genome.fa.s2.2.7.7.80.10.50.1000.21.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  21  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)
6243309--6243363	13	3.9	14	88	11	85	72	0	12	14	1.12
6247878--6247902	8	3.1	8	100	0	50	52	0	0	48	1.00
6248994--6249029	16	2.3	16	90	4	56	33	5	16	44	1.71
6249162--6249197	17	2.1	17	89	0	54	47	13	5	33	1.67
6251213--6251264	28	1.9	27	84	7	70	50	17	11	21	1.77
6254061--6254100	21	1.9	21	89	0	62	17	7	22	52	1.69
6254069--6254110	21	2.0	21	81	9	50	23	7	21	47	1.75
6255017--6255051	18	1.9	18	100	0	70	11	28	0	60	1.32
6256312--6256353	7	6.0	7	100	0	84	42	14	14	28	1.84
6258043--6258236	61	3.2	61	70	11	182	43	2	5	47	1.40
6258001--6258267	120	2.2	120	93	0	444	43	2	4	49	1.36
6258211--6258245	18	2.0	17	88	5	52	45	0	0	54	0.99
6258481--6258532	16	3.2	16	94	0	86	34	36	0	28	1.58
6282260--6282300	19	2.2	19	86	4	57	68	0	2	29	1.03
6282290--6282328	7	5.7	7	84	6	53	74	0	2	23	0.94
6300598--6300652	17	3.3	17	82	10	60	30	9	0	60	1.28
6309811--6309848	20	1.9	20	88	0	58	44	13	2	39	1.57
6311138--6311195	21	2.8	21	84	2	73	17	24	15	43	1.87
6313078--6313134	29	2.0	29	83	13	73	47	22	1	28	1.61
6321458--6321496	21	2.0	21	85	10	55	20	46	12	20	1.83
6326241--6326483	50	4.8	50	81	6	222	23	27	22	26	2.00
6333599--6333629	15	2.1	15	100	0	62	38	6	32	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6341900--6342154	129	2.0	128	96	0	465	41	16	12	28	1.86
6345187--6345238	2	26.0	2	96	0	95	48	0	51	0	1.00
6352814--6353224	109	3.8	109	88	3	632	33	18	17	30	1.94
6352814--6353230	217	1.9	218	92	0	701	33	18	16	31	1.93
6353832--6353868	2	19.0	2	88	5	58	51	2	0	45	1.15
6353832--6353869	19	2.0	19	94	0	67	52	2	0	44	1.14
6353833--6353866	17	2.0	17	94	0	59	52	2	0	44	1.16
6354629--6354672	16	2.6	17	82	13	56	81	0	11	6	0.86
6354631--6354671	14	2.8	15	81	7	57	85	0	9	4	0.73
6355314--6355655	44	7.8	43	73	11	187	30	21	16	31	1.96
6355655--6356030	84	4.4	84	85	3	468	23	22	22	31	1.98
6355655--6355991	44	8.0	42	79	11	291	22	23	22	31	1.98
6356049--6356342	86	3.4	86	95	0	525	22	24	23	29	1.99
6356196--6356332	43	3.2	43	65	20	113	24	25	24	25	2.00
6356213--6356345	43	3.1	43	66	15	121	22	24	23	30	1.99
6359988--6360051	30	2.2	29	81	10	76	29	28	6	35	1.82
6359995--6360051	30	1.9	30	85	3	80	29	24	7	38	1.82
6361458--6361505	6	7.5	6	79	11	51	4	20	0	75	0.97
6361458--6361505	13	3.8	12	81	10	51	4	20	0	75	0.97
6361458--6361505	19	2.5	19	80	13	53	4	20	0	75	0.97
6364541--6364579	20	2.0	20	100	0	78	15	20	15	48	1.81
6364928--6365338	109	3.8	109	88	3	632	33	18	17	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6364928--6365344	217	1.9	218	92	0	701	33	18	16	31	1.93
6365392--6365422	15	2.1	15	100	0	62	67	6	6	19	1.35
6365394--6365428	15	2.3	15	90	5	52	65	8	8	17	1.44
6366736--6366777	14	3.1	14	82	3	50	85	0	9	4	0.72
6366736--6366772	18	2.1	18	94	0	65	86	0	10	2	0.67
6367945--6368029	42	2.0	42	95	2	154	37	4	4	52	1.43
6367945--6368045	42	2.4	42	90	6	143	37	5	3	52	1.45
6368955--6369000	15	2.9	16	83	6	67	69	2	8	19	1.25
6373554--6373588	14	2.5	14	90	0	52	17	2	57	22	1.53
6376837--6376877	20	2.0	20	100	0	82	24	4	34	36	1.77
6378756--6378996	50	4.8	50	89	0	356	25	21	31	21	1.98
6380726--6380793	27	2.5	27	90	0	109	32	13	26	27	1.93
6391545--6391572	5	5.6	5	100	0	56	39	21	0	39	1.54
6397354--6397495	27	5.3	27	90	2	207	16	15	22	45	1.84
6397354--6397495	53	2.7	53	88	2	214	16	15	22	45	1.84
6399834--6399858	8	3.1	8	100	0	50	40	12	24	24	1.88
