genome.fa.s7.2.7.7.80.10.50.1000.64.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  64  of  204  ( 24458 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)
20374943--20374973	14	2.2	14	100	0	62	64	0	0	35	0.94
20374952--20375009	21	2.7	21	83	2	80	58	0	1	39	1.08
20374912--20375023	59	2.0	53	86	13	154	58	0	1	40	1.09
20379545--20379624	29	2.8	28	86	5	124	30	21	6	42	1.77
20379948--20380006	7	8.3	7	73	17	50	76	0	23	0	0.79
20379954--20380000	13	3.8	13	76	18	55	72	0	27	0	0.85
20379944--20379993	20	2.5	20	87	3	66	70	0	30	0	0.88
20379946--20380002	20	3.0	20	72	23	61	73	0	26	0	0.83
20380300--20380334	6	5.7	6	86	6	52	80	0	20	0	0.72
20380296--20380334	12	3.2	13	82	10	55	79	0	20	0	0.73
20380296--20380340	19	2.4	18	85	3	63	80	2	17	0	0.82
20380300--20380334	13	2.8	12	86	4	52	80	0	20	0	0.72
20380699--20380740	21	2.0	20	90	4	66	35	14	9	40	1.78
20380699--20380740	20	2.1	19	86	8	57	35	14	9	40	1.78
20380845--20380974	35	3.7	36	82	5	140	33	12	10	43	1.77
20380845--20381059	17	11.9	18	69	11	111	32	12	10	44	1.76
20380851--20380973	18	7.0	17	73	10	104	30	13	11	44	1.78
20380908--20381058	35	4.2	35	77	15	139	31	11	12	44	1.78
20381024--20381061	20	1.9	20	100	0	76	36	10	10	42	1.74
20394206--20394549	70	4.5	79	83	10	366	26	16	21	35	1.94
20394730--20394757	11	2.5	11	100	0	56	78	7	0	14	0.95
20394744--20394773	15	1.9	15	93	6	51	73	10	0	16	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20394773--20394839	29	2.3	29	94	0	116	29	19	8	41	1.82
20395162--20395234	7	10.1	7	73	16	51	78	0	17	4	0.91
20395162--20395220	20	2.8	21	76	18	68	76	0	22	1	0.88
20395160--20395217	10	5.8	10	76	15	57	74	0	24	1	0.92
20395534--20395574	11	3.9	11	78	9	50	82	0	17	0	0.66
20395933--20395974	21	2.0	20	86	13	59	35	16	9	38	1.81
20396080--20396291	18	11.9	18	71	11	134	31	11	10	45	1.75
20396088--20396290	35	5.7	35	77	7	169	31	12	11	45	1.77
20396135--20396293	17	9.1	17	72	9	104	32	11	11	44	1.77
20402947--20402981	18	2.0	18	88	5	54	25	8	2	62	1.38
20403694--20403857	67	2.5	64	74	18	167	51	1	4	42	1.32
20411486--20411510	3	8.3	3	100	0	50	68	0	32	0	0.90
20412480--20412522	23	1.9	22	90	4	68	30	0	2	67	1.03
20425686--20425710	9	2.8	9	100	0	50	68	8	0	24	1.16
20425882--20425915	17	1.9	17	94	5	59	79	0	2	17	0.86
20431423--20431464	21	2.2	19	83	12	50	38	14	0	47	1.44
20437417--20437558	42	3.4	42	80	8	155	44	18	22	14	1.86
20437524--20437594	21	3.4	21	76	7	56	42	16	23	16	1.89
20439985--20440101	25	4.7	25	77	17	82	29	20	24	25	1.99
20442723--20442966	45	5.4	45	89	2	348	40	20	19	19	1.92
20442729--20442966	89	2.7	90	89	2	354	39	20	19	19	1.92
20442777--20442993	45	5.2	39	74	21	161	38	21	20	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20446587--20446650	22	2.9	22	90	4	85	28	28	17	26	1.97
20446877--20447044	81	2.1	81	95	0	300	28	15	14	41	1.87
20450238--20450292	28	2.0	27	86	13	76	29	14	5	50	1.65
20455451--20455491	17	2.3	19	79	12	50	58	7	14	19	1.59
20463197--20463258	31	1.9	31	84	12	81	43	3	0	53	1.17
20463254--20463283	15	1.9	16	93	6	53	53	3	3	40	1.34
20466299--20466511	109	1.9	110	83	9	279	30	8	16	43	1.79
20468465--20468504	18	2.2	18	90	0	62	42	10	5	42	1.60
20468936--20469109	72	2.4	71	83	2	233	25	6	13	54	1.62
20470492--20470536	21	2.1	21	87	0	63	31	13	35	20	1.91
20471193--20471239	20	2.4	20	82	13	62	63	0	23	12	1.28
20472443--20472517	19	3.8	19	82	6	96	37	10	14	37	1.81
20472444--20472506	21	3.1	21	88	4	94	38	9	12	39	1.76
20472496--20472540	23	2.0	23	86	4	65	37	6	17	37	1.76
20472715--20472754	19	2.0	22	85	14	59	15	10	5	70	1.32
