1.13
34338482--34338809	88	3.7	88	91	0	505	27	22	26	24	2.00
34338831--34339658	267	3.1	266	92	1	1343	26	19	27	26	1.99
34339529--34339768	100	2.4	100	87	2	322	28	21	24	25	1.99
34339582--34339763	50	3.6	50	73	5	161	28	23	24	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34340449--34340474	6	4.3	6	100	0	52	15	0	0	84	0.62
34340702--34340736	17	2.1	17	100	0	70	17	22	5	54	1.64
34341032--34341084	3	17.7	3	81	14	65	35	1	0	62	1.06
34341032--34341080	21	2.3	21	89	6	73	36	2	0	61	1.08
34349092--34349123	12	2.7	12	95	0	55	25	0	0	75	0.81
34354687--34354736	16	3.1	16	82	5	57	14	4	18	64	1.44
34361109--34361161	22	2.5	22	78	9	56	41	1	11	45	1.51
34365688--34365756	26	2.7	26	95	0	120	21	30	24	23	1.99
34378687--34378759	25	2.9	25	87	4	103	30	28	19	21	1.98
34378679--34378760	25	3.3	25	82	3	94	28	30	19	21	1.98
34378679--34378776	25	3.9	25	81	2	72	29	31	17	21	1.96
34378788--34378849	25	2.5	25	89	0	88	33	24	14	27	1.94
34378775--34378869	25	3.8	25	75	12	70	31	24	15	28	1.96
34379894--34379936	20	2.0	23	86	13	65	44	2	4	48	1.36
34379916--34380034	33	3.6	31	71	20	91	42	5	2	50	1.37
34379909--34380042	66	2.0	64	87	9	191	44	4	2	48	1.38
34380640--34380691	17	2.7	19	77	17	54	42	21	15	21	1.89
34381090--34381127	15	2.5	15	84	12	51	71	5	2	21	1.19
34390041--34390089	20	2.5	20	93	0	80	40	6	14	38	1.71
34391739--34391802	3	21.3	3	87	6	94	31	3	1	64	1.19
34391812--34391845	2	17.0	2	87	0	50	47	2	2	47	1.32
34392317--34392616	109	2.8	109	87	2	439	29	18	17	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34394084--34394143	25	2.4	25	81	10	77	28	23	21	26	1.99
34394086--34394227	49	2.9	49	84	3	187	30	22	21	24	1.99
34394092--34394223	25	5.3	25	75	13	112	31	21	22	24	1.99
34397908--34398023	61	1.9	61	82	3	144	20	11	25	42	1.85
34397925--34398041	61	1.9	61	79	10	132	23	12	23	40	1.89
34398092--34398167	30	2.5	30	84	0	98	17	15	27	39	1.90
34401775--34401923	61	2.5	61	86	3	205	18	13	27	40	1.88
34402801--34402860	25	2.3	26	80	5	68	15	8	10	66	1.43
34404502--34404539	19	2.0	19	100	0	76	36	0	5	57	1.21
34407882--34407938	2	28.5	2	89	7	89	49	0	3	47	1.18
34411256--34411311	20	2.8	20	75	15	55	28	1	1	67	1.10
34419196--34419225	12	2.5	12	94	0	51	20	30	36	13	1.90
34421328--34421356	14	2.0	15	93	6	51	44	0	0	55	0.99
34434255--34434352	37	2.7	36	77	17	96	39	4	2	54	1.31
34434303--34434355	20	2.8	19	78	18	58	39	1	1	56	1.21
34438278--34438329	26	2.0	26	88	7	79	32	7	17	42	1.77
34445398--34445516	50	2.4	50	83	7	143	31	31	11	26	1.92
34450230--34450355	50	2.5	50	86	8	168	25	30	16	27	1.97
34455195--34455436	41	5.9	41	90	0	376	21	22	27	28	1.99
34456059--34456092	14	2.4	14	90	9	52	26	2	41	29	1.70
34456045--34456591	289	1.9	288	92	4	915	27	2	28	42	1.67
34456556--34456594	15	2.7	15	92	4	62	28	0	33	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34456549--34456609	22	2.8	22	76	0	68	29	0	31	39	1.57
34460836--34461107	43	6.3	43	85	5	345	22	16	26	33	1.96
34460836--34461107	128	2.1	129	85	4	370	22	16	26	33	1.96
