genome.fa.s8.2.7.7.80.10.50.1000.150.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  150  of  190  ( 22705 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)
43950193--43950331	71	2.0	70	85	8	192	32	12	11	43	1.79
43950283--43950337	16	3.3	16	78	9	56	36	12	10	40	1.79
43950301--43950339	18	2.2	18	85	0	51	41	12	10	35	1.77
43962330--43962959	75	8.3	74	79	10	632	28	16	20	34	1.94
43962330--43962950	149	4.1	149	80	9	696	28	16	20	34	1.94
43963322--43963379	30	2.0	30	86	3	82	31	24	6	37	1.82
43964045--43964098	25	2.2	25	83	6	65	75	0	18	5	0.98
43964077--43964112	18	2.1	17	90	10	56	80	0	5	13	0.88
43964866--43964911	17	2.6	17	83	12	58	30	15	8	45	1.76
43964968--43965029	31	2.0	31	81	9	72	43	11	8	37	1.70
43965016--43965054	17	2.2	18	86	4	53	28	12	5	53	1.60
43965101--43965179	19	4.3	18	74	7	70	37	8	7	45	1.64
43965050--43965468	17	22.6	18	68	19	161	31	12	10	46	1.75
43965177--43965231	18	3.2	17	73	19	51	32	14	9	43	1.77
43965306--43965458	70	2.2	69	89	1	225	30	13	12	43	1.80
43965438--43965476	18	2.2	18	85	0	51	41	12	10	35	1.77
43970801--43970825	13	1.9	13	100	0	50	48	24	4	24	1.68
43971141--43971165	3	8.3	3	100	0	50	68	0	0	32	0.90
43971303--43971561	3	86.0	3	74	5	209	58	4	3	33	1.37
43978600--43978641	22	1.9	22	85	0	57	45	9	4	40	1.58
43978843--43978895	21	2.5	21	90	0	79	18	11	24	45	1.82
43978843--43978905	21	3.0	21	86	4	65	22	12	22	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43979902--43979935	16	2.1	16	94	0	59	32	0	2	64	1.08
44000504--44000710	107	2.0	105	90	3	326	32	20	19	28	1.97
44001148--44001196	26	1.9	26	83	4	64	53	0	14	32	1.41
44001284--44001371	31	3.0	31	73	9	85	50	4	6	38	1.50
44003200--44003338	40	3.4	40	77	11	147	25	19	23	30	1.98
44003159--44003333	83	2.1	83	86	4	246	24	18	23	33	1.97
44003200--44003379	83	2.2	83	82	4	211	26	18	23	31	1.98
44003200--44003379	43	4.3	40	75	8	130	26	18	23	31	1.98
44003412--44003936	86	5.8	86	86	8	649	23	24	22	29	1.99
44003462--44003595	43	3.1	43	61	16	105	21	23	26	29	1.99
44003503--44003724	43	5.2	43	61	20	113	23	25	23	27	2.00
44003742--44003766	12	2.1	12	100	0	50	16	28	16	40	1.89
44003570--44003936	98	3.9	98	90	4	542	22	24	22	30	1.99
44005160--44005190	6	5.0	6	92	7	53	16	16	0	67	1.23
44005162--44005194	7	5.0	7	92	7	52	15	15	0	69	1.19
44005160--44005203	19	2.3	19	88	7	63	13	20	0	65	1.26
44005569--44005656	45	1.9	47	84	6	119	9	14	5	70	1.31
44015158--44015200	21	2.0	21	90	0	68	13	23	18	44	1.86
44026769--44026819	4	12.8	4	100	0	102	25	0	23	50	1.49
44028720--44028750	9	3.4	9	90	0	53	25	12	22	38	1.90
44029047--44029104	30	1.9	30	85	0	80	18	36	0	44	1.50
44033246--44033293	10	5.2	10	76	16	50	75	0	2	22	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44033245--44033293	19	2.7	18	78	9	55	73	0	2	24	0.94
44033504--44033596	29	3.2	30	75	9	102	34	2	2	61	1.20
44033505--44033596	30	3.2	28	73	18	82	34	2	2	60	1.21
44033565--44033612	19	2.5	19	83	9	62	37	2	0	60	1.09
44033642--44033816	88	2.0	88	86	1	244	29	9	23	37	1.87
44036756--44036794	2	19.5	2	94	0	69	0	46	0	53	1.00
44037990--44038032	22	2.0	22	100	0	86	23	25	13	37	1.92
44038298--44038479	58	3.1	59	76	10	192	40	21	15	23	1.91
44047523--44047566	19	2.4	19	81	11	56	61	0	0	38	0.96
44047524--44047563	18	2.2	18	86	8	55	62	0	0	37	0.95
44054982--44055011	15	2.1	15	93	6	53	46	0	6	46	1.29
44063283--44063353	3	23.7	3	100	0	142	67	0	0	32	0.91
44065643--44065704	31	2.0	31	100	0	124	41	16	9	32	1.80
44071238--44071294	12	4.4	12	75	14	51	0	12	15	71	1.13
44071238--44071294	13	4.3	13	76	12	62	0	12	15	71	1.13
