genome.fa.s2.2.7.7.80.10.50.1000.156.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  156  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)
47178832--47178871	21	1.9	21	85	10	55	42	0	5	52	1.23
47179507--47179551	23	2.0	23	95	0	81	68	0	6	24	1.13
47186284--47186311	14	2.0	14	100	0	56	35	28	14	21	1.92
47193807--47193840	17	2.1	17	88	5	52	50	0	17	32	1.47
47197646--47197780	63	2.1	63	81	0	153	24	21	26	27	1.99
47199800--47199871	27	2.7	27	75	0	90	26	34	30	8	1.86
47200139--47200171	17	1.9	17	88	11	50	9	12	6	72	1.26
47200307--47200438	30	4.4	30	77	7	151	62	7	5	24	1.42
47200330--47200373	12	3.8	12	90	6	72	70	4	0	25	1.06
47200378--47200428	16	3.3	16	71	20	54	54	11	7	25	1.63
47200714--47200787	29	2.5	30	86	2	96	25	1	12	60	1.39
47201258--47201283	2	13.0	2	100	0	52	50	0	0	50	1.00
47203171--47203201	2	15.5	2	93	0	53	51	3	0	45	1.17
47221910--47222039	49	2.6	49	80	8	140	31	18	25	24	1.97
47222241--47222290	20	2.5	20	81	15	68	56	8	24	12	1.62
47232377--47232405	14	2.0	15	93	6	51	58	6	20	13	1.58
47234100--47234158	21	2.8	21	76	0	64	32	28	23	15	1.95
47235632--47235727	49	2.0	49	87	0	138	39	11	16	32	1.84
47238965--47239231	42	6.4	41	87	4	365	29	21	19	29	1.98
47238965--47239231	84	3.2	84	91	2	414	29	21	19	29	1.98
47239761--47239797	2	18.5	2	94	0	65	48	48	0	2	1.15
47241777--47241824	23	2.1	23	84	7	62	31	14	16	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47242362--47242407	16	2.9	15	84	15	65	23	23	39	13	1.90
47242353--47242401	16	3.1	16	83	16	66	24	22	38	14	1.91
47242932--47242967	3	12.0	3	100	0	72	33	0	0	66	0.92
47243579--47243635	29	1.9	29	82	3	69	38	3	8	49	1.51
47247530--47247729	99	2.0	99	99	0	391	38	14	15	32	1.87
47248742--47248779	18	2.2	17	90	4	58	26	2	0	71	1.00
47251834--47251870	2	19.5	2	89	10	60	51	0	48	0	1.00
47252046--47252079	13	2.7	13	95	4	61	0	14	0	85	0.60
47252046--47252079	6	5.5	6	93	6	59	0	14	0	85	0.60
47254253--47254423	38	4.5	38	82	10	163	30	19	15	34	1.93
47254253--47254423	76	2.2	76	87	2	236	30	19	15	34	1.93
47259242--47259270	14	2.1	14	100	0	58	37	20	6	34	1.80
47262537--47262563	8	3.4	8	100	0	54	62	14	0	22	1.31
47263373--47263485	5	21.0	5	73	13	82	32	23	4	39	1.74
47263365--47263454	17	5.4	17	76	5	76	33	21	5	40	1.76
47263365--47263489	22	5.7	22	74	14	105	32	23	4	40	1.73
47267852--47268141	44	6.7	44	79	7	299	28	25	17	28	1.97
47268026--47268104	38	2.1	38	85	0	104	26	22	16	34	1.95
47267852--47268143	126	2.3	128	86	4	392	28	25	17	28	1.97
47268107--47268641	88	6.1	88	89	0	793	23	27	22	25	2.00
47269886--47269921	16	2.2	16	95	0	63	0	13	0	86	0.58
47273874--47273899	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47277743--47277780	7	5.4	7	96	0	67	0	15	0	84	0.63
47281565--47281624	6	10.7	6	92	7	74	11	0	16	71	1.14
47288069--47288272	58	3.5	58	79	5	171	39	12	15	31	1.85
47288128--47288342	59	3.7	58	85	4	252	37	13	16	32	1.87
47302678--47303323	152	4.2	153	84	7	868	30	9	7	52	1.62
47302678--47303323	150	4.2	152	86	7	873	30	9	7	52	1.62
47303335--47303743	150	2.7	150	89	3	583	53	6	7	32	1.56
47303335--47303757	149	2.8	151	87	3	588	53	6	8	31	1.56
47312000--47312038	15	2.6	15	80	15	53	58	7	7	25	1.52
47313975--47314453	44	11.0	44	67	19	181	28	22	19	29	1.98
47314154--47314451	89	3.4	87	74	10	313	29	23	18	29	1.98
47314154--47314493	173	2.0	173	91	1	547	29	23	18	28	1.98
47313982--47314453	217	2.2	216	85	6	616	28	22	19	28	1.98
47322690--47322735	24	1.9	24	86	0	65	10	26	17	45	1.81
47326459--47326497	15	2.6	15	80	15	53	58	7	7	25	1.52
47332409--47332454	16	2.9	16	84	9	60	54	0	4	41	1.20
