genome.fa.s13.2.7.7.80.10.50.1000.129.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  129  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)
39067533--39067574	21	2.0	21	86	4	59	33	7	11	47	1.68
39080516--39080551	19	1.9	18	88	5	54	47	2	8	41	1.48
39087180--39087208	12	2.3	13	94	5	51	65	6	6	20	1.40
39107002--39107050	25	2.0	25	87	0	71	20	28	34	16	1.94
39107622--39107688	21	3.2	22	75	8	68	19	28	25	26	1.99
39111953--39112039	6	14.3	6	81	9	70	80	4	5	9	1.01
39111953--39112034	12	6.8	12	77	12	78	81	3	6	8	0.96
39113604--39113671	28	2.4	30	81	16	83	70	2	8	17	1.25
39113611--39113676	22	3.0	21	76	19	57	71	3	7	18	1.23
39114573--39114629	29	1.9	30	85	3	80	19	33	29	17	1.95
39114591--39114647	29	2.0	29	82	0	69	24	35	22	17	1.95
39117867--39117923	19	3.0	18	77	10	51	70	3	1	24	1.13
39120352--39120430	34	2.3	34	80	6	88	29	21	22	26	1.99
39120890--39121084	27	7.2	27	86	8	263	20	18	19	41	1.91
39120893--39121084	81	2.4	81	91	1	305	20	18	19	42	1.90
39122154--39122213	22	2.7	22	86	0	84	38	11	28	21	1.89
39127059--39127122	30	2.2	29	81	10	76	29	28	6	35	1.82
39127066--39127122	30	1.9	30	85	3	80	29	24	7	38	1.82
39128552--39128583	17	1.9	16	93	6	55	43	31	3	21	1.68
39129540--39129610	33	2.2	33	85	7	92	26	1	46	25	1.61
39129780--39129884	51	2.1	51	96	0	192	28	11	26	33	1.91
39135417--39135800	71	5.4	71	81	3	387	38	23	16	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39138910--39138951	22	1.9	22	85	0	57	42	11	23	21	1.86
39139458--39139505	25	1.9	25	84	16	64	29	8	2	60	1.37
39145110--39145192	30	2.8	29	78	5	85	51	2	0	45	1.14
39148672--39149019	174	2.0	174	100	0	696	46	15	21	16	1.84
39149445--39149475	15	2.1	15	93	0	53	83	0	6	9	0.79
39149934--39150050	57	2.1	57	98	0	225	15	36	3	44	1.63
39152543--39153060	44	11.7	44	77	6	382	29	19	17	33	1.95
39152541--39152801	136	1.9	136	86	1	371	27	20	18	32	1.96
39152719--39152964	131	1.9	132	80	2	289	31	20	17	30	1.95
39155722--39155895	41	4.2	41	93	0	276	29	24	20	25	1.99
39170125--39170184	17	3.3	18	71	17	52	53	0	5	41	1.23
39172472--39172505	17	2.0	17	88	11	52	32	2	0	64	1.08
39181918--39181958	21	2.0	21	95	0	73	41	9	2	46	1.50
39184242--39184274	15	2.1	17	88	11	52	51	0	3	45	1.16
39189439--39189539	3	32.3	3	86	4	112	64	1	4	28	1.25
39190954--39191479	129	4.1	129	90	1	718	28	20	20	30	1.98
39191247--39191482	44	5.4	44	69	14	123	29	20	20	30	1.97
39191882--39192118	100	2.4	101	87	2	345	27	23	21	27	1.99
39197379--39197487	3	35.3	3	77	9	69	62	2	6	28	1.34
39197379--39197472	29	3.2	29	70	14	77	61	3	7	27	1.38
39201361--39201394	3	11.7	3	87	6	52	35	0	0	64	0.94
39201361--39201399	14	2.9	14	88	7	55	33	0	2	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39201414--39201444	16	1.9	16	93	0	53	48	3	0	48	1.17
39205675--39205755	9	8.7	9	81	8	81	82	4	12	0	0.81
39205677--39205772	18	5.5	17	80	10	81	82	6	11	0	0.84
39205674--39205772	17	5.8	15	83	15	81	82	6	11	0	0.82
39205673--39205773	24	4.0	25	74	22	63	81	7	10	0	0.88
39205673--39205770	9	11.6	9	83	13	56	81	7	11	0	0.87
39206250--39206295	23	2.0	23	86	4	65	65	0	21	13	1.26
39207519--39208311	132	6.0	131	90	2	1167	27	19	24	27	1.99
39207588--39208032	44	10.1	44	64	13	173	27	19	24	28	1.99
39209620--39209653	3	11.7	3	87	6	52	35	0	0	64	0.94
39209620--39209658	14	2.9	14	88	7	55	33	0	2	64	1.08
39209813--39209965	22	7.0	22	90	0	225	26	26	14	32	1.94
39211765--39211845	31	2.7	29	80	5	99	35	4	9	49	1.58
39221847--39221950	40	2.6	40	87	3	138	26	23	25	24	2.00
39221863--39221961	40	2.5	40	80	6	119	28	22	24	25	1.99
39222016--39222120	40	2.6	39	82	12	124	28	24	22	23	1.99
