genome.fa.s13.2.7.7.80.10.50.1000.171.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  171  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)
49919613--49919644	13	2.5	13	89	0	55	40	0	25	34	1.56
49920131--49920166	10	3.6	10	100	0	72	16	0	19	63	1.30
49920550--49920606	30	1.9	30	88	0	87	50	14	5	29	1.64
49921038--49921075	20	2.0	20	89	5	60	47	2	0	50	1.15
49927109--49927141	16	2.0	17	88	5	50	42	9	0	48	1.35
49944995--49945040	23	2.0	23	95	0	83	21	23	19	34	1.96
49945886--49945948	20	3.2	20	76	12	67	52	1	0	46	1.10
49950831--49950866	9	4.0	9	92	0	63	47	0	22	30	1.52
49955140--49955194	21	2.7	21	85	2	67	7	41	16	34	1.76
49955058--49955234	87	2.0	87	85	2	239	12	29	17	40	1.86
49958261--49958528	9	32.2	9	73	17	206	32	1	19	46	1.61
49958261--49958528	25	10.8	25	83	4	346	32	1	19	46	1.61
49958784--49959185	113	3.5	114	78	6	449	33	17	22	26	1.96
49958721--49959112	114	3.4	114	79	6	454	33	16	21	28	1.95
49958722--49959203	227	2.1	226	90	3	761	33	16	21	27	1.95
49958722--49959204	114	4.2	111	73	10	361	33	16	21	27	1.95
49962596--49962688	44	2.1	44	95	0	168	17	7	25	49	1.72
49962604--49962704	44	2.3	44	89	1	148	17	6	23	51	1.70
49963373--49963411	20	2.0	20	84	0	51	28	12	15	43	1.83
49963917--49963963	13	3.0	17	76	23	66	38	6	6	48	1.54
49963955--49963993	16	2.5	15	88	8	60	38	0	7	53	1.30
49964269--49964349	29	2.7	29	83	11	92	55	11	1	32	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49964306--49964358	8	6.0	8	76	20	52	58	11	0	30	1.33
49964292--49964359	29	2.4	28	85	9	102	55	11	0	32	1.36
49964387--49964793	9	46.2	9	75	11	346	47	17	1	32	1.60
49964387--49964650	64	4.1	64	90	3	383	49	16	2	31	1.58
49964637--49964793	66	2.4	65	79	12	160	43	20	1	35	1.60
49964409--49964800	37	11.2	33	75	14	171	46	18	2	33	1.60
49970317--49970366	21	2.4	21	82	0	64	36	16	44	4	1.66
49970685--49970977	42	6.9	42	90	3	430	23	20	21	34	1.96
49970685--49970977	43	6.9	43	90	1	448	23	20	21	34	1.96
49970685--49970977	85	3.4	85	92	1	480	23	20	21	34	1.96
49971199--49971236	12	3.2	12	84	0	58	31	0	18	50	1.47
49972100--49972137	18	2.1	19	90	5	60	52	0	13	34	1.40
49973866--49974126	115	2.3	115	95	0	468	32	21	15	30	1.94
49974102--49974272	73	2.4	72	80	9	195	33	19	16	30	1.94
49974113--49974272	72	2.2	73	80	10	193	35	20	15	30	1.93
49975518--49975579	31	2.0	32	87	3	90	56	16	0	27	1.40
49976032--49976188	41	3.8	41	83	5	192	31	27	21	19	1.97
49976032--49976185	82	1.9	82	86	0	218	32	25	21	20	1.97
49976219--49976316	39	2.5	39	78	9	101	20	17	19	42	1.89
49985895--49985934	13	3.2	13	74	25	50	65	5	0	30	1.14
50004549--50004590	22	1.9	22	85	9	59	73	7	9	9	1.24
50018113--50018234	27	4.5	27	73	0	82	19	26	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50018189--50018304	53	2.2	54	82	6	146	19	26	14	38	1.91
50018217--50018290	27	2.8	27	76	17	91	22	22	12	41	1.87
50018218--50018304	27	3.3	27	73	22	85	20	25	13	40	1.89
50028038--50028062	10	2.5	10	100	0	50	32	0	0	68	0.90
50040932--50040963	2	16.0	2	100	0	64	50	0	0	50	1.00
50045873--50045937	28	2.3	29	75	17	73	38	1	9	50	1.44
50050601--50050719	49	2.4	47	78	9	130	26	14	33	26	1.94
50056570--50056650	33	2.5	32	82	4	90	30	14	22	32	1.94
50056511--50056724	101	2.1	100	84	0	266	34	14	21	30	1.92
50056601--50057541	68	13.9	68	83	1	857	31	15	21	31	1.95
50056573--50056718	32	4.4	32	70	14	107	33	12	21	32	1.90
50056440--50056754	169	1.9	169	82	0	396	34	14	19	30	1.92
50061516--50061588	32	2.3	32	87	0	101	17	21	41	19	1.91
50068324--50068379	17	3.3	17	87	0	76	17	26	37	17	1.93
50073031--50073202	28	6.6	25	69	12	87	60	5	5	28	1.42
