genome.fa.s13.2.7.7.80.10.50.1000.126.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  126  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)
38262333--38262376	20	2.2	20	87	0	61	63	4	6	25	1.38
38262372--38262414	18	2.2	20	88	12	63	81	2	4	11	0.93
38262402--38262494	47	2.0	47	84	0	123	41	7	3	47	1.48
38262882--38263292	198	2.1	198	91	0	653	27	17	21	33	1.95
38265099--38265256	47	3.2	47	73	23	171	39	6	3	50	1.45
38265123--38265273	48	3.1	46	68	26	139	39	7	3	50	1.47
38265135--38265286	50	3.1	46	65	28	116	40	7	3	49	1.47
38265097--38265303	100	2.1	100	99	0	407	40	6	2	49	1.44
38265373--38265424	13	4.0	13	89	0	68	48	9	1	40	1.47
38265392--38265527	53	2.6	53	87	0	209	38	11	5	44	1.62
38265672--38265922	9	28.8	9	71	12	175	45	19	3	31	1.66
38271795--38272081	42	6.9	42	91	0	425	22	21	21	34	1.97
38275122--38275215	45	2.0	47	85	4	129	50	3	5	41	1.41
38276059--38276108	25	2.0	26	84	4	66	56	2	0	42	1.11
38276921--38276953	17	2.1	16	88	11	50	15	48	24	12	1.78
38282739--38282778	6	6.7	6	100	0	80	70	15	0	15	1.18
38282769--38282815	20	2.4	19	86	10	60	74	8	10	6	1.22
38283225--38283254	14	2.2	14	94	5	53	73	0	13	13	1.10
38284498--38284853	87	4.1	87	91	0	541	29	20	24	25	1.99
38284558--38284694	43	3.2	43	63	24	106	29	21	22	27	1.99
38284837--38284981	44	3.3	44	74	10	152	29	22	27	20	1.98
38285411--38285443	17	2.1	16	88	11	50	15	48	24	12	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38295747--38295804	26	2.2	26	81	12	64	53	1	0	44	1.10
38295979--38296013	3	11.7	3	100	0	70	65	0	0	34	0.93
38296012--38296042	3	10.3	3	100	0	62	32	0	0	67	0.91
38299698--38299736	2	19.5	2	100	0	78	48	0	0	51	1.00
38301559--38301647	8	11.0	8	85	7	92	38	0	2	59	1.10
38301568--38301626	7	7.6	7	87	12	64	40	0	0	59	0.97
38303820--38303849	15	1.9	16	93	6	53	26	0	0	73	0.84
38307014--38307048	6	5.5	6	87	12	52	65	0	20	14	1.26
38310034--38310063	6	5.0	6	100	0	60	66	0	0	33	0.92
38310908--38310946	17	2.4	16	84	16	53	56	0	12	30	1.37
38319183--38319462	82	3.4	82	90	1	411	44	14	15	26	1.84
38320777--38320911	40	3.4	40	73	10	107	36	22	23	17	1.95
38320950--38321170	41	5.4	41	88	2	309	15	22	26	35	1.94
38320950--38321269	41	7.8	40	80	8	288	16	23	25	34	1.95
38320954--38321270	123	2.6	122	81	7	340	17	23	25	33	1.96
38332883--38333054	66	2.6	65	81	6	195	41	18	26	12	1.87
38333025--38333158	21	6.4	20	88	1	142	34	17	44	3	1.67
38333025--38333158	42	3.2	42	86	0	187	34	17	44	3	1.67
38333318--38333375	26	2.4	24	77	11	64	31	0	5	63	1.16
38333507--38333819	86	3.7	84	79	6	326	24	19	30	25	1.98
38333528--38333819	43	6.8	42	76	6	264	25	20	30	24	1.99
38333866--38333908	22	2.0	22	95	0	77	41	27	20	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38336152--38336185	9	3.7	9	92	4	50	64	0	0	35	0.94
38336163--38336219	21	2.8	20	79	7	62	70	3	0	26	1.03
38336163--38336219	10	5.8	9	75	17	51	70	3	0	26	1.03
38336286--38336353	27	2.5	26	73	7	64	38	0	4	57	1.19
38337781--38337816	18	1.9	19	88	5	56	61	2	0	36	1.11
38343219--38343516	50	5.9	50	81	2	283	22	27	21	27	1.99
38348680--38348708	12	2.3	13	94	5	51	6	27	0	65	1.18
38348918--38349215	50	5.9	50	79	2	247	23	27	20	28	1.99
38348970--38349215	100	2.4	104	82	4	275	23	29	20	27	1.99
38355442--38355641	44	4.7	44	70	11	128	24	21	24	30	1.99
38355444--38356001	128	4.4	128	89	1	848	24	19	23	32	1.97
38355444--38356001	257	2.2	256	89	0	848	24	19	23	32	1.97
38355912--38356597	84	8.1	84	70	12	355	25	20	22	31	1.98
38355952--38356666	128	5.6	128	92	2	1098	24	20	22	31	1.98
38355671--38356340	339	2.0	340	93	0	1137	25	19	22	32	1.98
38355791--38356208	211	2.0	212	94	0	739	25	19	22	32	1.97
