genome.fa.s1.2.7.7.80.10.50.1000.171.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  171  of  187  ( 22383 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)
50951256--50951288	16	2.0	17	88	5	50	33	18	6	42	1.75
50953007--50953259	27	9.3	27	78	6	179	30	24	13	30	1.94
50953047--50953307	27	9.7	27	80	5	224	29	25	14	29	1.95
50953076--50953309	81	2.9	81	81	3	256	29	25	14	31	1.94
50956902--50956947	15	3.0	16	79	17	53	36	0	45	17	1.49
50957395--50957424	14	2.2	14	94	5	53	53	0	6	40	1.27
50957962--50958016	28	2.0	28	85	0	74	30	21	21	25	1.98
50959531--50959639	48	2.3	48	90	0	173	25	22	27	23	2.00
50971980--50972052	37	2.0	37	91	5	121	39	15	8	36	1.77
50972093--50972117	13	1.9	13	100	0	50	24	8	12	56	1.62
50999954--50999979	7	3.7	7	100	0	52	42	0	26	30	1.56
51012967--51013047	39	2.0	42	85	7	114	49	3	23	23	1.66
51015791--51015822	11	2.8	11	95	4	55	18	9	0	71	1.12
51018063--51018090	5	5.6	5	100	0	56	17	0	21	60	1.36
51026778--51027186	138	2.9	136	86	3	541	31	24	20	22	1.98
51028038--51028080	22	2.0	22	95	0	77	18	9	4	67	1.36
51029775--51029858	42	2.0	42	100	0	168	42	11	14	30	1.81
51033452--51033851	137	2.9	138	82	5	479	31	27	20	21	1.98
51035294--51035573	137	2.0	138	84	3	359	21	19	26	33	1.97
51037297--51037363	30	2.2	30	86	0	98	22	25	13	38	1.90
51037310--51037551	30	8.1	30	73	8	172	20	22	15	41	1.89
51037322--51037558	60	4.0	61	74	6	223	19	22	15	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51043710--51043755	19	2.3	20	78	17	51	32	28	19	19	1.96
51044671--51044702	14	2.3	14	94	0	55	25	34	18	21	1.96
51051352--51051396	16	2.9	15	83	9	56	51	0	6	42	1.28
51055113--51055158	3	15.0	3	90	4	74	63	0	0	36	0.95
51057317--51057606	161	1.8	161	97	0	553	31	16	13	38	1.88
51062102--51062148	20	2.4	20	96	3	87	17	4	4	74	1.14
51064087--51064201	25	4.6	25	73	12	101	30	24	22	22	1.99
51064087--51064200	50	2.3	50	84	3	149	30	24	22	21	1.99
51068493--51068529	18	2.1	18	90	10	58	18	21	5	54	1.64
51073217--51073303	45	1.9	45	90	0	138	33	24	16	26	1.95
51082410--51082440	12	2.6	12	100	0	62	51	16	25	6	1.68
51085331--51085360	13	2.3	13	100	0	60	40	43	0	16	1.48
51085500--51085585	9	9.4	9	85	7	102	23	10	25	40	1.86
51088676--51089067	137	2.8	138	89	2	576	45	6	8	40	1.60
51095230--51095361	69	1.9	69	92	1	221	40	3	5	51	1.40
51095261--51095364	32	3.1	32	73	13	93	39	1	7	50	1.42
51095831--51095865	16	2.2	16	90	5	54	40	0	0	60	0.97
51095831--51095880	18	2.9	17	80	13	50	40	2	0	58	1.10
51098573--51098950	133	2.8	133	98	0	720	31	16	14	38	1.88
51099235--51099291	24	2.4	24	84	0	78	42	26	7	24	1.80
51102652--51102699	25	2.0	24	88	12	71	41	8	6	43	1.60
51104257--51104577	22	15.0	22	81	6	356	25	1	31	41	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51104257--51104577	43	7.5	41	82	8	374	25	1	31	41	1.65
51105140--51105249	43	2.6	42	87	5	159	30	28	15	25	1.96
51107694--51107719	5	5.2	5	100	0	52	19	0	0	80	0.71
51109417--51109499	21	4.4	20	74	18	72	33	45	3	16	1.65
51109417--51109499	38	2.2	38	91	2	132	33	45	3	16	1.65
51109410--51109483	7	9.9	7	71	18	51	32	47	2	17	1.62
51109753--51110580	114	7.3	114	88	1	1106	26	24	21	27	1.99
51109753--51110580	227	3.6	227	87	1	1117	26	24	21	27	1.99
51109749--51110572	341	2.4	341	88	1	1202	26	24	21	27	1.99
51110812--51110854	18	2.4	18	84	0	59	46	9	27	16	1.77
51111472--51111504	7	4.7	7	92	0	57	57	12	0	30	1.35
51111673--51111710	20	1.9	20	84	10	51	55	7	2	34	1.43
51112643--51112740	51	1.9	51	87	4	144	45	3	23	27	1.67
51112716--51112771	11	5.2	11	78	2	60	42	3	28	25	1.71
51112716--51112774	22	2.7	23	82	15	72	42	3	28	25	1.71