50073096--50073205	24	4.4	24	72	15	71	60	4	5	29	1.39
50074791--50075719	45	20.9	45	71	12	478	26	23	19	31	1.98
50074790--50075357	134	4.3	133	80	5	524	25	23	19	31	1.98
50074791--50075533	178	4.2	178	79	7	676	25	23	19	30	1.98
50074835--50075726	312	2.9	310	86	3	1225	26	23	18	31	1.98
50076992--50077116	43	2.8	45	82	3	173	15	22	23	39	1.92
50078043--50078089	19	2.3	20	85	7	60	8	14	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50078068--50078127	28	2.1	28	87	0	84	21	5	5	68	1.29
50081741--50081801	26	2.3	26	88	5	88	60	4	6	27	1.42
50081721--50081822	24	4.0	24	76	10	78	58	5	6	28	1.47
50083126--50083162	17	2.2	17	90	4	58	70	5	2	21	1.20
50085320--50085391	36	2.0	36	100	0	144	33	5	27	33	1.80
50090346--50091219	50	17.5	50	67	1	496	21	25	23	29	1.99
50090344--50091227	100	8.9	100	91	0	1403	21	26	23	29	1.99
50092518--50092564	15	3.1	15	82	11	60	12	17	0	70	1.17
50093069--50093102	17	2.0	17	88	0	50	0	2	11	85	0.71
50097239--50097306	25	2.6	25	84	13	77	58	0	4	36	1.18
50097256--50097383	9	12.4	10	69	21	61	54	3	2	39	1.32
50097334--50097383	21	2.3	23	83	13	61	50	4	0	46	1.20
50097399--50097460	25	2.4	25	78	7	63	62	4	0	32	1.16
50104302--50104369	27	2.6	27	81	9	77	64	4	0	30	1.13
50104361--50104401	20	2.0	20	90	0	64	56	2	0	41	1.13
50104261--50104514	10	27.2	10	67	22	53	61	3	1	33	1.24
50104362--50104432	30	2.4	28	77	11	79	57	5	0	36	1.22
50104412--50104528	17	6.5	17	68	22	71	65	2	2	29	1.19
50104466--50104530	10	6.8	10	77	11	66	69	1	1	27	1.07
50104227--50104528	18	16.4	19	64	14	73	62	3	2	31	1.25
50104465--50104530	28	2.4	28	82	10	82	68	1	1	28	1.08
50105103--50105275	9	18.8	9	67	17	63	35	2	2	58	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50105199--50105275	26	2.9	26	76	7	75	35	2	1	61	1.18
50105290--50105324	16	2.2	16	90	10	54	34	0	0	65	0.93
50109204--50109254	22	2.3	22	96	0	93	29	31	0	39	1.57
50109444--50109474	15	2.1	15	93	0	53	29	0	6	64	1.18
50110409--50110433	7	3.6	7	100	0	50	28	0	12	60	1.32
50111530--50111628	44	2.2	44	85	3	128	40	0	11	48	1.39
50111542--50111628	44	2.0	45	88	2	131	39	0	11	49	1.39
50111596--50111708	25	4.7	25	74	18	123	40	0	14	44	1.51
50111552--50111708	70	2.3	69	95	1	278	40	0	12	45	1.47
50111704--50112076	29	14.6	23	68	27	172	45	26	0	27	1.56
50111724--50111999	29	10.1	29	83	14	342	46	26	0	27	1.56
50111805--50112091	87	3.5	84	81	14	322	45	25	0	28	1.56
50111831--50112091	29	9.6	29	82	13	281	45	25	0	28	1.57
50111987--50112045	20	2.9	21	90	7	86	49	22	0	28	1.50
50111987--50112052	21	3.2	20	85	8	80	46	25	0	27	1.53
50114603--50114951	125	2.8	126	95	0	619	31	21	17	29	1.96
50123224--50123462	25	9.6	25	79	2	194	36	20	15	27	1.93
50123224--50123463	50	4.8	50	74	3	214	36	20	15	27	1.93
50136113--50136160	23	2.2	21	82	14	53	31	2	22	43	1.65
50141570--50141651	25	3.3	25	68	5	67	21	25	20	31	1.98
50141618--50141673	25	2.2	25	78	6	60	23	21	21	33	1.97
50143641--50143681	17	2.4	17	95	0	73	24	0	9	65	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50143641--50143687	17	2.8	17	90	6	60	27	0	8	63	1.23
50144933--50144968	2	18.0	2	100	0	72	50	0	0	50	1.00
50145011--50145081	29	2.6	26	72	16	63	42	4	11	42	1.60
50145288--50145361	29	2.7	27	82	12	87	54	1	5	39	1.32
50145422--50145525	3	34.7	3	100	0	208	66	0	0	33	0.92
50145524--50145585	3	20.7	3	96	0	115	32	32	0	35	1.58
50145756--50145802	13	3.3	14	85	8	60	46	2	10	40	1.50
50145756--50145785	16	1.9	16	93	6	53	46	3	10	40	1.54
50146632--50146686	22	2.4	23	90	3	85	50	1	1	45	1.22
50146660--50146714	16	3.4	16	92	0	92	47	3	5	43	1.44

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