genome.fa.s13.2.7.7.80.10.50.1000.44.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  44  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)
12796173--12796236	28	2.4	27	84	7	85	31	1	4	62	1.25
12796594--12796623	2	15.0	2	100	0	60	50	0	0	50	1.00
12806202--12806238	14	2.7	15	84	16	53	16	10	0	72	1.10
12807832--12807869	16	2.3	17	86	4	51	57	21	0	21	1.40
12812940--12813002	23	2.7	22	80	4	72	25	20	15	38	1.92
12814378--12814453	23	3.3	23	88	0	116	38	14	18	28	1.90
12814354--12814455	46	2.2	46	85	0	132	36	14	20	28	1.92
12814354--12814455	23	4.4	23	81	0	114	36	14	20	28	1.92
12824542--12824571	15	2.0	15	100	0	60	40	13	6	40	1.71
12826668--12826767	42	2.4	42	84	0	119	40	17	24	19	1.91
12832237--12832336	42	2.4	42	84	0	119	37	18	28	17	1.92
12845742--12845796	19	2.9	19	71	10	58	63	1	1	32	1.15
12845785--12845863	29	2.7	30	77	11	85	54	2	10	32	1.47
12847801--12848151	88	4.0	86	74	9	336	29	21	17	31	1.96
12847801--12847939	46	3.1	46	78	8	178	28	20	16	33	1.95
12847861--12848242	173	2.2	174	89	1	579	29	20	17	31	1.96
12848165--12848284	44	2.7	44	77	0	123	27	23	19	30	1.98
12850430--12850462	10	3.4	10	87	4	50	6	15	0	78	0.93
12851219--12851284	25	2.6	25	83	9	71	57	6	15	21	1.59
12876550--12876593	3	14.7	3	100	0	88	0	0	31	68	0.90
12877832--12878175	148	2.3	150	87	5	487	41	11	4	42	1.60
12889898--12889934	20	2.0	20	89	10	60	35	0	18	45	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12890433--12890489	23	2.4	24	80	19	66	56	5	3	35	1.39
12892744--12892789	24	1.9	24	86	0	65	52	6	13	28	1.65
12893980--12895558	496	3.2	491	78	6	1454	37	12	11	37	1.80
12901377--12901458	30	2.7	29	87	7	119	34	24	20	20	1.97
12901568--12901815	61	4.1	61	85	1	327	39	25	16	18	1.91
12901699--12901799	29	3.4	29	70	12	87	38	29	13	17	1.89
12901724--12901815	32	3.0	30	70	9	96	41	28	16	14	1.87
12907590--12907707	44	2.7	43	74	16	109	29	26	16	27	1.97
12919134--12919193	21	2.7	23	71	5	61	45	23	16	15	1.85
12924437--12924482	15	2.9	16	77	9	58	32	0	0	67	0.91
12924453--12924501	25	2.0	25	88	8	73	36	0	0	63	0.95
12929452--12929843	43	9.2	43	87	1	421	24	25	19	30	1.98
12929450--12929764	128	2.4	128	85	2	416	25	24	20	30	1.99
12930132--12930291	87	1.8	87	85	2	223	14	26	17	41	1.88
12932595--12933456	44	19.5	44	71	15	379	31	2	17	48	1.61
12932682--12932836	9	18.6	9	67	16	75	31	1	20	46	1.61
12932664--12932795	25	5.3	25	70	10	74	32	1	19	46	1.60
12932789--12932923	25	5.9	25	67	19	78	28	2	16	51	1.59
12932727--12932836	34	3.3	32	74	13	89	30	2	19	48	1.63
12932951--12933032	25	3.3	25	76	10	62	34	2	19	43	1.64
12932595--12933456	266	3.3	266	96	0	1586	31	2	17	48	1.61
12933214--12933368	9	18.6	9	66	17	50	30	2	20	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12933270--12933369	16	6.6	16	64	23	54	27	2	20	51	1.58
12933242--12933367	25	5.0	25	73	14	75	28	3	19	48	1.64
12933635--12933723	18	4.8	18	80	14	101	42	1	12	43	1.49
12933663--12933723	17	3.5	17	86	4	86	42	0	13	44	1.43
12933627--12933723	39	2.6	37	85	12	135	44	1	11	43	1.47
12933620--12933832	105	2.0	106	84	6	281	42	2	12	43	1.55
12933746--12933809	13	4.8	13	76	17	60	39	1	14	45	1.54
12933671--12933871	105	1.9	104	82	9	248	41	2	13	42	1.58
12935120--12936262	338	3.4	336	81	5	1193	33	18	17	30	1.94
12937461--12937517	26	2.2	26	81	9	64	19	14	7	59	1.57
12937626--12937717	41	2.2	41	80	3	96	39	31	16	13	1.86
12937713--12937975	89	3.0	89	89	2	401	20	22	22	34	1.97
12939709--12939757	16	3.1	16	75	19	50	53	0	2	44	1.12
12946974--12947013	16	2.4	17	83	12	55	55	0	35	10	1.34
12948901--12949001	41	2.5	41	86	0	148	30	13	23	31	1.94
