genome.fa.s5.2.7.7.80.10.50.1000.189.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  189  of  208  ( 24913 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)
57780471--57780615	4	36.0	4	74	21	101	0	28	0	71	0.87
57780492--57780566	23	3.3	22	77	22	84	0	26	0	73	0.84
57780462--57780614	40	4.0	40	77	14	153	0	28	0	71	0.87
57780485--57780610	36	3.4	36	84	8	139	0	28	0	71	0.86
57780495--57780624	32	4.1	31	79	12	115	0	31	0	68	0.90
57780661--57780735	27	2.7	27	79	4	87	16	32	25	26	1.96
57782131--57782173	22	2.0	22	86	4	61	48	0	4	46	1.22
57786142--57786206	22	3.0	22	77	4	60	43	18	21	16	1.88
57786198--57786400	32	6.4	32	80	4	214	39	19	20	21	1.93
57786407--57786456	26	1.9	26	83	0	64	32	24	26	18	1.97
57786444--57786500	27	2.1	27	84	12	73	31	22	24	21	1.98
57786572--57786653	24	3.5	23	81	5	92	46	25	7	20	1.76
57786693--57786870	27	6.6	27	84	0	212	27	20	15	35	1.93
57789202--57789249	25	1.9	25	91	8	80	20	25	25	29	1.99
57793192--57793397	101	2.0	101	99	0	403	32	15	11	41	1.82
57793754--57793818	34	1.9	34	84	6	87	21	9	16	52	1.72
57801419--57801466	20	2.5	21	75	25	52	50	2	0	47	1.12
57804749--57804787	16	2.5	15	84	12	51	43	46	7	2	1.46
57804840--57804875	13	2.8	13	95	0	63	22	38	27	11	1.88
57804911--57804949	20	2.0	20	84	0	51	15	56	12	15	1.68
57806633--57807063	109	4.0	109	91	0	634	30	16	17	35	1.92
57814873--57814983	54	2.1	54	92	0	186	40	14	15	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57818691--57819084	46	8.6	46	91	0	590	26	16	25	30	1.97
57819164--57819265	44	2.3	44	98	0	195	27	21	24	26	1.99
57819711--57819749	20	2.0	20	84	0	51	17	56	10	15	1.66
57820722--57820746	12	2.1	12	100	0	50	24	0	8	68	1.16
57821409--57821839	109	4.0	109	92	0	670	30	16	17	35	1.92
57825758--57825782	2	12.5	2	100	0	50	48	0	0	52	1.00
57826178--57826209	3	10.7	3	93	0	55	0	31	3	65	1.08
57832277--57832567	46	6.6	46	86	10	410	33	15	22	28	1.94
57835456--57835496	19	2.2	19	86	8	57	65	7	19	7	1.41
57835974--57836057	21	4.0	21	82	4	98	15	23	25	35	1.94
57842713--57842752	13	3.1	13	81	0	53	25	0	5	70	1.08
57849954--57850086	43	3.1	43	81	4	162	42	18	17	21	1.90
57851115--57851203	11	7.4	12	73	12	51	37	2	3	57	1.28
57851141--57851191	24	2.1	25	85	3	68	41	0	3	54	1.19
57851553--57851589	18	2.1	18	100	0	74	64	0	0	35	0.94
57866034--57866058	6	4.2	6	100	0	50	48	0	52	0	1.00
57870091--57870132	22	1.9	22	90	0	66	19	26	14	40	1.89
57875655--57875770	60	1.9	60	82	0	142	37	4	15	42	1.67
57880806--57880971	82	2.0	82	94	0	287	29	11	14	44	1.80
57882846--57882920	28	2.7	28	84	10	91	52	2	4	41	1.34
57884783--57884837	29	2.0	28	89	7	85	40	5	9	45	1.59
57889215--57889656	54	8.2	54	79	3	437	28	17	15	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57889944--57889976	17	2.0	17	88	5	50	42	12	15	30	1.83
57890622--57890655	5	6.6	5	86	6	50	38	2	20	38	1.68
57897879--57897942	25	2.6	25	92	0	101	21	28	18	31	1.97
57897873--57897974	25	4.0	26	78	8	95	24	25	18	31	1.98
57906871--57907053	43	4.2	44	85	6	225	31	19	24	25	1.98
57907492--57907539	21	2.3	21	88	0	69	6	39	18	35	1.76
57910251--57910488	113	2.1	113	96	0	431	30	16	26	26	1.97
57910286--57910523	113	2.1	112	87	3	334	34	16	25	23	1.95
57911226--57911277	25	2.0	26	85	3	70	26	5	21	46	1.74
57913218--57913268	24	2.1	24	96	0	93	21	7	27	43	1.80
57915141--57915725	9	64.8	9	75	7	515	49	17	2	30	1.59
57915213--57915261	23	2.2	22	92	3	80	51	18	0	30	1.47
57915141--57915725	91	6.6	91	90	5	930	49	17	2	30	1.59
57915567--57915746	91	2.0	91	86	2	254	50	16	2	31	1.58
57921377--57921445	21	3.3	21	83	0	84	36	18	42	2	1.66
57921882--57922173	42	7.0	41	87	5	347	25	21	20	32	1.98
