genome.fa.s2.2.7.7.80.10.50.1000.38.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  38  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)
10928058--10928150	21	4.3	21	79	6	96	40	19	37	2	1.64
10928090--10928159	12	6.1	12	81	9	83	40	17	38	4	1.69
10928627--10928982	85	4.2	84	84	4	428	25	20	20	33	1.97
10928627--10928982	43	8.3	42	85	4	419	25	20	20	33	1.97
10936139--10936181	2	21.5	2	95	0	77	48	51	0	0	1.00
10938834--10938906	34	2.2	34	87	4	105	13	28	0	57	1.37
10944970--10945122	22	7.0	22	90	0	225	26	26	14	32	1.94
10945302--10945357	2	28.0	2	100	0	112	50	0	0	50	1.00
10945979--10946029	25	2.0	26	85	11	70	27	21	29	21	1.99
10946118--10946195	25	3.1	25	79	3	86	35	17	24	21	1.95
10960912--10960952	21	2.0	21	85	0	55	41	9	19	29	1.83
10961482--10961549	28	2.4	28	82	0	82	35	22	25	17	1.95
10965090--10965123	6	5.3	6	86	13	50	44	50	5	0	1.26
10965090--10965123	13	2.7	12	83	16	50	44	50	5	0	1.26
10965255--10965308	26	2.1	25	83	10	65	68	0	1	29	1.00
10977629--10977663	18	1.9	18	100	0	70	11	28	0	60	1.32
10978072--10978265	61	3.2	61	71	11	191	43	2	5	48	1.38
10978043--10978296	120	2.1	120	93	0	427	43	1	5	49	1.36
10978240--10978274	18	2.0	17	88	5	52	45	0	0	54	0.99
10978438--10978528	45	2.0	45	85	2	121	37	28	6	27	1.82
10978509--10978577	16	4.2	16	96	3	129	37	37	0	24	1.56
10978509--10978577	33	2.1	32	97	2	129	37	37	0	24	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10979910--10979959	26	1.9	26	92	8	84	70	2	2	26	1.09
10979941--10980006	19	3.5	19	69	17	57	59	0	3	37	1.13
10980275--10980410	9	15.3	9	72	14	70	30	2	0	66	1.12
10980300--10980370	20	3.7	20	80	12	85	28	4	0	67	1.09
10980269--10980419	19	8.4	19	75	19	78	29	2	1	66	1.13
10980317--10980428	49	2.3	47	82	8	136	26	1	1	69	1.08
10982547--10982637	30	3.0	30	95	0	155	43	16	3	36	1.64
10984411--10984695	50	5.6	50	81	3	286	27	20	28	23	1.99
10991101--10991125	12	2.1	12	100	0	50	40	0	8	52	1.31
11006120--11006176	30	1.9	30	82	13	73	29	7	24	38	1.82
11007728--11007782	21	2.6	21	94	0	92	32	9	29	29	1.88
11010852--11010925	24	3.1	24	84	3	87	13	27	21	37	1.91
11010762--11010933	24	7.0	24	73	12	82	15	24	22	38	1.92
11012237--11012281	3	15.0	3	100	0	90	66	0	0	33	0.92
11012562--11012588	2	13.5	2	100	0	54	51	0	0	48	1.00
11012617--11012693	37	2.1	38	83	9	97	53	0	7	38	1.30
11012666--11012727	34	1.9	30	84	12	79	43	4	11	40	1.62
11013228--11013274	23	2.0	24	87	4	69	38	17	6	38	1.75
11013251--11013305	19	2.7	21	88	11	96	36	14	10	38	1.81
11017211--11017244	14	2.4	14	95	5	59	44	0	8	47	1.34
11018749--11018781	17	2.0	17	88	5	50	57	3	0	39	1.14
11019110--11019242	40	3.3	40	77	8	121	35	20	22	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11019662--11019695	15	2.2	16	94	5	61	20	0	32	47	1.51
11019779--11019842	33	2.0	32	81	3	74	17	1	46	34	1.57
11019812--11019863	21	2.4	21	87	9	70	19	0	46	34	1.50
11020615--11020653	19	2.1	18	85	4	51	76	2	5	15	1.06
11021839--11021873	16	2.2	16	94	0	61	14	51	5	28	1.65
11024350--11024514	66	2.5	65	84	4	206	40	18	27	13	1.88
11024499--11024548	21	2.4	21	86	6	66	32	18	40	10	1.83
11024511--11024602	21	4.4	21	83	0	103	34	16	42	6	1.74
11024906--11025200	43	6.9	42	76	8	175	24	15	29	30	1.96
11024906--11025208	86	3.5	86	86	2	322	23	16	29	30	1.96
11024955--11025220	86	3.1	86	87	3	356	22	16	30	30	1.96
11024948--11025366	43	9.7	43	73	5	283	23	20	28	28	1.99
11024968--11025220	87	2.9	86	87	2	346	22	17	30	29	1.97
11029348--11029382	15	2.4	14	90	9	52	42	0	11	45	1.40
11031961--11032008	6	7.8	6	84	13	53	20	2	0	77	0.88
11032808--11032838	3	10.3	3	92	0	53	32	0	0	67	0.91