12950694--12950729	18	2.1	18	94	5	65	33	2	5	58	1.36
12950954--12951014	24	2.7	24	83	16	69	16	6	6	70	1.30
12951116--12951150	15	2.3	15	95	0	61	22	0	11	65	1.24
12962663--12963724	44	24.6	43	71	13	478	29	20	22	27	1.99
12962657--12963731	217	5.0	217	89	2	1547	29	20	22	27	1.99
12964978--12965033	24	2.3	24	90	0	85	25	16	28	30	1.96
12965069--12965114	21	2.2	21	81	14	51	26	6	2	65	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12965356--12965391	17	2.1	18	89	5	56	30	2	5	61	1.33
12966349--12966957	303	2.0	302	98	0	1173	31	16	15	37	1.89
12969053--12969100	21	2.3	21	96	0	87	43	2	16	37	1.60
12970672--12970775	39	2.7	39	81	0	127	29	3	20	46	1.68
12975692--12975717	9	2.9	9	100	0	52	23	0	7	69	1.14
12976431--12976466	10	3.5	10	85	7	54	77	2	2	16	1.00
12977628--12977675	3	15.7	3	80	4	51	56	0	6	37	1.25
12982196--12982251	29	1.9	29	100	0	112	41	16	14	28	1.87
12983202--12983241	20	1.9	21	85	10	55	12	10	22	55	1.67
12983510--12983548	5	7.8	5	100	0	78	38	0	0	61	0.96
12985911--12985951	12	3.4	12	82	0	55	26	9	17	46	1.79
12986617--12986677	20	3.3	18	80	13	61	42	3	4	49	1.40
12989545--12989579	17	2.1	17	89	10	54	20	2	5	71	1.19
12990034--12990228	98	2.0	98	95	0	354	35	25	10	28	1.89
12991304--12991406	19	5.1	21	82	6	74	41	14	6	36	1.73
12991304--12991361	22	2.6	22	81	7	64	41	17	5	36	1.72
12991340--12991431	19	4.8	19	86	0	139	38	13	8	40	1.75
12991340--12991431	38	2.4	38	98	0	175	38	13	8	40	1.75
12991852--12992487	132	4.8	132	93	1	1044	28	24	18	28	1.98
12998535--12998648	32	3.6	32	70	15	94	54	2	1	41	1.25
12998678--12998765	26	3.3	26	73	9	86	46	2	1	50	1.21
12998637--12998767	55	2.3	58	88	5	187	46	2	0	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13000800--13000841	22	1.9	22	90	0	66	7	2	11	78	1.04
13000923--13000987	30	2.2	30	97	0	121	23	3	15	58	1.51
13001068--13001105	18	2.1	18	85	9	51	23	0	10	65	1.23
13002857--13002907	18	2.8	18	88	5	68	5	37	0	56	1.23
13010754--13010864	51	2.2	51	93	0	186	31	21	14	32	1.93
13012218--13012251	12	2.8	12	100	0	68	55	0	0	44	0.99
13019901--13019929	3	9.7	3	100	0	58	68	0	0	31	0.89
13023463--13023587	62	2.0	61	86	3	171	15	15	18	51	1.77
13027807--13027983	53	3.3	53	79	7	164	34	12	24	27	1.92
13028166--13028270	28	3.7	28	78	7	95	29	16	22	31	1.96
13030407--13030438	6	5.3	6	96	0	55	34	12	0	53	1.39
13033186--13033556	63	6.0	62	83	8	450	43	16	5	33	1.71
13033186--13033556	123	3.0	122	88	3	510	43	16	5	33	1.71
13038123--13038158	15	2.5	14	86	8	54	44	8	0	47	1.33
13040012--13040073	5	12.0	5	73	13	54	75	0	3	20	0.94
13040005--13040110	11	9.9	10	75	9	77	76	1	1	19	0.98
13046533--13046588	29	1.9	29	82	7	69	46	7	0	46	1.30
13053914--13053962	24	2.0	24	100	0	98	38	20	16	24	1.92
13059220--13059467	100	2.4	101	83	10	297	23	28	22	25	1.99
13059220--13059469	50	4.8	53	78	12	261	23	28	22	26	1.99
13059807--13059864	30	1.9	30	82	6	73	31	22	5	41	1.76
13061414--13061502	29	3.1	29	88	0	133	31	21	10	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13062975--13063030	14	3.9	14	77	11	60	8	0	37	53	1.32
13062971--13063031	8	8.4	8	76	20	55	11	0	36	52	1.38
13063026--13063340	96	3.3	95	80	9	266	41	2	17	37	1.64
13063127--13063340	96	2.2	95	87	4	306	43	2	17	35	1.62
13063389--13063678	126	2.3	125	91	3	465	30	20	21	27	1.98
13066217--13066327	43	2.6	42	80	2	123	36	23	18	22	1.95
13066334--13066480	41	3.6	41	88	0	213	25	23	17	33	1.96
13068168--13068376	116	1.8	116	86	4	305	47	5	5	40	1.51
13068373--13068440	34	2.0	35	94	2	120	47	8	2	41	1.50
13068571--13068618	21	2.3	22	82	17	66	10	16	37	35	1.83

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