genome.fa.s13.2.7.7.80.10.50.1000.151.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  151  of  199  ( 23770 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)
45287434--45287496	21	3.0	21	73	19	67	22	1	38	38	1.64
45287439--45287503	21	3.1	20	72	22	53	21	3	36	38	1.69
45287689--45287732	21	2.1	21	83	8	54	25	0	36	38	1.56
45288394--45288777	195	2.0	191	89	2	579	19	24	13	43	1.86
45290060--45290109	17	3.2	17	78	21	72	36	6	6	52	1.51
45290078--45290105	13	2.2	13	100	0	56	39	7	7	46	1.59
45290101--45290139	16	2.5	15	88	8	60	41	0	5	53	1.23
45290071--45290219	62	2.4	61	80	4	165	36	5	10	46	1.61
45290301--45290687	9	42.8	9	78	6	381	47	17	2	32	1.62
45290315--45290687	100	3.8	100	87	2	495	47	17	2	31	1.61
45290325--45290687	73	4.9	72	83	4	422	48	17	1	31	1.59
45294856--45294924	21	3.3	21	80	13	79	37	17	43	1	1.58
45294899--45294933	12	2.9	12	95	0	61	42	14	40	2	1.60
45295371--45295470	42	2.4	42	85	11	134	29	25	21	25	1.99
45296132--45296173	20	2.1	20	90	0	66	73	4	2	19	1.12
45296221--45296260	16	2.3	19	87	12	59	65	2	0	32	1.06
45296239--45296332	10	9.1	11	70	17	51	61	3	1	34	1.19
45296232--45296333	9	10.5	10	71	16	54	61	2	0	34	1.17
45296269--45296323	21	2.7	21	88	2	85	60	3	1	34	1.25
45296783--45296908	27	4.6	26	76	15	103	37	2	3	57	1.28
45296813--45296946	27	4.8	26	72	15	92	34	0	4	60	1.22
45296764--45296910	9	15.9	9	70	15	61	34	2	3	59	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45299921--45299963	23	2.0	21	86	13	61	25	18	0	55	1.42
45299928--45299972	22	2.0	23	82	4	56	22	26	0	51	1.49
45300139--45300169	5	6.2	5	100	0	62	41	0	0	58	0.98
45301095--45301119	12	2.1	12	100	0	50	8	16	0	76	1.02
45307489--45307542	10	5.6	10	72	16	51	74	1	1	22	1.02
45307489--45307543	20	2.9	18	84	12	74	72	3	1	21	1.09
45307902--45307960	21	2.8	20	80	14	57	54	3	1	40	1.27
45307942--45308038	11	9.4	11	70	23	59	60	0	3	36	1.12
45307952--45307985	17	2.0	17	94	0	59	61	0	0	38	0.96
45307927--45308027	30	3.3	30	86	10	127	60	0	2	36	1.12
45307971--45308060	41	2.2	39	84	9	126	65	0	2	32	1.05
45308776--45308893	40	2.9	41	87	5	170	33	3	0	62	1.12
45308844--45308910	28	2.3	29	92	2	109	32	2	0	64	1.09
45308822--45308917	29	3.2	29	75	7	86	35	2	0	62	1.07
45309447--45309481	3	11.7	3	93	0	61	0	37	28	34	1.58
45309476--45309562	24	3.8	24	66	13	56	32	35	3	28	1.74
45310851--45310892	16	2.6	16	100	0	84	9	23	45	21	1.81
45311038--45311064	8	3.4	8	100	0	54	88	0	0	11	0.50
45311518--45311566	22	2.2	23	88	3	73	48	2	2	46	1.25
45311515--45311572	22	2.9	21	73	16	61	46	3	3	46	1.36
45311561--45311800	112	2.1	112	91	1	383	40	7	7	44	1.61
45311798--45311823	6	4.3	6	100	0	52	15	0	46	38	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45311871--45311934	27	2.4	27	89	0	101	26	0	32	40	1.56
45311874--45311954	27	2.6	32	72	22	73	24	0	33	41	1.55
45311871--45311945	27	2.8	27	81	4	89	26	0	32	41	1.56
45311886--45312144	95	2.7	95	92	0	428	21	0	33	44	1.58
45311970--45312028	15	4.1	15	77	20	72	23	0	30	45	1.53
45311976--45312038	27	2.3	27	94	2	108	23	0	38	38	1.55
45311996--45312290	33	9.6	33	71	22	218	21	1	35	42	1.60
45312065--45312121	15	4.0	15	72	21	59	22	0	33	43	1.54
45312076--45312281	27	7.2	27	72	24	174	21	0	36	40	1.60
45312080--45312335	113	2.3	113	93	2	424	20	0	35	43	1.57
45312127--45312354	53	4.2	53	78	12	230	18	0	35	44	1.54
45313515--45313546	7	4.6	7	100	0	64	56	15	0	28	1.40
45313542--45313574	7	4.7	7	100	0	66	57	15	0	27	1.38
45313521--45313567	14	3.4	14	88	11	62	57	14	0	27	1.38
45313515--45313574	21	2.9	21	85	14	72	56	15	0	28	1.39