47356892--47356993	53	1.9	53	95	0	186	33	18	10	37	1.86
47359564--47359624	29	2.2	27	82	11	70	52	0	0	47	1.00
47365121--47365365	43	5.7	43	86	5	266	24	26	20	29	1.99
47365121--47365365	129	1.9	129	83	6	318	24	26	20	29	1.99
47365722--47365898	87	2.0	87	86	0	246	12	28	18	40	1.87
47371212--47371316	52	2.0	52	96	0	192	34	18	16	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47372463--47372800	114	2.9	113	87	3	453	28	24	22	24	1.99
47372703--47372945	73	3.3	72	85	2	315	26	23	21	29	1.99
47372963--47373216	72	3.3	73	80	14	314	23	25	23	27	2.00
47373026--47373188	86	1.9	85	92	1	272	20	23	24	31	1.98
47372585--47373328	271	2.8	259	87	3	999	24	25	23	26	2.00
47373117--47373328	113	1.9	113	95	0	388	24	27	24	24	2.00
47380102--47380139	3	12.7	3	94	0	67	36	0	63	0	0.95
47381314--47381405	20	4.6	20	71	22	68	46	1	5	46	1.32
47387394--47387419	6	4.3	6	100	0	52	80	0	0	19	0.71
47389354--47389550	98	2.0	98	94	0	349	38	23	9	28	1.86
47391586--47392014	173	2.5	175	82	4	530	27	20	20	30	1.98
47391680--47392056	173	2.2	174	84	3	474	27	22	20	29	1.98
47391627--47392097	44	10.7	45	68	14	182	26	21	20	30	1.98
47392176--47392293	45	2.6	45	80	12	143	24	27	21	27	1.99
47406145--47406189	23	1.9	24	86	4	65	35	0	4	60	1.17
47418538--47418649	23	4.9	23	78	0	125	36	26	6	30	1.81
47418538--47418649	46	2.4	46	89	0	170	36	26	6	30	1.81
47421213--47421257	19	2.3	20	84	7	65	77	2	13	6	1.05
47425593--47425703	23	4.8	23	80	4	125	36	25	6	31	1.81
47425592--47425703	46	2.4	46	89	0	170	36	25	6	31	1.81
47427306--47427448	71	2.0	71	100	0	286	37	23	13	25	1.92
47427683--47427947	40	6.7	40	85	5	333	41	29	16	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47427683--47427926	120	2.1	118	89	3	373	40	29	16	13	1.87
47434600--47434698	41	2.4	41	86	0	117	31	20	18	30	1.96
47435394--47435430	14	2.4	16	86	8	51	35	0	13	51	1.41
47455799--47455916	44	2.7	42	78	17	134	21	19	29	29	1.97
47463305--47463422	44	2.7	42	73	21	118	22	19	27	29	1.98
47470545--47470575	16	1.9	16	100	0	62	12	22	19	45	1.84
47471861--47471920	31	1.9	32	93	3	104	23	13	6	56	1.60
47471860--47471930	31	2.2	32	85	5	99	21	12	11	54	1.68
47472284--47472328	21	2.2	21	84	4	56	46	8	4	40	1.55
47473447--47473518	16	4.4	16	67	20	51	19	0	12	68	1.21
47475081--47475113	14	2.4	14	94	0	57	36	15	6	42	1.71
47475728--47475827	12	8.3	12	82	0	101	30	32	33	5	1.79
47475729--47475823	6	15.8	6	71	4	66	30	31	32	5	1.80
47476226--47476481	48	5.3	48	90	1	291	47	11	10	30	1.74
47482286--47482337	11	3.5	16	73	26	60	28	25	5	40	1.78
47493416--47493456	3	14.3	3	80	10	50	65	2	0	31	1.05
47494764--47494796	8	4.2	8	84	7	50	69	0	0	30	0.88
47494819--47494860	22	1.9	22	95	0	75	59	4	0	35	1.19
47494798--47495015	60	3.6	60	70	23	154	57	3	2	36	1.29
47494887--47494911	12	2.1	12	100	0	50	76	0	0	24	0.80
47494888--47494938	20	2.5	21	84	12	63	68	1	0	29	1.00
47494798--47494921	19	6.2	19	71	16	81	60	4	0	34	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47494888--47494938	21	2.5	20	81	12	59	68	1	0	29	1.00
47494760--47494900	9	14.8	9	68	24	58	60	3	1	34	1.22
47498670--47498900	84	2.7	85	82	5	256	43	12	11	31	1.79
47498867--47499048	87	2.1	87	79	8	192	42	12	10	34	1.77
47499864--47499942	31	2.6	32	82	9	85	35	0	3	60	1.15
47501860--47502003	33	4.3	33	67	3	90	33	15	22	29	1.94
47501859--47502089	101	2.3	101	91	1	365	30	14	24	30	1.94
47505938--47506009	17	3.9	17	75	18	72	30	6	5	56	1.48
47507181--47507234	24	2.2	26	86	6	76	62	3	1	31	1.23
47519701--47519738	17	2.2	17	95	0	67	34	2	5	57	1.35

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