genome.fa.s2.2.7.7.80.10.50.1000.144.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  144  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)
44053020--44053478	181	2.5	180	85	3	598	29	21	18	30	1.97
44053114--44053421	96	3.3	92	72	13	285	31	21	17	29	1.96
44052987--44053464	44	10.6	43	69	14	225	30	21	18	29	1.97
44053170--44053464	89	3.3	88	73	13	276	31	21	17	29	1.96
44054350--44054403	5	10.8	5	78	21	60	0	16	0	83	0.65
44054348--44054405	21	2.6	22	82	17	75	0	15	0	84	0.62
44054346--44054404	16	3.9	16	85	14	81	0	16	0	83	0.66
44054346--44054405	27	2.2	29	88	11	92	0	16	0	83	0.65
44054348--44054410	22	2.9	21	81	9	72	1	14	0	84	0.71
44054491--44054523	14	2.3	15	89	5	50	24	33	15	27	1.95
44059664--44059912	125	2.0	125	91	0	408	29	16	22	31	1.96
44060187--44060424	41	5.8	41	89	1	298	22	18	29	28	1.97
44060187--44060424	123	1.9	124	85	4	329	22	18	29	28	1.97
44062256--44062280	13	1.9	13	100	0	50	40	0	52	8	1.31
44063487--44063551	32	2.0	33	93	3	114	12	3	15	69	1.31
44065963--44066192	86	2.7	85	81	9	247	22	15	30	31	1.95
44066028--44066187	43	3.7	43	84	5	200	20	18	32	29	1.96
44067207--44067390	25	7.9	25	72	19	173	45	14	0	40	1.45
44067207--44067434	69	3.3	69	95	1	395	45	13	0	41	1.44
44069844--44069907	11	5.7	11	73	12	51	46	0	26	26	1.53
44069844--44069907	22	2.8	23	81	11	71	46	0	26	26	1.53
44070314--44070415	25	4.2	24	73	10	84	67	6	1	23	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44070297--44070416	25	4.9	25	67	13	70	65	5	2	26	1.28
44070378--44070456	37	2.1	38	86	11	110	67	5	0	27	1.12
44070362--44070455	38	2.4	37	86	10	118	68	5	0	26	1.11
44070401--44070556	23	6.3	23	76	14	109	62	3	3	31	1.27
44070433--44070553	26	4.8	26	81	8	112	59	2	4	33	1.30
44070415--44070568	26	6.2	25	76	8	100	61	3	3	31	1.30
44071303--44071354	16	3.1	16	76	17	52	80	1	5	11	0.96
44091547--44091674	29	4.4	29	83	1	141	37	18	20	23	1.94
44091523--44091674	58	2.6	58	85	1	180	38	19	19	23	1.94
44091523--44091706	58	3.2	57	80	6	176	37	20	17	23	1.94
44091523--44091715	29	6.7	29	73	12	114	36	20	17	25	1.94
44098151--44098189	17	2.2	17	86	4	51	46	0	15	38	1.46
44102203--44102505	43	7.1	43	81	7	323	28	31	18	22	1.97
44102203--44102505	128	2.4	126	82	4	365	28	31	18	22	1.97
44104543--44104585	17	2.5	17	96	3	77	37	4	4	53	1.43
44108274--44108300	14	1.9	14	100	0	54	40	37	0	22	1.54
44108764--44108919	41	3.8	41	91	0	249	28	28	24	18	1.98
44108968--44109089	40	3.1	39	79	3	111	26	19	17	36	1.94
44109640--44109687	23	2.1	23	100	0	96	41	8	29	20	1.81
44115967--44116019	27	2.0	27	85	7	72	26	26	13	33	1.93
44117956--44117989	17	2.0	17	88	0	50	70	0	29	0	0.87
44118341--44118459	28	4.3	28	78	5	134	28	20	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44118341--44118459	55	2.1	56	84	4	152	28	20	20	31	1.97
44120244--44120286	20	2.2	20	83	8	52	39	23	25	11	1.88
44127448--44127478	12	2.6	12	94	0	53	29	12	22	35	1.91
44131754--44131905	76	2.0	76	83	2	189	15	16	27	40	1.88
44131754--44131905	38	4.0	38	84	0	169	15	16	27	40	1.88
44134209--44134368	79	2.0	79	98	0	311	36	18	13	32	1.89
44135134--44135163	15	2.0	15	93	0	51	36	0	0	63	0.95
44135190--44135250	30	2.0	32	87	6	90	45	6	1	45	1.39
44145574--44145609	19	1.9	19	88	5	56	58	0	2	38	1.13
44148989--44149096	9	11.4	9	68	19	60	55	1	0	41	1.17
44148989--44149057	19	3.6	19	73	11	52	57	1	0	40	1.07
44149009--44149057	20	2.5	20	87	9	66	59	0	0	40	0.98
44151394--44151534	43	3.3	43	74	9	117	26	14	24	34	1.94
44151448--44151546	42	2.3	42	78	1	117	29	15	21	34	1.94
44159518--44159568	20	2.7	20	85	14	72	23	15	17	43	1.88