6400162--6400187	3	8.7	3	100	0	52	30	0	0	69	0.89
6406122--6406260	69	2.0	69	88	0	206	25	25	15	33	1.95
6406140--6406298	69	2.3	69	80	0	174	25	24	15	34	1.94
6408152--6408213	32	1.9	32	93	0	106	35	12	17	33	1.88
6409568--6409619	27	1.9	27	88	0	77	36	17	15	30	1.91
6409576--6409629	27	2.0	27	85	0	72	38	11	16	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6415267--6415525	27	9.6	26	82	6	259	40	21	19	18	1.92
6415287--6415524	54	4.4	54	83	3	309	41	20	20	17	1.91
6415267--6415528	81	3.2	81	84	3	341	40	20	19	18	1.91
6415823--6415908	28	3.0	28	80	6	100	27	24	19	27	1.99
6417058--6417282	43	5.3	42	86	5	292	25	28	19	27	1.98
6417631--6417680	21	2.4	21	89	0	73	2	48	16	34	1.57
6418044--6418069	8	3.2	8	100	0	52	46	26	26	0	1.53
6421101--6421146	2	23.5	2	91	4	76	47	2	0	50	1.13
6421989--6422230	41	5.9	40	87	2	304	29	27	22	20	1.99
6421989--6422225	123	1.9	123	87	3	352	29	26	22	21	1.99
6423391--6423654	138	1.9	139	81	9	326	24	23	15	36	1.94
6423435--6423654	69	3.2	68	80	5	210	24	24	15	35	1.94
6428406--6428655	29	8.6	29	76	6	229	37	12	25	25	1.90
6428440--6428684	116	2.1	116	84	1	321	38	12	25	23	1.90
6428406--6428741	145	2.3	145	85	0	447	37	12	25	24	1.91
6428527--6428740	58	3.7	57	76	9	168	38	13	25	22	1.90
6428495--6428757	29	9.0	29	79	2	145	38	15	25	21	1.92
6428637--6428757	59	2.1	58	87	1	170	37	16	25	20	1.93
6432706--6432793	40	2.2	39	95	2	158	25	10	25	39	1.87
6444778--6444819	22	2.0	21	90	4	66	33	26	7	33	1.83
6447302--6447337	13	2.8	13	91	8	56	33	0	22	44	1.53
6450584--6450623	14	2.9	14	82	17	57	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6455690--6455733	22	2.0	22	90	0	70	34	29	6	29	1.83
6458075--6458128	17	3.5	17	66	23	55	44	16	20	18	1.87
6458076--6458135	29	2.1	29	96	0	111	46	15	16	21	1.83
6459094--6459882	158	5.0	158	90	1	1215	23	16	16	43	1.88
6461772--6461809	18	2.1	18	90	9	60	55	0	15	28	1.41
6468932--6468967	18	2.1	18	89	5	56	27	13	19	38	1.90
6470602--6470655	21	2.7	20	82	5	63	44	12	12	29	1.80
6477238--6477294	26	2.1	27	87	9	82	26	24	15	33	1.95
6481077--6481179	35	2.9	36	78	5	111	43	17	15	23	1.87
6484079--6484108	8	3.8	8	95	0	51	30	10	6	53	1.60
6487022--6487091	33	2.2	30	80	9	77	32	12	11	42	1.79
6487040--6487091	15	3.3	15	75	5	50	32	15	9	42	1.79
6488344--6488439	35	2.7	35	85	0	120	35	14	19	30	1.92
6489452--6489515	32	2.0	32	87	0	92	50	6	32	10	1.63
6493230--6493277	24	2.0	24	100	0	96	20	41	16	20	1.90
6494914--6494959	22	2.2	21	84	7	58	52	2	15	30	1.55
6500004--6500035	9	3.6	9	95	0	55	50	0	3	46	1.17
6501499--6501623	58	2.1	60	92	4	211	36	22	7	33	1.82
6506879--6506930	23	2.3	23	80	3	61	36	17	1	44	1.60
6517894--6518052	80	2.0	82	97	2	304	48	16	11	23	1.79
6527161--6527227	35	1.9	34	84	3	89	23	5	20	49	1.71
6529731--6529788	4	15.2	4	73	22	54	74	0	25	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6529713--6529787	29	2.4	29	85	12	89	73	4	22	0	1.00
6529732--6529787	17	3.1	17	87	10	67	76	0	23	0	0.78
6530668--6530806	40	3.5	39	76	8	122	27	18	22	31	1.97
6531890--6531924	11	3.2	11	87	0	52	48	5	11	34	1.63
6532022--6532155	46	3.0	44	68	8	108	30	10	14	44	1.79
6532024--6532162	44	3.1	44	69	8	118	31	10	15	43	1.79
6532022--6532340	90	3.5	90	89	0	449	30	8	17	43	1.78
6534334--6534439	31	3.4	31	71	21	103	42	16	11	29	1.83
6534318--6534445	63	2.0	63	93	0	220	43	16	9	30	1.79
6534604--6534702	41	2.4	41	84	3	119	31	25	18	25	1.97

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