44071238--44071285	15	3.3	15	85	5	64	0	10	14	75	1.06
44071238--44071294	27	2.1	28	93	3	98	0	12	15	71	1.13
44071241--44071301	27	2.2	28	88	5	88	0	13	16	70	1.17
44071812--44071873	31	2.0	31	96	0	115	41	17	9	30	1.82
44073968--44074029	6	9.7	6	74	19	54	27	1	3	67	1.15
44073973--44074029	20	2.8	20	72	15	55	28	1	3	66	1.18
44073967--44074029	27	2.4	26	76	10	67	26	1	3	68	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44073968--44074030	26	2.4	27	76	10	69	26	1	3	68	1.14
44082299--44082332	13	2.7	12	86	13	50	79	0	0	20	0.73
44086927--44087018	5	17.8	5	88	6	121	57	1	0	41	1.06
44097986--44098061	29	2.6	29	82	0	98	48	10	11	28	1.73
44111476--44111507	5	6.4	5	96	0	55	75	3	0	21	0.95
44112470--44112522	27	2.0	27	92	7	90	37	5	13	43	1.67
44115667--44115785	22	5.3	22	78	8	125	31	21	15	31	1.94
44115667--44115788	45	2.7	44	81	6	138	32	21	14	31	1.93
44116053--44116154	24	4.3	25	79	13	101	23	11	33	31	1.91
44116564--44116629	20	3.4	20	62	21	50	39	21	6	33	1.78
44116557--44116632	37	2.1	37	100	0	152	40	18	5	35	1.73
44119628--44119728	44	2.3	44	79	5	114	35	16	23	23	1.95
44122685--44122734	22	2.2	23	86	10	68	38	0	8	54	1.30
44128102--44128139	13	3.0	13	84	7	51	76	10	5	7	1.15
44128118--44128164	19	2.5	19	79	6	51	74	6	2	17	1.12
44129633--44129680	25	2.0	24	91	4	78	45	4	29	20	1.70
44132806--44132837	16	1.9	17	93	6	57	43	12	0	43	1.42
44132788--44132829	21	2.0	20	86	4	57	50	7	0	42	1.30
44136094--44136145	24	2.2	24	85	0	68	50	7	3	38	1.50
44140926--44141070	20	6.7	20	69	21	80	68	0	29	1	0.97
44140926--44141070	44	3.3	44	84	2	168	68	0	29	1	0.97
44140928--44141095	72	2.3	75	82	11	188	69	0	29	1	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44140927--44141095	82	2.1	81	82	11	201	69	0	28	1	0.96
44141898--44141944	24	2.0	24	84	16	62	59	8	2	29	1.39
44141427--44142200	322	2.4	323	93	1	1302	50	7	10	31	1.64
44147770--44147863	27	3.5	27	85	4	136	19	29	31	19	1.96
44149212--44149261	26	1.9	26	84	15	68	38	2	0	60	1.09
44149734--44149768	10	3.6	10	84	7	54	60	2	0	37	1.12
44152994--44153090	23	4.3	23	85	2	142	29	26	20	22	1.99
44152994--44153089	45	2.1	46	92	1	158	30	27	20	21	1.98
44161538--44161609	33	2.1	34	97	2	137	30	15	2	51	1.57
44166089--44166119	2	15.5	2	100	0	62	0	51	0	48	1.00
44166886--44166919	2	17.0	2	100	0	68	50	0	0	50	1.00
44169923--44169963	21	2.0	21	95	0	73	39	4	0	56	1.21
44170154--44170184	11	2.8	11	90	0	53	70	0	29	0	0.87
44170207--44170245	19	2.0	21	85	10	55	23	0	10	66	1.22
44170291--44170325	3	11.3	3	87	6	52	31	0	5	62	1.18
44170324--44170361	3	12.7	3	100	0	76	0	0	31	68	0.90
44174093--44174140	24	2.0	24	100	0	96	54	0	8	37	1.31
44174884--44175014	39	3.7	35	77	15	128	0	31	0	68	0.90
44174929--44175073	4	36.8	4	72	21	103	0	28	0	71	0.87
44174892--44175071	44	3.9	45	81	13	183	0	30	0	70	0.88
44174898--44175071	37	4.9	36	75	15	139	0	30	0	69	0.89
44175115--44175184	27	2.6	27	93	4	115	15	28	28	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44175115--44175193	27	2.9	27	84	3	106	15	29	27	27	1.96
44178850--44178875	3	8.7	3	100	0	52	0	0	34	65	0.93
44183049--44183089	20	2.1	20	86	4	57	36	0	2	60	1.10
44187068--44187112	21	2.2	20	88	7	65	33	8	17	40	1.81
44187451--44187490	3	13.3	3	89	0	62	32	2	2	62	1.22
44187443--44187490	12	4.0	12	81	10	53	33	2	4	60	1.27
44187409--44187490	21	3.9	20	76	13	67	29	2	4	63	1.28
44187620--44187663	17	2.6	17	85	3	63	40	11	0	47	1.39
44191468--44191501	15	2.3	15	100	0	68	52	11	23	11	1.70
44193024--44193531	88	5.8	88	90	0	791	27	28	23	20	1.99

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