51113360--51113424	7	9.1	7	81	9	78	41	44	0	13	1.44
51113361--51113428	22	3.1	22	81	6	77	44	41	0	14	1.45
51113621--51113708	7	12.4	7	76	2	59	46	34	0	19	1.50
51113948--51114107	40	4.0	40	82	1	178	28	21	20	29	1.98
51113953--51114117	80	2.1	80	83	2	206	27	19	20	32	1.96
51118776--51118876	50	2.0	50	84	0	130	36	16	20	25	1.94
51118984--51119177	27	7.3	27	78	8	186	30	11	26	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51118984--51119177	53	3.7	52	79	9	198	30	11	26	30	1.92
51122375--51122411	19	1.9	19	88	0	56	72	0	27	0	0.84
51122379--51122410	12	2.8	12	86	13	50	75	0	25	0	0.81
51124090--51124188	50	2.0	50	83	0	126	34	14	25	26	1.94
51124301--51124405	26	4.0	26	79	6	113	31	13	25	29	1.94
51124294--51124411	27	4.4	27	77	13	109	32	12	26	28	1.93
51124300--51124403	52	2.0	52	83	3	129	32	13	25	28	1.93
51124517--51124576	27	2.2	27	81	0	66	40	15	21	23	1.91
51124535--51124611	27	2.9	27	86	0	91	41	12	20	24	1.88
51127084--51127431	138	2.5	137	88	2	511	45	4	8	41	1.55
51127410--51127639	79	2.9	79	96	0	415	29	16	9	44	1.78
51131090--51131129	19	2.1	19	100	0	80	57	5	5	32	1.42
51138453--51138501	13	3.8	13	91	0	71	32	12	22	32	1.91
51139821--51140020	29	6.9	29	81	5	172	28	13	22	36	1.91
51139821--51140020	58	3.5	58	81	6	192	28	13	22	36	1.91
51139952--51140033	28	2.9	28	80	7	94	25	15	23	35	1.94
51140027--51140090	28	2.3	28	72	5	67	28	15	28	28	1.96
51142146--51142177	14	2.3	14	100	0	64	43	12	31	12	1.80
51142740--51142775	13	2.9	12	92	8	63	13	8	0	77	0.98
51163357--51163424	26	2.6	26	92	0	109	23	23	30	22	1.99
51168877--51169074	65	3.0	65	76	13	183	27	19	17	35	1.94
51168861--51169083	68	3.3	66	76	10	204	26	19	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51182766--51182821	22	2.5	22	77	11	60	39	3	3	53	1.36
51186425--51186472	15	3.1	15	77	13	53	29	0	2	68	1.01
51186425--51186469	17	2.8	16	83	9	56	31	0	2	66	1.04
51187073--51187112	20	2.1	20	86	9	57	37	0	2	60	1.11
51189102--51189193	39	2.4	38	85	3	121	29	4	21	44	1.71
51189098--51189176	22	3.8	21	71	28	62	27	3	21	46	1.68
51193945--51194006	26	2.4	26	88	0	88	33	11	12	41	1.79
51198984--51199048	30	2.2	30	97	0	121	32	0	0	67	0.91
51198991--51199055	30	2.2	30	88	2	96	29	0	0	70	0.87
51203049--51203087	19	2.1	19	90	0	60	38	0	20	41	1.53
51212657--51212682	12	2.2	12	100	0	52	53	15	7	23	1.67
51214505--51214542	20	1.9	20	94	0	67	68	0	7	23	1.16
51215284--51215477	87	2.2	88	86	2	275	36	13	27	22	1.92
51215284--51215491	29	7.1	29	76	7	156	35	14	26	22	1.93
51232170--51232203	5	6.8	5	93	0	59	61	2	0	35	1.11
51237137--51237258	23	5.3	23	89	3	192	31	27	20	21	1.98
51237137--51237256	46	2.6	46	94	0	213	30	27	20	20	1.98
51249325--51249373	24	2.0	24	100	0	98	28	26	8	36	1.85
51250185--51250240	19	3.0	19	79	7	53	33	1	0	64	1.04
51253621--51253661	19	2.2	19	86	0	55	39	0	46	14	1.45
51253626--51253673	15	3.1	16	83	16	66	35	0	47	16	1.47
51255029--51255053	5	5.0	5	100	0	50	20	0	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51255840--51255887	23	2.1	22	85	11	62	56	16	2	25	1.51
51264598--51264639	19	2.2	19	91	0	66	40	0	45	14	1.45
51264604--51264643	17	2.5	17	84	15	59	40	0	45	15	1.46
51264614--51264649	12	3.0	13	84	15	51	38	0	41	19	1.52
51276884--51276956	38	1.9	38	97	0	137	28	28	15	27	1.96
51276922--51277161	102	2.4	102	92	0	390	30	27	14	28	1.95
51276922--51277161	51	4.7	51	77	4	243	30	27	14	28	1.95
51283888--51283945	27	2.1	27	93	0	98	25	18	22	32	1.97
51291625--51291714	26	3.5	26	89	0	117	20	18	21	40	1.92
51298408--51298474	27	2.5	27	80	2	73	19	28	22	29	1.98

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