genome.fa.s13.2.7.7.80.10.50.1000.45.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  45  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)
13069523--13069548	7	3.7	7	100	0	52	57	15	0	26	1.38
13070715--13070740	11	2.4	11	100	0	52	38	0	38	23	1.55
13071510--13071751	111	2.2	110	86	5	330	37	15	19	27	1.92
13072083--13072121	19	2.1	19	85	9	53	23	0	15	61	1.33
13072408--13072461	25	2.1	26	86	10	76	46	0	5	48	1.25
13074709--13074791	31	2.7	30	79	3	87	45	8	16	28	1.77
13075844--13075890	22	2.1	22	84	0	58	31	0	4	63	1.13
13079783--13079875	20	4.4	21	73	17	68	44	0	3	52	1.17
13079832--13079876	5	9.0	5	100	0	90	40	0	0	60	0.97
13080853--13080932	22	3.5	22	72	5	61	16	23	20	40	1.91
13082600--13082647	17	2.9	17	78	3	53	45	8	20	25	1.79
13104048--13104132	33	2.5	33	82	3	107	12	8	37	41	1.74
13106755--13106795	20	2.0	20	86	9	57	78	0	4	17	0.93
13109140--13109175	14	2.6	14	90	0	54	36	5	19	38	1.75
13110219--13110244	10	2.6	10	100	0	52	57	23	0	19	1.40
13112027--13112105	39	2.1	39	80	7	90	55	17	11	15	1.68
13113899--13113942	21	2.1	21	83	8	54	65	9	2	22	1.32
13115053--13115087	7	4.9	7	86	6	52	54	0	31	14	1.40
13117746--13117788	20	2.2	20	100	0	86	23	16	13	46	1.83
13118471--13118534	26	2.5	26	92	0	110	34	21	26	17	1.95
13118712--13118937	27	8.4	27	86	4	296	21	17	17	43	1.87
13118712--13118961	81	3.1	81	89	1	369	22	16	17	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13119883--13119922	18	2.2	19	86	8	57	70	5	25	0	1.08
13125590--13125627	20	1.9	20	88	0	58	31	15	7	44	1.75
13125596--13125634	20	2.0	20	94	0	69	28	15	10	46	1.78
13126326--13126403	32	2.4	32	93	0	138	30	14	17	37	1.90
13126480--13126648	27	6.3	27	81	10	168	23	16	15	44	1.86
13126480--13126648	54	3.1	54	83	7	193	23	16	15	44	1.86
13126480--13126648	81	2.1	80	86	5	234	23	16	15	44	1.86
13134932--13134990	24	2.5	24	88	5	93	18	32	16	32	1.94
13134932--13134999	24	2.8	24	81	16	79	17	30	17	33	1.94
13135002--13135071	24	2.8	25	78	2	70	24	25	15	34	1.95
13139149--13139196	24	2.0	24	100	0	96	37	8	20	33	1.83
13144018--13144073	28	2.0	29	85	3	78	26	32	25	16	1.96
13149608--13149655	13	3.8	12	81	8	60	43	10	0	45	1.38
13149608--13149661	25	2.2	25	86	6	74	46	12	0	40	1.42
13149606--13149662	13	4.5	13	74	12	55	47	14	0	38	1.44
13153989--13154044	22	2.5	23	82	2	69	51	1	3	42	1.29
13154020--13154059	16	2.5	16	91	0	62	47	2	7	42	1.45
13154070--13154248	68	2.9	59	83	13	250	40	5	9	44	1.59
13154132--13154159	9	3.1	9	100	0	56	32	0	10	57	1.33
13154048--13154218	68	2.5	68	96	1	310	40	4	8	46	1.54
13154321--13154364	24	1.9	24	90	9	74	61	2	0	36	1.09
13155649--13155727	9	8.7	9	76	13	72	44	0	3	51	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13155625--13155727	26	3.8	27	74	16	88	40	0	3	54	1.25
13157558--13157583	2	13.0	2	100	0	52	50	0	0	50	1.00
13165991--13166022	3	10.7	3	93	0	55	34	31	0	34	1.58
13171804--13171852	24	2.0	24	88	0	71	28	24	20	26	1.99
13172319--13172347	14	2.1	14	100	0	58	27	6	13	51	1.66
13179699--13179738	22	2.0	22	85	14	59	70	7	5	17	1.30
13183840--13183968	25	5.4	24	66	17	72	47	24	15	13	1.81
13183829--13183969	47	3.0	47	87	0	192	46	23	14	14	1.82
13183829--13183945	22	5.0	23	72	16	89	45	23	15	15	1.84
13189674--13189756	28	3.0	28	81	11	82	38	0	2	59	1.11
13189674--13189756	30	2.9	29	78	10	89	38	0	2	59	1.11
13189675--13189737	32	1.9	33	84	9	85	34	0	1	63	1.04
13189676--13189756	26	3.0	26	81	3	90	38	0	2	59	1.11
13191831--13191898	26	2.6	25	76	4	73	19	8	1	70	1.21
13197037--13197108	23	3.1	23	82	4	83	33	23	22	20	1.97
13218265--13218346	41	2.0	41	87	0	119	26	12	14	46	1.80
