genome.fa.s13.2.7.7.80.10.50.1000.181.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  181  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)
52379656--52379680	2	12.5	2	100	0	50	48	0	0	52	1.00
52380466--52380513	22	2.1	24	88	7	73	68	4	0	27	1.07
52380508--52380569	30	2.1	30	90	3	99	50	9	1	38	1.45
52380884--52380916	2	17.0	2	87	6	50	45	0	3	51	1.16
52386697--52386741	19	2.4	19	76	0	54	57	6	11	24	1.57
52387868--52387976	58	1.9	55	87	9	157	55	2	0	41	1.21
52388167--52388222	23	2.5	22	81	16	62	46	0	7	46	1.30
52389524--52389670	57	2.5	59	85	8	192	21	26	22	29	1.99
52395819--52395861	22	2.0	22	85	0	59	48	6	4	39	1.51
52397854--52397883	10	2.8	11	90	10	53	76	6	6	10	1.15
52400640--52400677	15	2.4	17	82	13	53	34	7	0	57	1.28
52410762--52410926	45	3.6	45	76	8	177	32	18	24	24	1.97
52410726--52410883	50	3.3	50	75	8	200	32	20	20	26	1.97
52410958--52411128	48	3.5	48	69	6	146	29	25	22	21	1.99
52410726--52411303	98	5.9	98	89	2	668	32	23	21	23	1.98
52410794--52411303	197	2.6	196	86	2	697	32	23	21	22	1.98
52418230--52418267	15	2.4	17	82	13	53	34	7	0	57	1.28
52420129--52420205	40	1.9	41	86	2	111	49	1	6	42	1.36
52422785--52422832	19	2.6	18	81	12	53	35	2	6	56	1.36
52422857--52422896	21	1.9	21	94	0	71	25	0	7	67	1.16
52433755--52433801	23	2.0	24	87	4	69	74	0	2	23	0.93
52434715--52434757	19	2.3	18	81	14	52	25	0	4	69	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52434726--52434769	18	2.3	19	84	7	54	31	0	2	65	1.05
52435168--52435193	7	3.7	7	100	0	52	88	0	0	11	0.52
52436228--52436253	6	4.3	6	100	0	52	15	19	30	34	1.93
52437506--52437584	41	1.9	41	100	0	158	15	24	12	48	1.79
52445903--52445950	23	2.1	23	100	0	96	25	22	22	29	1.99
52446713--52446753	21	1.9	22	95	5	75	60	0	0	39	0.96
52461129--52461177	18	2.9	17	82	8	55	2	22	4	71	1.13
52477810--52477852	22	2.0	22	86	4	61	60	0	0	39	0.97
52479909--52479933	12	2.1	12	100	0	50	0	24	0	76	0.80
52482722--52482763	18	2.4	18	84	4	59	38	9	0	52	1.34
52486198--52486776	311	1.9	311	85	1	820	45	11	10	33	1.73
52497293--52497332	18	2.2	18	86	4	53	12	27	0	60	1.33
52500655--52500703	13	3.8	13	78	8	55	69	6	4	20	1.27
52500746--52500783	19	1.9	19	89	5	58	73	0	5	21	1.02
52500765--52500799	13	2.7	13	87	12	54	71	0	11	17	1.14
52500746--52500784	20	2.0	20	89	0	60	74	0	5	20	1.01
52500766--52500800	14	2.6	14	95	4	63	74	0	8	17	1.06
52521915--52521987	29	2.5	29	90	0	119	30	9	13	46	1.75
52535856--52535885	14	2.1	15	93	6	53	53	6	0	40	1.27
52536344--52536418	20	3.8	20	76	11	73	34	17	24	24	1.96
52549034--52549091	10	5.7	10	76	11	64	31	27	12	29	1.92
52554263--52554313	21	2.4	22	83	6	61	7	21	1	68	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52557869--52557921	11	4.9	11	77	11	56	35	33	1	28	1.68
52559241--52559285	20	2.3	19	84	7	54	31	11	33	24	1.90
52566011--52566070	22	2.7	22	78	0	66	36	5	33	25	1.78
52572739--52572801	21	3.0	21	85	2	81	33	31	3	31	1.74
52588103--52588167	22	2.9	22	82	11	78	33	35	4	26	1.77
52594018--52594184	45	3.7	43	82	3	181	43	16	19	19	1.88
52602694--52602768	31	2.4	32	80	13	84	46	13	10	29	1.76
52606618--52606690	25	2.9	25	83	0	83	30	19	17	32	1.95
52612572--52612612	11	3.7	11	96	0	73	48	21	9	19	1.77
52613589--52613617	14	2.0	15	93	6	51	37	27	0	34	1.57
52614288--52614397	54	2.0	54	89	0	166	28	23	7	40	1.81
52614443--52614482	21	1.9	21	89	0	62	37	7	0	55	1.29
52616719--52616846	35	3.6	35	84	5	143	41	32	11	14	1.82
52618561--52618651	27	3.4	27	80	7	105	26	25	14	34	1.94
52618578--52618650	26	2.8	25	89	6	101	27	24	10	36	1.89
52632144--52632179	18	2.0	18	94	0	63	36	11	5	47	1.63