44163428--44163497	28	2.5	27	75	11	70	28	18	27	25	1.98
44163678--44163880	32	6.4	32	81	6	234	38	19	20	21	1.93
44163678--44163880	64	3.2	65	86	4	263	38	19	20	21	1.93
44164052--44164110	24	2.5	23	83	8	82	45	22	8	23	1.79
44164150--44164543	27	14.6	27	84	0	457	24	20	19	35	1.96
44176115--44176174	28	2.1	28	93	0	102	33	5	8	53	1.53
44176115--44176163	14	3.5	14	83	10	73	32	6	6	55	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44180171--44180206	18	2.1	18	89	5	56	61	2	5	30	1.33
44180463--44180507	2	22.5	2	95	0	81	51	0	2	46	1.13
44183665--44183763	52	1.9	51	87	6	146	37	21	20	21	1.95
44183689--44183770	24	3.2	24	69	23	60	39	19	21	19	1.93
44185281--44185348	29	2.5	28	81	11	79	29	11	23	35	1.90
44185388--44185528	29	4.9	29	84	3	140	31	14	19	34	1.93
44188079--44188164	43	2.0	43	100	0	172	41	9	16	32	1.80
44199722--44199763	21	2.0	20	86	13	59	19	9	50	21	1.75
44200320--44200353	16	2.2	15	89	5	50	55	0	0	44	0.99
44212506--44212536	14	2.2	14	94	0	53	48	9	16	25	1.76
44225692--44225733	21	2.0	21	90	4	66	57	26	0	16	1.40
44227938--44227996	18	3.3	18	71	4	57	40	5	16	37	1.71
44227930--44228000	35	2.0	35	97	0	133	42	5	19	32	1.75
44236110--44236137	14	2.0	14	100	0	56	28	0	7	64	1.20
44239634--44239676	22	2.0	22	86	8	63	58	2	0	39	1.11
44247661--44247838	46	3.9	46	87	1	241	29	16	20	33	1.95
44249612--44249665	28	1.9	28	92	0	90	29	22	5	42	1.76
44252029--44252067	12	3.2	12	85	0	51	20	23	5	51	1.67
44252316--44252604	50	5.7	50	84	4	337	23	29	20	25	1.99
44252267--44252614	150	2.3	149	81	6	385	23	28	20	27	1.99
44252947--44252972	13	2.0	13	100	0	52	30	23	7	38	1.83
44254081--44254119	21	1.9	20	89	5	60	35	25	0	38	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44254145--44254191	2	23.5	2	86	0	67	48	6	0	44	1.28
44256308--44256434	61	2.1	61	82	7	152	32	9	27	30	1.88
44256365--44256491	28	4.4	27	72	10	83	29	15	25	29	1.96
44259583--44259614	16	2.0	16	93	0	55	25	15	0	59	1.36
44259744--44259833	46	2.0	46	82	8	114	32	25	16	25	1.96
44259842--44260032	51	3.8	51	79	3	224	30	27	15	26	1.96
44259840--44260024	101	1.8	102	89	3	293	31	26	16	25	1.96
44259835--44260048	101	2.1	102	82	2	270	30	27	14	27	1.96
44270933--44271022	35	2.6	35	85	0	108	40	16	16	26	1.90
44270960--44271034	35	2.1	35	85	4	98	45	16	13	25	1.83
44286467--44286508	21	2.0	21	85	0	57	21	16	7	54	1.65
44292518--44292587	20	3.3	20	66	14	59	50	15	5	28	1.67
44292517--44292603	44	2.0	44	95	0	156	45	17	5	31	1.71
44292519--44292597	22	3.6	22	64	14	56	49	15	6	29	1.69
44292537--44292609	22	3.3	22	67	14	60	46	19	5	28	1.72
44292770--44292843	20	3.7	20	73	8	62	58	4	8	29	1.46
44293117--44293170	21	2.6	21	75	13	58	5	11	7	75	1.16
44293609--44293665	19	3.0	19	73	0	60	33	5	1	59	1.30
44294839--44294896	26	2.2	27	78	9	66	32	1	1	63	1.14
44299237--44299443	94	2.2	95	85	5	287	17	19	22	40	1.91
44306459--44306494	18	1.9	19	88	5	56	44	8	5	41	1.58
44306464--44306502	18	2.1	19	85	4	53	48	7	2	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44317785--44317828	2	22.0	2	100	0	88	50	0	0	50	1.00
44329995--44330038	23	1.9	23	81	9	54	4	36	2	56	1.32
44338063--44338103	22	1.9	22	85	14	59	56	21	0	21	1.43
44339036--44339148	43	2.6	44	77	13	135	26	28	22	23	1.99
44359970--44360155	51	3.7	50	86	5	241	30	23	15	30	1.95
44360073--44360155	26	3.2	26	65	27	68	32	25	12	30	1.92
44359970--44360155	101	1.8	102	87	3	277	30	23	15	30	1.95
44361420--44361446	3	9.0	3	100	0	54	66	0	0	33	0.92
44367605--44367797	101	1.9	102	84	3	264	30	24	15	29	1.96
44367605--44367797	51	3.8	50	79	8	221	30	24	15	29	1.96

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