45314729--45314849	11	10.3	11	71	15	55	47	1	27	23	1.61
45314716--45314815	51	2.0	50	86	7	139	46	2	26	26	1.64
45314777--45314837	22	2.8	22	85	9	81	42	1	32	22	1.64
45314775--45314837	33	1.9	33	87	12	94	42	1	31	23	1.64
45314796--45314849	22	2.4	22	84	3	63	48	1	27	22	1.61
45315637--45315692	28	2.0	28	100	0	112	32	25	10	32	1.90
45317819--45317850	15	2.1	16	88	11	50	53	21	3	21	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45323780--45323997	95	2.3	95	79	1	240	38	20	15	25	1.92
45326174--45326244	36	2.0	36	82	0	88	29	25	21	23	1.99
45339738--45339781	14	3.2	14	87	9	56	29	4	0	65	1.12
45339756--45339790	14	2.5	14	90	0	52	37	0	0	62	0.95
45342308--45342362	28	2.0	28	100	0	110	10	25	14	49	1.76
45344836--45344865	10	2.8	11	90	10	53	36	26	0	36	1.57
45349234--45349309	39	1.9	39	94	0	134	32	22	15	28	1.95
45349853--45349879	3	9.0	3	100	0	54	66	0	0	33	0.92
45371974--45372082	57	1.9	56	84	3	146	29	17	6	46	1.73
45373610--45373666	28	2.0	28	86	0	78	7	19	0	73	1.05
45373603--45373663	31	1.9	31	87	12	88	6	18	0	75	1.01
45375883--45375926	20	2.2	20	100	0	88	65	4	20	9	1.38
45386534--45386574	21	2.0	21	85	9	57	34	7	9	48	1.64
45394454--45394966	184	2.8	184	90	0	765	28	8	19	43	1.80
45398805--45398855	24	2.2	24	77	22	56	33	0	5	60	1.21
45399009--45399085	14	5.0	15	72	20	61	41	15	9	33	1.79
45399025--45399064	20	2.0	20	90	0	62	50	12	10	27	1.72
45404911--45404982	8	8.5	8	77	11	54	20	4	0	75	0.97
45404917--45404982	21	3.1	22	81	16	77	21	4	0	74	1.00
45408527--45408551	13	1.9	13	100	0	50	76	8	0	16	1.02
45409321--45409434	45	2.5	45	85	0	147	39	15	22	21	1.92
45409454--45409520	35	1.9	35	84	6	91	52	8	16	22	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45410941--45411008	28	2.4	28	87	0	91	45	4	14	35	1.65
45410971--45411116	13	11.0	12	71	22	80	41	1	18	38	1.59
45410969--45411023	28	2.0	28	85	7	76	49	1	14	34	1.54
45410971--45411125	40	3.9	39	83	7	163	41	1	18	38	1.59
45410970--45411108	27	5.2	27	74	12	81	43	1	18	36	1.59
45411908--45411952	20	2.2	20	92	0	72	26	0	26	46	1.53
45413567--45413655	40	2.2	40	98	2	171	44	19	4	31	1.70
45413694--45413834	41	3.5	41	73	5	115	29	25	21	23	1.99
45418519--45418616	23	4.3	23	77	5	81	41	22	17	18	1.90
45419942--45420045	37	2.8	39	72	20	98	51	3	3	40	1.38
45427428--45427479	25	2.1	24	89	3	77	17	23	21	38	1.93
45427809--45427866	17	3.5	17	69	23	52	43	3	17	36	1.66
45438010--45438052	19	2.3	19	95	0	77	60	6	0	32	1.23
45440830--45440865	2	18.0	2	100	0	72	50	0	0	50	1.00
45458884--45458924	19	2.2	19	83	12	50	39	2	4	53	1.35
45462002--45462047	22	2.1	22	100	0	92	26	17	17	39	1.91
45462270--45462308	20	2.0	20	84	0	51	61	2	0	35	1.10
45463292--45463332	8	4.7	9	79	14	50	65	0	0	34	0.93
45463412--45463482	34	2.1	34	84	5	90	42	18	8	30	1.80
45470990--45471139	43	3.5	43	80	3	169	30	24	15	30	1.95
45475731--45475770	21	1.9	21	89	0	62	57	22	0	20	1.41
45480545--45480638	29	3.2	29	84	0	125	17	28	35	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45493210--45493247	18	2.1	18	95	0	67	0	55	0	44	0.99
45493307--45493356	25	2.0	25	92	0	82	4	32	4	60	1.34
45496161--45496199	20	1.9	21	94	5	71	48	0	2	48	1.15
45496282--45496358	14	5.0	15	71	20	52	44	14	9	32	1.76
45496298--45496338	20	2.0	20	90	0	64	51	12	9	26	1.70
45496286--45496352	35	1.9	35	87	3	100	47	11	8	31	1.71
45496321--45496360	14	2.9	14	84	0	53	45	15	7	32	1.74
45497101--45497138	7	5.3	7	82	17	51	15	0	0	84	0.63
45500594--45500634	12	3.8	11	84	15	50	51	12	26	9	1.70
45504437--45504538	40	2.5	40	90	0	159	45	31	14	8	1.76

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