39222424--39222698	7	38.7	7	72	11	121	22	0	30	46	1.57
39222424--39222523	29	3.5	28	78	6	94	24	2	27	47	1.63
39222470--39222631	72	2.2	72	94	1	279	23	0	29	46	1.57
39222500--39222710	72	3.0	71	81	6	187	22	0	30	46	1.56
39223262--39223689	113	3.8	113	73	7	346	25	14	22	36	1.93
39225842--39225910	34	2.0	34	100	0	138	39	5	5	49	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39228851--39229244	43	9.3	43	84	3	496	25	17	24	32	1.97
39232769--39232816	14	3.8	13	84	15	66	72	0	18	8	1.08
39239847--39239903	28	2.0	28	96	0	105	29	15	10	43	1.80
39240093--39240131	16	2.4	16	95	0	69	38	7	28	25	1.83
39240114--39240201	45	2.0	44	88	6	133	30	3	29	36	1.74
39240314--39240447	57	2.3	56	83	7	153	51	4	0	43	1.27
39241020--39241110	46	2.0	46	95	0	164	49	5	2	42	1.38
39242133--39242163	13	2.4	13	94	0	53	38	9	12	38	1.77
39246346--39246379	10	3.3	10	91	4	50	70	0	20	8	1.13
39248522--39248671	75	2.0	75	97	0	282	34	19	21	25	1.96
39253683--39253743	26	2.2	29	80	13	76	22	16	8	52	1.70
39257451--39257486	18	2.0	19	89	10	58	19	16	5	58	1.58
39276013--39276251	43	5.6	43	67	17	147	28	22	23	25	1.99
39276036--39276386	87	4.1	84	70	14	239	30	22	23	23	1.99
39275970--39276327	171	2.1	174	91	2	580	29	22	22	25	1.99
39280919--39280965	19	2.5	18	86	6	58	27	21	0	51	1.48
39280940--39281025	43	2.0	43	88	0	127	22	19	0	58	1.40
39283869--39283944	33	2.3	33	82	8	100	35	3	1	59	1.24
39286513--39286544	2	16.0	2	100	0	64	50	0	0	50	1.00
39289364--39289404	16	2.7	15	81	7	55	60	7	0	31	1.24
39289747--39289803	6	9.7	6	84	3	62	49	1	5	43	1.35
39293194--39293239	16	2.6	18	76	16	51	52	10	0	36	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39293336--39293536	100	2.0	100	94	1	350	38	18	6	36	1.77
39296853--39296905	26	2.0	26	88	0	79	64	3	7	24	1.37
39297214--39297316	50	2.1	50	90	0	161	51	4	11	32	1.59
39299306--39299469	43	3.9	42	82	4	177	29	14	26	29	1.95
39305115--39305175	25	2.4	25	94	0	104	14	29	8	47	1.73
39306643--39306687	21	2.1	21	87	0	63	28	17	8	44	1.79
39307934--39308219	103	2.7	106	82	11	354	41	15	17	24	1.89
39310132--39310193	24	2.5	24	84	2	70	33	9	20	35	1.86
39310573--39310654	39	2.1	39	83	0	101	41	12	24	21	1.87
39310591--39310671	39	2.1	39	80	0	90	43	16	18	22	1.88
39321411--39321457	22	2.1	22	96	0	85	29	12	17	40	1.86
39327086--39327313	39	5.8	39	79	2	179	20	21	16	40	1.91
39327090--39327317	117	1.9	117	80	1	260	21	21	16	40	1.91
39327086--39327356	39	7.0	39	78	5	174	21	22	16	40	1.91
39327458--39327640	98	1.9	98	89	2	287	33	22	12	31	1.91
39328275--39328384	50	2.2	49	79	9	127	25	36	0	37	1.63
39331127--39331179	23	2.3	23	83	0	61	47	1	30	20	1.61
39334846--39334871	12	2.2	12	100	0	52	7	15	30	46	1.74
39334939--39335107	73	2.3	72	90	2	257	24	23	26	26	2.00
39335890--39335922	14	2.3	15	94	5	59	30	0	33	36	1.58
39336275--39336329	7	7.7	7	79	4	65	20	0	47	32	1.50
39336296--39336340	22	2.0	22	86	0	63	26	2	37	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39336646--39336699	19	2.8	18	78	10	54	70	5	3	20	1.23
39336684--39336782	47	2.1	48	96	1	182	46	7	0	46	1.30
39337063--39337102	16	2.7	15	88	7	55	20	35	0	45	1.51
39341477--39341685	43	4.9	42	91	2	292	23	18	26	31	1.97
39342250--39342308	26	2.3	26	76	5	66	47	1	3	47	1.29
39342927--39343133	105	2.0	105	89	0	315	40	13	13	32	1.84
39357681--39358071	44	8.5	45	70	13	217	31	19	21	27	1.97
39357764--39357989	52	4.7	51	67	18	142	30	17	21	29	1.96
39357622--39358029	140	2.9	140	95	0	726	31	18	21	28	1.97
39367287--39367386	49	2.0	49	92	0	164	30	20	20	30	1.97

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