genome.fa.s13.2.7.7.80.10.50.1000.179.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  179  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)
51729120--51729156	17	2.3	17	86	9	51	56	5	0	37	1.22
51731842--51731884	2	21.5	2	100	0	86	48	0	0	51	1.00
51735725--51735756	12	2.7	12	95	0	55	28	25	0	46	1.53
51745924--51745964	20	2.1	19	86	13	57	24	4	2	68	1.22
51746678--51746723	16	2.6	17	80	19	51	45	0	32	21	1.52
51746804--51746863	30	2.0	31	86	3	86	40	0	40	20	1.52
51746963--51746997	5	7.0	5	100	0	70	20	0	80	0	0.72
51747557--51747586	12	2.4	13	94	5	53	40	0	0	60	0.97
51747956--51748021	29	2.2	31	84	10	84	36	12	0	51	1.39
51750427--51750519	46	2.0	46	95	0	168	44	15	6	34	1.72
51754994--51755023	9	3.3	9	90	0	51	33	13	20	33	1.91
51756893--51756937	22	2.1	22	87	4	65	11	15	28	44	1.81
51756980--51757207	43	5.3	44	82	4	234	29	31	17	22	1.96
51756980--51757187	86	2.4	86	83	3	258	28	31	17	23	1.97
51759217--51759246	15	2.0	15	93	0	51	63	20	3	13	1.43
51760882--51760936	7	8.0	7	73	18	53	38	43	1	16	1.58
51760882--51760929	13	3.6	13	78	13	53	37	43	2	16	1.60
51761004--51761052	22	2.3	21	92	3	80	42	38	0	18	1.50
51761137--51761172	14	2.6	14	95	0	63	44	30	0	25	1.54
51761429--51761590	41	4.0	41	94	0	270	30	24	20	24	1.99
51761936--51761974	19	2.0	19	85	5	51	53	15	20	10	1.70
51762244--51762287	12	3.7	12	81	0	52	22	0	11	65	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51763139--51763181	18	2.4	18	80	0	50	32	4	41	20	1.73
51767856--51767885	16	1.9	15	93	6	51	26	3	0	70	1.03
51768547--51768634	24	3.5	24	68	22	72	54	11	4	29	1.56
51768690--51768861	41	4.8	36	78	15	144	0	31	0	68	0.90
51768690--51768851	78	2.1	75	90	4	254	0	29	0	70	0.88
51768983--51769029	25	1.9	25	95	4	87	55	0	8	36	1.31
51774619--51774671	22	2.4	22	78	9	54	37	0	0	62	0.96
51775140--51775212	34	2.1	34	100	0	146	34	10	9	45	1.72
51779492--51779569	28	2.8	28	90	0	120	43	8	24	23	1.82
51779555--51779832	138	2.0	138	97	0	529	29	18	12	39	1.87
51785863--51785924	31	2.0	31	96	0	115	41	17	9	30	1.82
51787349--51787386	20	1.9	20	88	0	58	39	7	7	44	1.63
51792934--51792978	21	2.0	21	83	8	54	44	15	2	37	1.59
51793027--51793122	48	2.0	48	95	0	174	28	19	13	38	1.90
51793392--51793432	23	1.9	22	85	14	59	56	7	0	36	1.27
51793642--51793673	2	16.0	2	100	0	64	50	0	0	50	1.00
51794240--51794317	20	3.8	20	66	17	52	56	1	3	38	1.26
51795040--51795130	45	2.0	45	83	8	114	43	5	20	29	1.74
51801008--51801592	300	1.9	301	88	1	879	31	15	19	33	1.92
51806267--51806552	50	5.8	50	82	6	352	20	30	22	26	1.98
51806889--51806947	30	2.0	30	83	12	77	32	22	6	38	1.80
51809659--51809757	15	6.1	16	73	13	69	61	2	9	27	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51810547--51810571	13	1.9	13	100	0	50	76	0	0	24	0.80
51810645--51810725	36	2.2	36	91	0	126	12	20	39	27	1.89
51810771--51810813	14	3.2	14	80	9	54	16	11	39	32	1.84
51812975--51813024	22	2.3	22	86	6	66	74	0	2	24	0.93
51812975--51813037	20	3.1	20	79	6	65	73	0	1	25	0.93
51823843--51823881	19	2.0	20	85	14	55	35	12	5	46	1.65
51824177--51824225	24	2.0	24	100	0	98	34	16	8	40	1.78
51825017--51825060	20	2.3	18	84	7	52	27	0	4	68	1.09
51838432--51838498	11	6.4	11	72	20	54	37	1	0	61	1.05
51838698--51838725	14	2.0	14	100	0	56	21	7	28	42	1.79
51845147--51845288	30	4.7	30	75	3	124	9	26	30	33	1.88
51845147--51845287	60	2.3	60	79	0	156	9	26	29	34	1.88
51845987--51846451	105	4.5	102	77	7	357	29	19	18	33	1.95
51845987--51846461	104	4.5	102	77	10	374	28	19	18	34	1.95
51848207--51848274	24	2.8	25	93	6	122	17	17	33	30	1.94