20473146--20473223	8	9.4	8	74	12	50	20	1	3	74	1.05
20473154--20473223	8	8.5	8	73	9	52	21	0	4	74	0.99
20473154--20473221	23	3.0	23	75	16	68	20	0	4	75	0.98
20480843--20481173	44	7.6	44	71	12	207	29	19	22	28	1.98
20480843--20481173	89	3.8	88	72	12	236	29	19	22	28	1.98
20480846--20481083	133	1.8	128	82	10	302	27	20	23	28	1.99
20481483--20481557	19	3.8	19	87	6	114	37	9	16	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20481536--20481580	23	2.0	23	91	4	74	37	4	17	40	1.70
20481756--20481796	20	2.0	22	85	9	59	14	9	4	70	1.30
20483049--20483126	8	9.4	8	74	12	50	20	1	3	74	1.05
20483057--20483126	8	8.5	8	73	9	52	21	0	4	74	0.99
20483057--20483124	23	3.0	23	75	16	68	20	0	4	75	0.98
20496959--20496991	17	1.9	17	93	0	57	18	48	24	9	1.76
20500864--20500911	21	2.3	21	92	0	78	39	16	27	16	1.90
20500943--20500990	24	2.0	24	100	0	96	33	25	25	16	1.96
20502576--20502611	12	2.7	14	87	12	58	38	13	0	47	1.44
20503283--20503311	14	2.1	14	93	6	51	37	20	0	41	1.53
20504777--20504826	21	2.4	21	87	9	68	24	28	6	42	1.78
20512918--20513108	51	3.8	51	77	8	228	29	27	17	25	1.98
20512916--20513100	101	1.8	102	91	3	311	30	26	18	24	1.98
20514627--20514657	16	1.9	16	100	0	62	25	9	19	45	1.81
20514648--20514693	13	2.8	18	69	30	57	28	6	13	52	1.65
20516705--20516776	36	2.0	36	97	0	135	43	11	26	19	1.84
20535174--20535212	14	2.8	14	80	0	51	28	0	25	46	1.53
20536704--20536759	21	2.6	21	77	11	60	41	0	0	58	0.98
20537115--20537165	19	2.7	20	78	9	61	43	11	0	45	1.40
20545320--20545383	13	4.9	13	82	0	83	35	6	20	37	1.78
20546049--20546080	15	2.2	15	94	5	57	65	0	3	31	1.08
20554383--20554422	21	1.9	21	94	0	71	57	2	0	40	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20554365--20554483	29	4.1	28	68	13	89	56	0	1	41	1.15
20556124--20556193	19	3.5	19	69	17	61	65	0	2	31	1.07
20559245--20559314	17	4.1	17	73	23	67	20	5	0	74	1.02
20576446--20576489	17	2.6	18	86	13	58	27	6	0	65	1.17
20578743--20578906	87	1.9	86	83	3	213	39	21	13	25	1.90
20587462--20587493	16	2.0	16	93	0	55	25	15	0	59	1.36
20587723--20587908	48	3.8	48	78	12	198	30	27	17	25	1.97
20587720--20587900	99	1.8	99	90	7	294	30	25	17	25	1.97
20587711--20587908	50	4.0	50	77	13	219	29	27	17	25	1.97
20590581--20590621	21	1.9	22	90	5	66	65	4	4	24	1.32
20598979--20599013	18	1.9	18	94	0	61	40	22	0	37	1.55
20600742--20600817	21	3.7	21	91	3	120	42	9	10	38	1.71
20600738--20600823	40	2.2	38	82	13	111	44	8	11	36	1.71
20601049--20601093	23	2.0	23	81	0	54	22	0	15	62	1.33
20601243--20601291	23	2.2	22	82	10	55	36	2	0	61	1.08
20601771--20601842	3	24.0	3	100	0	144	33	0	0	66	0.92
20603441--20603479	19	2.1	19	100	0	78	38	20	5	35	1.75
20606488--20606524	18	2.1	18	100	0	74	45	16	10	27	1.80
20610729--20610758	15	2.0	15	93	0	51	20	16	23	40	1.91
20611045--20611070	13	2.0	13	100	0	52	46	0	30	23	1.53
20616595--20616647	16	3.3	16	97	0	97	30	32	0	37	1.58
20616595--20616664	16	4.4	16	90	0	95	31	32	1	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20616962--20617007	20	2.3	20	84	0	65	52	0	4	43	1.21
20617098--20617135	15	2.7	14	84	11	51	42	15	2	39	1.61
20617098--20617135	14	2.7	15	88	8	53	42	15	2	39	1.61
20619278--20619370	30	3.1	30	85	0	132	24	15	24	35	1.94
20619548--20619635	44	2.0	44	100	0	176	31	13	11	43	1.80
20620635--20620811	21	8.4	21	74	7	101	18	20	14	46	1.84
20620684--20620806	42	2.9	42	85	0	156	21	21	11	44	1.84
20620683--20620806	63	2.0	63	88	3	187	21	21	12	44	1.85
20620949--20621094	21	7.0	21	86	1	188	15	21	17	45	1.86
20620506--20621075	311	1.8	311	90	2	912	23	17	18	40	1.91

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