34466084--34466122	20	1.9	20	89	5	60	25	10	5	58	1.51
34471105--34471166	3	20.7	3	100	0	124	67	0	0	32	0.91
34471467--34471513	24	2.0	24	100	0	94	44	8	17	29	1.78
34473542--34473723	92	2.0	93	92	1	303	41	9	12	36	1.76
34476532--34476578	21	2.2	21	88	0	67	31	29	27	10	1.90
34476703--34476759	21	2.7	21	72	0	60	21	28	33	17	1.96
34484226--34484373	62	2.5	59	80	16	150	53	10	4	32	1.53
34486708--34486756	24	2.2	23	82	17	59	75	2	16	6	1.09
34488166--34488215	5	10.0	5	75	16	50	74	0	0	26	0.83
34488169--34488215	21	2.3	22	82	14	64	72	0	0	27	0.85
34489182--34489226	16	2.9	16	86	3	65	22	8	8	60	1.55
34489181--34489226	15	3.0	15	81	6	56	23	8	8	58	1.56
34493149--34493263	13	9.5	13	75	19	124	46	13	0	39	1.48
34493132--34493243	36	3.1	35	85	11	115	43	11	1	42	1.51
34493149--34493263	36	3.2	36	96	0	212	46	13	0	39	1.48
34493147--34493272	23	5.3	23	77	14	123	46	12	0	39	1.48
34494756--34494787	10	3.1	11	86	13	50	75	0	0	25	0.81
34501105--34501138	13	2.5	13	90	4	50	76	0	20	2	0.92
34501237--34501287	23	2.3	23	89	3	77	47	9	0	43	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34505525--34505549	8	3.1	8	100	0	50	60	0	0	40	0.97
34508669--34508693	11	2.3	11	100	0	50	52	0	8	40	1.31
34508593--34508693	52	1.9	52	86	7	143	57	0	3	38	1.17
34508614--34508718	53	2.0	54	80	12	119	58	0	4	37	1.20
34517519--34517552	17	2.0	17	94	0	59	50	0	0	50	1.00
34522604--34522819	100	2.1	101	87	0	308	31	13	24	30	1.94
34529476--34529508	17	1.9	17	93	0	57	75	0	0	24	0.80
34530064--34530141	33	2.4	32	81	10	86	33	17	23	25	1.96
34529927--34530186	101	2.6	101	85	1	335	30	16	25	27	1.97
34536278--34536319	20	2.1	20	100	0	84	59	4	9	26	1.48
34540596--34540638	11	3.8	11	81	3	50	39	0	0	60	0.97
34541130--34541255	30	4.2	29	78	6	119	33	23	3	39	1.71
34541130--34541255	59	2.1	60	82	4	148	33	23	3	39	1.71
34541769--34541852	4	21.5	4	77	16	79	78	0	21	0	0.75
34541769--34541860	32	2.8	33	85	8	109	79	0	19	1	0.80
34541772--34541860	22	4.3	22	71	25	77	79	0	19	1	0.79
34541763--34541847	40	2.1	40	83	12	104	76	0	23	0	0.79
34541769--34541848	11	7.0	11	82	16	76	78	0	21	0	0.75
34541769--34541859	11	8.2	10	76	13	65	79	0	19	1	0.80
34542172--34542213	19	2.2	19	87	8	59	78	0	21	0	0.75
34542175--34542216	14	3.0	14	80	13	50	71	0	28	0	0.86
34542308--34542337	15	1.9	16	93	6	53	33	0	6	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34542742--34542846	16	6.2	16	77	10	102	28	11	12	47	1.76
34542741--34542848	18	6.4	17	75	12	96	29	11	12	47	1.75
34543302--34544527	78	15.8	77	82	10	1106	35	20	16	27	1.94
34543302--34544527	157	7.9	153	80	11	1162	35	20	16	27	1.94
34545379--34545479	27	3.8	27	81	13	84	1	3	9	84	0.84
34545386--34545511	20	6.3	20	77	13	89	0	3	10	84	0.78
34545379--34545512	25	5.3	26	80	11	145	2	3	9	84	0.83
34545406--34545502	18	5.4	17	87	9	122	1	2	9	87	0.67
34545381--34545511	19	6.9	18	82	8	138	1	3	9	84	0.81
34545406--34545502	1	97.0	1	75	0	86	1	2	9	87	0.67

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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206