51848542--51848626	30	2.8	30	83	0	107	15	25	28	30	1.96
51848587--51848664	30	2.6	30	83	0	84	19	23	26	30	1.98
51853168--51853289	65	2.0	60	87	8	172	54	4	6	33	1.48
51853972--51854012	18	2.3	18	100	0	82	9	60	4	24	1.47
51888810--51888839	15	2.0	15	93	0	51	20	16	33	30	1.94
51894016--51894062	19	2.5	18	83	10	58	14	12	17	55	1.70
51899839--51899864	2	13.0	2	100	0	52	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)
51904741--51904771	2	15.5	2	100	0	62	51	0	48	0	1.00
51906029--51906078	6	8.2	6	84	4	55	18	6	12	64	1.47
51907589--51907646	9	6.4	9	87	0	89	43	24	8	24	1.82
51907589--51907646	27	2.1	27	96	0	107	43	24	8	24	1.82
51907749--51907786	13	2.9	13	100	0	76	13	0	47	39	1.42
51908313--51908372	27	2.2	27	90	0	93	41	5	10	43	1.60
51910244--51910287	3	14.7	3	100	0	88	65	0	0	34	0.93
51910805--51910862	30	2.0	29	83	10	73	72	0	10	17	1.11
51912287--51912555	44	5.9	44	69	11	146	31	18	14	34	1.92
51921845--51921885	3	13.7	3	100	0	82	65	0	0	34	0.93
51925921--51925981	9	6.8	9	77	7	61	57	3	9	29	1.47
51925909--51925984	27	2.7	29	84	10	86	56	3	7	31	1.46
51925933--51925993	12	5.1	12	77	0	68	55	0	11	32	1.36
51927360--51927430	21	3.4	21	76	3	72	39	14	28	18	1.89
51927333--51927457	42	3.0	42	82	4	137	42	16	23	17	1.89
51927395--51927445	21	2.4	21	76	0	57	43	19	23	13	1.87
51931216--51931508	144	2.0	144	99	0	577	39	17	12	30	1.87
51931906--51932096	41	4.7	40	86	3	233	32	25	20	20	1.97
51939090--51939187	40	2.5	41	75	8	98	30	25	20	23	1.98
51940510--51940591	42	2.0	42	85	4	112	43	14	21	19	1.87
51948092--51948117	6	4.3	6	100	0	52	15	0	0	84	0.62
51959608--51959724	58	2.0	58	100	0	234	25	22	13	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51964011--51964058	15	3.1	15	84	3	60	50	50	0	0	1.00
51964023--51964058	5	7.2	5	96	0	54	47	52	0	0	1.00
51966789--51966815	2	13.5	2	100	0	54	51	48	0	0	1.00
51971691--51971732	16	2.5	17	84	7	50	66	0	7	26	1.17
51973421--51973545	58	2.2	58	75	5	128	53	11	13	21	1.70
51975053--51975106	20	2.7	20	82	0	63	24	27	12	35	1.92
51976636--51976680	22	2.1	22	88	12	67	60	13	2	24	1.45
51981416--51981441	5	5.2	5	100	0	52	42	0	0	57	0.98
51984776--51984824	22	2.2	22	78	7	55	38	2	2	57	1.22
51986725--51986758	15	2.2	16	89	5	52	67	0	0	32	0.91
51986756--51986786	16	1.9	16	93	0	53	45	3	9	41	1.53
51992355--51992388	6	5.7	6	92	0	50	41	8	14	35	1.77
51992355--51992388	12	2.8	12	90	0	59	41	8	14	35	1.77
51998662--51998708	18	2.6	18	74	16	51	55	0	0	44	0.99
52008593--52008744	76	2.0	76	94	1	270	27	13	8	50	1.71
52014884--52014924	16	2.5	17	84	4	57	53	0	0	46	1.00
52015469--52015502	12	2.9	12	91	4	52	23	0	11	64	1.26
52015488--52015701	99	2.2	97	77	15	222	28	0	15	54	1.47
52015505--52015728	101	2.2	101	86	7	301	29	0	14	55	1.43
52015716--52015780	16	4.0	16	77	16	62	29	1	1	67	1.09
52015717--52015753	16	2.2	16	95	4	65	27	0	0	72	0.84
52015546--52015739	101	1.9	99	91	4	318	26	0	14	58	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52015724--52015769	23	2.1	21	84	8	56	30	2	0	67	1.03
52015969--52016019	22	2.3	22	89	0	75	23	15	27	33	1.95
52018009--52018304	76	3.9	76	85	4	411	26	8	13	51	1.70
52018009--52018304	150	2.0	150	85	7	404	26	8	13	51	1.70
52019510--52019582	38	1.9	38	88	0	110	31	26	19	23	1.98
52021322--52021376	19	3.0	19	73	5	51	60	16	0	23	1.36
52027708--52027746	18	2.2	17	86	13	53	33	0	20	46	1.51
52038420--52038455	6	6.0	6	100	0	72	50	16	0	33	1.46
52041008--52041070	21	3.0	21	79	4	65	61	4	4	28	1.36
52041223--52041274	21	2.4	21	83	6	68	42	5	3	48	1.45

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