genome.fa.s1.2.7.7.80.10.50.1000.51.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  51  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)
15178094--15178275	42	4.3	42	85	6	242	36	20	20	21	1.95
15179461--15179512	26	1.9	27	92	7	88	44	7	1	46	1.43
15180007--15180062	19	3.0	18	81	5	58	53	1	3	41	1.29
15180082--15180116	16	2.2	16	94	0	61	71	0	2	25	1.00
15183462--15183522	30	2.0	30	96	0	113	21	21	13	44	1.86
15185693--15185728	15	2.4	15	100	0	72	27	13	13	44	1.82
15187764--15187840	36	2.1	35	81	13	86	35	1	0	63	1.03
15187749--15187843	16	5.5	17	70	19	63	35	2	0	62	1.07
15189959--15190085	27	4.7	27	84	0	146	42	18	19	18	1.89
15190008--15190112	27	3.9	27	83	2	95	42	18	19	20	1.89
15189985--15190113	54	2.4	54	81	5	145	42	17	19	20	1.89
15190585--15190821	18	13.4	18	72	14	156	45	11	13	29	1.78
15190585--15190821	35	6.7	35	73	10	189	45	11	13	29	1.78
15190635--15190824	53	3.6	53	80	11	196	46	12	14	26	1.79
15192128--15192182	18	3.1	18	79	12	51	0	34	0	65	0.93
15193194--15194064	77	11.6	74	77	11	731	36	21	16	25	1.93
15193354--15193475	64	1.9	64	91	0	199	27	24	18	30	1.98
15193274--15193551	143	2.0	138	87	4	405	33	22	16	27	1.96
15195050--15195144	1	95.0	1	72	0	73	0	2	11	86	0.66
15195058--15195143	8	10.9	8	83	8	106	0	1	12	86	0.64
15195050--15195141	9	10.7	9	86	8	113	0	2	11	85	0.68
15195052--15195144	41	2.3	39	84	13	127	0	2	11	86	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15206133--15206365	18	13.2	17	70	15	127	46	9	12	30	1.75
15206133--15206365	35	6.6	34	75	9	200	46	9	12	30	1.75
15206180--15206376	18	11.2	18	73	15	128	46	10	13	30	1.76
15206180--15206434	53	4.7	51	77	10	167	47	9	12	31	1.73
15206358--15206390	15	2.1	16	94	5	59	51	6	12	30	1.63
15206322--15206394	18	4.2	19	76	16	52	46	8	12	32	1.71
15206959--15206994	15	2.4	15	80	0	54	0	11	8	80	0.90
15207280--15207338	9	6.8	9	77	11	52	0	18	0	81	0.69
15207289--15207349	4	15.5	4	80	10	72	0	21	0	78	0.75
15207280--15207352	35	2.1	36	89	2	112	0	20	0	79	0.73
15207607--15207651	23	2.0	23	82	8	56	4	11	17	66	1.38
15207911--15208066	30	5.2	29	79	11	131	38	4	23	33	1.75
15213580--15213692	38	3.0	38	81	0	127	18	15	28	37	1.92
15217684--15217717	11	3.2	11	95	4	61	50	0	0	50	1.00
15219769--15219888	41	2.9	41	81	0	141	20	21	25	33	1.97
15231918--15231942	6	4.2	6	100	0	50	16	0	0	84	0.63
15233730--15233785	17	3.6	16	72	18	55	39	3	1	55	1.28
15233714--15233788	25	2.8	24	73	21	60	41	2	2	53	1.29
15233730--15233926	67	3.0	64	70	14	168	42	3	4	50	1.38
15234024--15234072	25	2.0	24	84	11	64	42	8	10	38	1.68
15237058--15237113	5	10.4	5	78	14	58	37	0	1	60	1.07
15237316--15237356	13	3.2	13	86	3	57	70	0	29	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15238591--15238692	37	2.6	37	74	11	91	22	19	27	30	1.98
15245557--15245654	46	2.2	46	94	1	171	33	3	19	43	1.66
15250147--15250244	46	2.2	46	94	1	171	33	3	19	43	1.66
15258166--15258205	20	2.0	20	90	0	62	27	10	12	50	1.72
15258151--15258217	34	1.9	35	87	3	100	32	8	11	46	1.72
15259981--15260010	14	2.1	14	93	0	51	36	10	43	10	1.72
15260021--15260087	33	2.0	33	94	0	116	38	2	44	13	1.59
15262710--15262777	30	2.3	30	79	5	75	27	39	17	14	1.89
15262861--15262903	18	2.4	18	88	0	59	18	27	9	44	1.80
15263285--15263454	49	3.5	49	95	0	295	42	2	8	45	1.50
15266553--15266965	125	3.3	125	92	0	673	30	19	17	32	1.95
15267143--15267174	6	5.3	6	100	0	64	37	46	0	15	1.46
15268592--15268627	19	1.9	18	94	5	63	44	11	19	25	1.83
15272112--15272219	41	2.7	40	78	4	117	29	24	21	25	1.99
15272345--15272379	2	17.5	2	100	0	70	51	0	0	48	1.00