38355996--38356666	255	2.6	254	93	0	1135	24	20	22	31	1.98
38355528--38356470	467	2.0	469	92	0	1568	24	20	22	32	1.98
38355656--38356443	339	2.3	340	87	3	1063	25	19	22	32	1.98
38356985--38357036	24	2.2	24	89	0	77	32	25	7	34	1.84
38357828--38357870	16	2.7	16	89	7	61	0	18	0	81	0.69
38357827--38357889	16	4.0	15	80	10	56	4	12	1	80	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38363378--38363454	39	2.0	39	84	5	102	54	1	10	33	1.43
38375517--38375595	40	2.0	39	85	7	106	46	12	10	30	1.75
38375527--38375596	20	3.5	20	75	12	65	45	12	8	32	1.73
38375626--38375664	21	1.9	21	89	5	62	28	15	20	35	1.93
38376104--38376179	38	2.1	36	81	13	95	30	19	3	46	1.68
38379263--38379291	11	2.6	11	100	0	58	20	0	24	55	1.44
38379689--38379726	19	2.0	19	100	0	76	26	15	26	31	1.96
38389016--38389077	20	3.1	20	85	0	79	32	9	9	48	1.69
38389002--38389077	40	1.9	40	84	7	102	30	9	11	48	1.71
38393914--38394002	38	2.4	38	83	9	119	53	11	16	17	1.71
38402533--38402571	16	2.4	16	91	0	69	46	10	15	28	1.78
38412297--38412324	2	14.0	2	100	0	56	50	0	0	50	1.00
38413464--38413531	3	22.7	3	78	0	73	58	4	4	32	1.37
38415048--38415115	8	8.2	8	72	6	55	47	1	5	45	1.36
38415057--38415115	17	3.5	17	81	4	84	45	1	5	47	1.34
38415072--38415132	16	3.8	16	80	4	77	49	4	4	40	1.46
38415057--38415131	33	2.3	33	97	0	141	46	4	5	44	1.45
38415253--38415300	25	1.9	25	87	8	71	62	0	0	37	0.95
38416549--38416626	15	5.2	15	64	11	52	46	7	20	25	1.77
38416545--38416626	30	2.8	29	92	3	128	47	7	20	24	1.75
38421172--38421251	30	2.7	30	90	0	124	48	6	21	23	1.72
38436178--38436220	22	1.9	22	85	4	59	58	6	6	27	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38438071--38438490	115	3.6	114	77	10	399	26	22	25	25	2.00
38438418--38438591	73	2.4	73	76	6	183	23	22	27	26	2.00
38438863--38438909	19	2.6	17	84	12	67	21	0	46	31	1.51
38441843--38441893	16	3.0	16	78	15	66	29	13	19	37	1.90
38443289--38443462	47	3.8	47	79	11	227	37	15	3	43	1.64
38443499--38443615	49	2.4	49	81	8	143	47	15	0	36	1.52
38443549--38443654	17	6.4	17	70	20	73	46	13	0	40	1.43
38443548--38443654	9	11.9	9	67	20	55	45	14	0	40	1.44
38445265--38445332	21	3.2	21	85	0	91	33	17	47	1	1.57
38445290--38445330	12	3.7	12	78	18	52	29	21	48	0	1.50
38445679--38445817	43	3.2	43	83	2	163	23	19	28	28	1.98
38448146--38448260	42	2.7	43	82	1	115	21	24	31	22	1.98
38448146--38448265	43	2.8	42	83	1	132	20	23	30	25	1.99
38448249--38448456	86	2.4	86	80	6	215	27	29	16	26	1.97
38448301--38448456	43	3.6	43	79	7	147	30	30	15	24	1.95
38448300--38448481	86	2.1	86	80	4	197	28	29	16	26	1.97
38448231--38448471	129	1.9	129	81	6	292	27	29	17	25	1.97
38448807--38448848	21	2.0	21	95	0	75	7	47	16	28	1.73
38448807--38448865	21	2.8	21	86	0	64	6	42	16	33	1.75
38451328--38451390	33	1.9	33	90	0	99	63	14	0	22	1.30
38451806--38451933	38	3.4	38	95	0	238	46	12	19	21	1.83
38453095--38453148	23	2.5	22	82	8	58	44	0	7	48	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38453097--38453163	20	3.2	21	73	14	50	47	0	7	44	1.31
38453171--38453212	18	2.2	19	87	8	59	16	4	0	78	0.91
38453378--38453432	14	3.9	14	92	0	74	40	52	0	7	1.29
38453385--38453432	7	6.9	7	97	0	78	41	54	0	4	1.20
38453446--38453681	89	2.7	89	95	0	429	46	25	1	27	1.61
38453686--38453720	14	2.5	14	86	13	54	37	45	0	17	1.48
38453448--38453779	89	3.9	78	81	13	235	44	24	1	29	1.61
38453807--38453845	20	2.0	20	89	0	60	30	38	0	30	1.58
38454293--38454517	41	5.5	41	93	1	335	33	24	21	20	1.97
38454549--38454683	40	3.4	39	77	4	128	19	22	20	37	1.94

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