57921880--57922192	84	3.7	84	85	6	384	26	21	20	31	1.98
57921881--57922174	85	3.5	85	85	5	384	25	21	20	32	1.97
57921880--57922192	168	1.8	170	84	7	431	26	21	20	31	1.98
57931646--57931678	2	16.5	2	100	0	66	48	0	0	51	1.00
57949240--57949294	3	18.3	3	100	0	110	67	0	32	0	0.91
57955225--57955261	19	1.9	19	89	10	58	18	2	2	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57955517--57955561	24	1.9	23	90	4	72	31	8	13	46	1.74
57956113--57956163	17	2.9	17	88	2	66	60	1	1	35	1.19
57956111--57956165	8	6.5	8	82	12	65	58	1	1	38	1.20
57957797--57957929	42	3.2	42	83	0	158	15	24	17	43	1.87
57957794--57957908	21	5.5	21	68	0	86	15	24	17	42	1.88
57961656--57961702	20	2.3	20	78	7	51	48	2	10	38	1.50
57962230--57962371	74	1.9	74	82	2	178	18	23	18	40	1.91
57962290--57962407	25	4.8	24	78	12	98	18	25	21	34	1.96
57965792--57965922	62	2.1	63	81	4	149	21	31	22	24	1.98
57971156--57971389	90	2.6	88	79	5	265	33	7	17	41	1.78
57971146--57971357	30	7.1	30	84	6	261	33	7	17	42	1.76
57978304--57978569	30	8.9	30	83	3	313	33	7	15	43	1.73
57978302--57978569	90	3.0	90	85	4	346	33	7	14	44	1.74
57978700--57978831	43	3.1	42	78	13	137	29	15	27	27	1.96
57978715--57978829	43	2.8	41	85	5	142	29	16	27	26	1.97
57981836--57981883	10	4.9	10	76	2	53	66	2	6	25	1.26
57984452--57984533	24	3.4	23	74	15	67	34	19	29	17	1.94
57987954--57987996	18	2.4	17	85	11	59	46	0	11	41	1.40
57989103--57989339	126	1.9	126	95	0	429	38	14	8	37	1.78
57993488--57993518	15	2.1	15	100	0	62	22	38	12	25	1.90
57994445--57994478	3	11.3	3	100	0	68	67	0	32	0	0.91
57996502--57996553	18	2.9	18	72	16	54	63	0	7	28	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57998248--57999138	133	6.7	132	89	2	1127	27	24	19	29	1.98
57998248--57999141	399	2.2	397	85	1	1252	27	24	19	29	1.98
58004035--58004080	19	2.4	19	85	7	58	47	10	19	21	1.80
58004236--58004319	28	3.0	28	100	0	168	28	25	14	32	1.94
58008332--58008438	56	1.9	56	92	0	178	40	7	21	30	1.81
58016393--58016417	7	3.6	7	100	0	50	12	16	0	72	1.13
58016963--58017050	44	2.0	44	88	0	131	26	25	11	37	1.89
58020600--58020674	12	6.4	11	80	11	53	20	4	2	73	1.12
58022099--58022126	2	14.0	2	100	0	56	50	50	0	0	1.00
58023039--58023082	23	1.9	22	82	17	54	38	22	0	38	1.55
58023181--58023256	23	3.3	23	94	0	134	32	26	19	21	1.97
58025033--58025082	23	2.2	23	82	10	59	66	12	14	8	1.45
58027067--58027343	46	6.0	46	94	0	473	29	27	8	35	1.86
58039854--58040191	58	6.1	58	83	9	438	33	14	23	28	1.94
58039905--58040191	51	5.4	50	85	6	315	33	14	23	28	1.94
58040008--58040047	7	5.7	7	93	0	62	42	5	27	25	1.75
58040634--58040682	23	2.1	23	96	0	89	40	0	18	40	1.50
58041010--58041048	12	3.2	12	89	7	53	17	17	7	56	1.64
58041009--58041047	20	2.0	20	89	0	60	15	17	7	58	1.59
58041239--58041426	50	3.8	50	76	2	164	22	27	20	29	1.98
58041579--58041622	21	2.1	21	83	8	54	52	11	4	31	1.57
58042574--58042640	30	2.2	30	97	2	125	56	11	5	25	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58048849--58049036	50	3.8	50	75	2	155	22	27	21	28	1.99
58056256--58056327	22	3.2	24	62	22	64	26	16	27	29	1.97
58056249--58056336	44	2.0	44	97	0	167	25	17	27	30	1.97
58056929--58056996	21	3.4	20	76	10	68	2	30	16	50	1.60
58056929--58057008	19	3.9	21	75	9	76	2	30	15	52	1.55
58056933--58057012	40	2.0	40	82	0	97	2	28	16	52	1.56
58059344--58059437	6	15.2	6	81	12	102	35	1	44	19	1.58
58059344--58059437	13	7.1	13	78	16	104	35	1	44	19	1.58
58059512--58059542	7	4.6	7	92	8	55	41	0	41	16	1.48
58059510--58059575	7	10.5	6	76	12	53	36	1	43	18	1.59

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   207   208