15272368--15272578	67	3.2	66	83	5	291	44	16	7	32	1.75
15272367--15272576	65	3.2	65	82	5	278	44	16	7	31	1.75
15274029--15274280	126	2.0	126	94	0	441	47	13	9	28	1.76
15276313--15276357	23	2.0	23	81	0	54	22	0	15	62	1.33
15276798--15276841	23	2.0	22	90	4	70	34	6	2	56	1.38
15280809--15280947	57	2.4	57	83	5	165	45	0	3	50	1.24
15280847--15280942	26	3.5	26	68	13	75	46	1	2	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15281035--15281123	44	2.0	45	80	12	103	35	22	5	35	1.78
15281032--15281106	39	1.9	39	81	5	89	37	24	4	34	1.74
15281168--15281206	16	2.4	16	100	0	78	23	23	5	48	1.70
15281183--15281225	22	2.0	21	95	4	77	25	23	4	46	1.71
15282384--15282418	17	2.1	17	88	0	52	60	5	2	31	1.35
15291133--15291166	3	11.0	3	93	6	59	67	0	0	32	0.91
15295439--15295469	3	10.3	3	100	0	62	0	32	0	67	0.91
15300823--15300847	6	4.2	6	100	0	50	84	0	16	0	0.63
15302736--15302817	25	3.3	25	80	10	87	26	23	26	23	2.00
15302746--15302869	25	5.0	24	75	8	106	32	22	23	21	1.98
15302746--15302931	50	3.7	49	71	14	123	32	21	23	22	1.98
15302762--15302931	25	6.8	24	76	9	92	33	21	23	21	1.97
15303282--15303323	21	2.0	21	85	0	57	42	23	0	33	1.55
15305902--15305983	26	3.3	25	81	8	80	36	20	24	18	1.95
15305913--15305984	26	2.9	26	86	10	89	36	22	23	18	1.95
15311515--15311914	198	2.0	198	98	0	764	38	20	11	29	1.88
15314054--15314092	19	2.1	19	85	4	53	25	2	2	69	1.14
15314755--15314786	13	2.4	13	94	5	55	21	15	25	37	1.93
15318699--15318864	43	4.0	43	77	4	160	30	26	15	28	1.96
15320323--15320386	30	2.1	30	85	0	83	34	10	18	35	1.86
15326544--15326598	18	2.9	17	80	20	56	30	1	9	58	1.40
15331371--15331408	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15334392--15334425	17	2.0	17	88	0	50	41	14	2	41	1.61
15335197--15335239	21	2.0	21	81	0	50	9	51	13	25	1.71
15340867--15340934	35	2.0	34	85	8	93	41	5	2	50	1.42
15343961--15344002	21	2.0	22	86	9	61	52	7	14	26	1.67
15348532--15348573	19	2.2	19	100	0	84	26	11	14	47	1.78
15349414--15349439	12	2.2	12	100	0	52	38	0	0	61	0.96
15356915--15356951	16	2.1	19	85	14	53	51	10	0	37	1.37
15359914--15360056	43	3.3	43	82	1	135	27	16	17	38	1.91
15359942--15360102	43	3.7	43	84	4	182	26	19	18	36	1.95
15359997--15360122	43	2.9	42	84	6	110	21	22	22	34	1.97
15363037--15363111	9	8.4	9	81	8	91	24	9	24	42	1.83
15363037--15363111	18	4.2	18	87	1	107	24	9	24	42	1.83
15369087--15369123	7	5.3	7	100	0	74	59	0	0	40	0.97
15369586--15369616	3	10.3	3	100	0	62	0	35	0	64	0.94
15375191--15375244	27	2.0	27	100	0	108	18	33	22	25	1.97
15378183--15378289	25	4.0	25	82	13	133	48	27	22	1	1.61
15378151--15378208	19	3.1	19	92	0	89	53	22	22	1	1.55
15378202--15378270	31	2.2	31	94	0	120	46	31	20	1	1.60
15378264--15378307	18	2.4	19	80	3	54	52	22	22	2	1.58
15402595--15402654	26	2.4	25	77	8	59	26	8	6	58	1.52
15413471--15413497	2	13.5	2	100	0	54	48	0	0	51	1.00
15413778--15413883	41	2.6	41	89	0	158	30	23	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15419333--15419375	23	1.9	22	85	4	59	51	6	4	37	1.50
15421260--15421289	3	9.7	3	92	7	51	0	33	0	66	0.92
15422095--15422132	2	19.0	2	100	0	76	50	0	0	50	1.00
15422546--15422664	42	3.0	38	75	13	114	41	1	3	53	1.27
15422552--15422665	40	2.9	38	74	18	108	41	1	4	52	1.31
15431981--15432026	23	2.0	23	100	0	92	34	34	0	30	1.58
15433879--15434194	46	7.6	44	88	9	351	29	21	12	36	1.91
15434014--15434158	36	4.0	36	97	0	263	30	20	11	37	1.88
15444549--15444631	29	2.9	29	79	0	85	42	3	18	36	1.68
15444672--15444875	59	3.4	59	91	0	327	53	7	3	34	1.48

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