13218402--13218447	17	2.4	20	75	24	62	56	8	2	32	1.42
13218406--13218445	17	2.3	18	95	4	73	52	10	2	35	1.48
13235464--13235521	27	2.2	26	78	9	64	56	5	1	36	1.32
13238207--13238275	9	7.7	9	88	0	93	42	24	10	23	1.85
13238207--13238275	27	2.6	27	90	0	111	42	24	10	23	1.85
13238225--13238282	27	2.1	27	81	6	64	44	22	8	24	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13238385--13238428	18	2.4	18	80	0	52	15	2	40	40	1.60
13247759--13247825	21	3.5	21	67	23	56	34	17	20	26	1.96
13247756--13247829	36	2.1	36	97	0	139	37	17	20	24	1.93
13247887--13247922	12	3.2	12	84	15	58	72	0	11	16	1.12
13247938--13247975	17	2.2	17	86	9	51	76	7	0	15	1.01
13247958--13248022	28	2.5	28	82	9	75	69	7	4	18	1.31
13248009--13248063	6	9.2	6	87	0	83	78	0	3	18	0.90
13247958--13248052	24	3.8	24	76	16	77	70	5	5	18	1.26
13248136--13248342	105	2.0	104	96	0	378	35	22	21	21	1.96
13249742--13249804	16	3.8	16	80	12	63	73	0	3	23	0.98
13249747--13249809	19	3.2	20	80	15	78	73	0	3	23	0.98
13249757--13249821	18	3.6	19	78	15	75	73	0	3	23	0.97
13249741--13249821	32	2.4	32	83	6	99	74	0	3	22	0.98
13249771--13249820	16	3.1	16	80	11	66	74	0	4	22	0.99
13256379--13256434	22	2.5	22	85	5	78	64	3	16	16	1.43
13256380--13256446	22	3.0	22	72	12	57	64	4	14	16	1.45
13262217--13262289	20	3.7	20	76	8	69	58	10	6	23	1.55
13262216--13262445	44	5.4	41	77	11	128	56	12	9	21	1.63
13262257--13262449	21	9.0	21	70	16	101	58	12	8	20	1.61
13262258--13262448	44	4.4	44	84	5	223	58	13	8	20	1.61
13262258--13262449	89	2.2	84	82	9	244	58	13	8	20	1.60
13266093--13266141	17	2.6	19	81	12	57	2	10	4	83	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13266085--13266149	25	2.5	25	79	18	71	4	9	4	81	0.97
13266093--13266147	18	3.1	18	84	10	60	3	9	3	83	0.88
13266207--13266234	2	14.0	2	100	0	56	0	50	0	50	1.00
13280076--13280105	7	4.3	7	91	0	51	43	0	3	53	1.17
13283120--13283169	26	1.9	26	91	4	75	56	0	0	44	0.99
13283237--13283357	64	1.9	64	96	0	224	52	9	7	31	1.61
13283370--13283400	16	1.9	16	93	0	53	54	12	6	25	1.62
13283329--13283431	50	2.1	49	83	5	129	49	9	9	31	1.68
13286619--13286838	44	4.9	43	67	20	128	47	3	3	46	1.34
13286724--13286915	101	2.0	92	76	15	176	46	3	2	47	1.29
13286687--13287287	117	5.2	116	74	18	437	43	2	4	49	1.34
13286540--13286838	91	3.3	91	96	0	526	46	3	3	46	1.35
13286854--13287268	120	3.5	120	93	3	712	42	2	5	50	1.36
13286988--13287033	16	2.9	16	78	12	51	45	0	2	52	1.13
13287225--13287266	15	2.7	16	82	14	52	45	0	2	52	1.13
13287216--13287257	15	2.9	15	82	10	52	47	0	0	52	1.00
13287411--13287500	45	2.0	45	85	6	121	34	27	5	32	1.80
13287478--13287510	16	2.1	16	100	0	66	18	33	6	42	1.75
13291438--13291494	28	2.0	28	100	0	114	28	7	14	50	1.68
13295123--13295165	23	1.9	23	85	4	61	34	11	6	46	1.67
13295910--13296133	113	2.0	112	95	1	405	39	15	15	29	1.88
13296793--13296954	81	2.0	81	97	0	306	29	19	10	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13312288--13312342	24	2.3	23	82	11	67	74	3	3	18	1.11
13314063--13314198	57	2.3	59	83	8	170	22	25	22	29	1.99
13315144--13315350	46	4.6	46	92	3	332	28	22	15	33	1.95
13315144--13315350	91	2.3	91	94	1	364	28	22	15	33	1.95
13321179--13321256	22	3.5	22	87	0	111	29	26	15	28	1.96
13323381--13323431	3	17.0	3	84	8	68	66	1	1	29	1.13
13323383--13323452	12	5.5	12	75	12	68	68	2	2	25	1.17
13323371--13323426	24	2.3	24	87	9	78	66	3	1	28	1.19
13323381--13323460	6	11.7	7	77	16	55	67	2	2	27	1.16
13323381--13323460	30	2.6	30	83	11	85	67	2	2	27	1.16

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