11035231--11035546	125	2.5	125	84	2	411	28	16	24	31	1.97
11038725--11038827	15	7.1	15	72	13	81	24	0	28	47	1.52
11038732--11038798	14	4.6	15	83	3	84	26	0	25	47	1.52
11038725--11038798	29	2.6	29	86	4	96	27	0	27	45	1.54
11038753--11038902	65	2.3	64	81	6	178	20	0	27	51	1.52
11038765--11038907	22	6.6	22	79	7	132	19	0	27	51	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11038789--11039001	118	1.8	117	84	5	295	19	1	27	51	1.57
11038927--11039009	21	3.9	21	75	1	76	19	3	27	49	1.65
11038789--11039049	118	2.2	116	79	13	273	20	1	27	50	1.57
11039594--11039631	18	2.1	18	90	0	58	42	7	28	21	1.81
11041535--11041578	11	3.8	12	80	19	58	43	0	31	25	1.55
11042617--11042652	15	2.4	15	90	0	54	5	36	5	52	1.48
11047307--11047347	17	2.6	16	82	17	50	60	4	0	34	1.18
11047307--11047349	14	3.0	14	86	3	59	62	4	0	32	1.15
11048779--11048819	21	1.9	22	90	5	66	7	2	12	78	1.06
11049436--11049617	87	2.1	87	92	0	301	23	25	23	28	1.99
11051196--11051230	18	1.9	18	100	0	70	31	28	17	22	1.96
11055956--11055996	17	2.6	16	82	17	50	60	4	0	34	1.18
11055956--11055998	14	3.0	14	86	3	59	62	4	0	32	1.15
11057426--11057475	24	2.0	26	85	14	70	10	4	10	76	1.15
11060273--11060312	13	2.9	14	85	11	55	30	37	22	10	1.87
11060375--11060424	21	2.4	21	90	3	75	24	32	32	12	1.91
11068561--11068935	123	3.0	121	89	4	552	29	15	22	32	1.95
11070173--11070216	21	2.1	21	100	0	88	31	27	15	25	1.96
11072169--11072728	23	25.2	22	76	15	407	26	0	26	46	1.58
11072205--11072347	21	6.8	21	82	10	123	27	0	28	42	1.61
11072231--11072728	67	7.5	64	80	12	401	26	0	26	46	1.56
11072550--11072607	21	2.8	21	92	5	91	18	0	37	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11072169--11072728	216	2.5	223	86	7	709	26	0	26	46	1.58
11072759--11072795	9	4.2	9	93	3	58	59	8	0	32	1.27
11072794--11072939	25	6.1	25	77	9	160	45	11	0	43	1.40
11073295--11073334	18	2.2	18	95	0	71	40	7	30	22	1.81
11073985--11074009	7	3.6	7	100	0	50	60	12	0	28	1.32
11075149--11075259	53	2.1	53	85	3	145	45	1	24	27	1.63
11075741--11075778	16	2.2	18	90	9	62	42	0	13	44	1.43
11075754--11075787	16	2.1	16	88	0	50	50	2	8	38	1.49
11084313--11084373	20	3.1	19	81	11	61	54	1	1	42	1.20
11084394--11084428	18	2.0	18	94	5	63	22	0	0	77	0.78
11084826--11084869	2	22.0	2	100	0	88	0	50	0	50	1.00
11085740--11085808	31	2.2	33	84	5	88	43	14	14	27	1.84
11091944--11091986	22	2.0	22	85	0	59	46	2	2	48	1.27
11093264--11093313	20	2.5	20	84	12	59	36	12	2	50	1.51
11095465--11095499	18	1.9	18	88	0	52	54	8	2	34	1.46
11104369--11104409	15	2.7	15	84	0	64	39	0	12	48	1.41
11114840--11114889	24	2.1	23	82	10	57	36	2	4	58	1.29
11114847--11114930	40	2.1	39	80	12	91	40	2	3	53	1.31
11122696--11122737	20	2.1	20	86	0	57	47	0	7	45	1.30
11125076--11125191	43	2.7	43	75	12	130	23	19	28	28	1.98
11126076--11126114	2	19.5	2	89	0	60	51	2	0	46	1.14
11126127--11126324	23	8.5	23	73	3	126	24	17	17	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11126113--11126234	24	5.2	24	74	4	131	25	18	14	41	1.88
11126113--11126252	47	3.0	47	95	0	253	24	17	15	42	1.88
11126113--11126296	94	2.0	94	85	2	253	24	16	17	41	1.90
11126197--11126396	70	2.8	71	78	10	205	27	14	19	39	1.90
11131655--11131920	103	2.6	103	89	3	390	30	30	19	19	1.97
11137650--11137682	16	2.1	16	100	0	66	36	6	39	18	1.75
11137655--11137711	8	7.2	8	75	16	57	33	10	35	21	1.87
11140853--11141501	44	14.8	44	64	15	216	28	19	26	25	1.99
11140741--11141487	132	5.7	132	94	0	1287	29	19	26	24	1.99
11146798--11146850	2	26.0	2	96	3	97	49	1	0	49	1.12

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