52632353--52632393	11	3.8	11	78	18	50	46	0	0	53	1.00
52635077--52635119	2	21.5	2	100	0	86	48	0	0	51	1.00
52636450--52636498	20	2.4	20	83	12	64	22	6	16	55	1.63
52636450--52636499	21	2.4	21	87	9	68	22	6	16	56	1.62
52646492--52646521	12	2.5	12	100	0	60	80	0	6	13	0.91
52646416--52646520	55	1.9	55	84	5	140	72	3	14	9	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52656058--52656102	18	2.5	17	82	13	54	73	4	15	6	1.21
52656056--52656107	18	2.8	18	75	16	52	67	3	19	9	1.35
52672387--52672430	17	2.7	16	80	19	63	15	18	2	63	1.41
52676180--52676227	21	2.3	21	82	7	62	70	8	2	18	1.22
52685984--52686139	33	4.6	33	68	23	99	35	28	19	16	1.94
52685774--52686143	104	3.6	103	91	1	580	31	28	20	19	1.97
52697053--52697114	10	5.9	10	74	10	52	33	32	3	30	1.74
52697053--52697115	21	3.0	21	88	2	90	33	33	3	30	1.74
52698062--52698209	72	2.0	73	85	3	201	26	16	28	29	1.97
52701112--52701157	20	2.3	20	85	7	58	34	17	23	23	1.96
52747943--52747992	23	2.1	24	82	10	59	70	0	8	22	1.13
52752700--52753059	27	13.3	27	81	1	400	42	20	19	18	1.89
52753240--52753315	26	2.9	26	76	3	73	17	21	22	39	1.92
52753840--52753912	29	2.5	29	90	0	119	30	9	13	46	1.75
52759140--52759197	29	2.0	29	89	0	89	24	6	32	36	1.82
52759679--52759716	20	1.9	20	88	0	58	47	2	7	42	1.46
52759684--52759774	20	4.7	20	77	8	71	38	6	14	40	1.72
52759717--52759772	18	2.9	19	76	10	69	28	8	17	44	1.79
52759700--52759772	38	1.9	38	91	0	119	32	6	16	43	1.74
52760464--52760536	36	2.0	36	89	0	110	30	19	15	35	1.92
52760642--52760680	20	2.0	20	89	0	60	56	10	10	23	1.63
52770287--52770361	36	2.1	37	87	2	107	57	2	4	36	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52780551--52780590	16	2.4	17	87	4	55	52	0	5	42	1.23
52785651--52785698	23	2.1	23	84	7	62	35	20	10	33	1.87
52790353--52790383	16	1.9	16	93	0	53	22	16	0	61	1.34
52790508--52790606	46	2.2	43	81	12	110	31	24	20	24	1.98
52790612--52790802	51	3.8	51	74	8	192	30	26	17	25	1.97
52796602--52796653	26	2.0	26	85	7	70	36	17	5	40	1.73
52796810--52796883	25	3.0	25	80	7	71	33	18	24	22	1.97
52806952--52807025	36	2.1	36	97	0	139	63	2	25	8	1.35
52806952--52807004	18	2.9	19	71	21	58	62	1	28	7	1.33
52806964--52807021	18	3.2	18	70	18	57	60	3	27	8	1.42
52806972--52807031	18	3.5	16	69	22	50	66	3	23	6	1.30
52811508--52811609	26	3.9	26	92	3	152	17	25	20	36	1.94
52812810--52812850	22	1.9	22	85	5	57	68	2	2	26	1.15
52821428--52821465	19	2.0	19	85	10	51	55	0	7	36	1.29
52825344--52825393	23	2.2	23	88	0	73	46	14	24	16	1.83
52826569--52826629	30	2.0	30	84	6	79	42	6	18	32	1.76
52827098--52827437	51	6.7	51	80	7	356	29	15	25	29	1.96
52827098--52827441	102	3.4	102	85	3	437	29	15	25	29	1.96
52827717--52827759	22	2.0	22	90	0	68	11	18	27	41	1.85
52827831--52828009	43	4.2	43	78	2	162	25	30	16	26	1.97
52827841--52828075	86	2.8	82	78	7	220	28	30	15	25	1.96
52827928--52828027	43	2.3	43	84	0	119	28	31	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52838653--52838678	13	2.0	13	100	0	52	53	7	15	23	1.67
52840166--52840208	22	2.0	22	85	0	59	13	18	25	41	1.88
52840280--52840422	43	3.3	43	85	0	187	22	30	20	27	1.98
52845073--52845169	38	2.5	40	80	13	121	18	16	22	42	1.89
52856646--52856988	102	3.4	101	86	4	417	28	16	25	29	1.97
52856646--52856982	51	6.7	50	76	7	288	28	16	25	29	1.97
52860257--52860313	30	1.9	30	92	0	96	33	19	17	29	1.95
52867001--52867039	20	1.9	21	84	5	53	41	12	2	43	1.56
52867056--52867095	19	2.1	19	86	9	55	32	5	2	60	1.32
52868370--52868423	28	2.0	28	88	3	83	50	0	5	44	1.25

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