genome.fa.s3.2.7.7.80.10.50.1000.39.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  39  of  150  ( 17918 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)
10667499--10667545	21	2.2	21	78	14	53	74	2	0	23	0.93
10672973--10673010	18	2.1	19	85	5	51	42	0	2	55	1.14
10676709--10676735	14	1.9	14	100	0	54	14	25	22	37	1.93
10681074--10681114	19	2.2	19	86	4	57	21	4	9	63	1.44
10681069--10681114	19	2.5	18	82	3	56	21	4	10	63	1.44
10681106--10681134	5	5.8	5	100	0	58	37	0	0	62	0.96
10685250--10685451	67	3.0	67	80	4	190	38	32	12	16	1.86
10685288--10685464	35	5.1	35	81	4	198	37	29	14	17	1.90
10685250--10685478	35	6.6	35	78	5	196	40	30	12	16	1.86
10698517--10698615	44	2.2	44	82	7	121	32	21	19	27	1.97
10698583--10698696	44	2.6	44	79	5	140	19	25	24	30	1.98
10698674--10699019	129	2.7	129	81	7	371	23	26	21	28	1.99
10699011--10699366	87	4.1	87	92	0	550	23	24	22	29	1.99
10701422--10701460	13	2.8	13	88	7	51	0	23	0	76	0.78
10701498--10701540	18	2.5	17	82	10	52	6	6	13	72	1.27
10710475--10710517	20	2.2	20	95	0	77	30	6	9	53	1.59
10711190--10711538	89	4.0	88	81	4	386	32	14	12	40	1.84
10711213--10711538	178	1.8	175	84	7	444	30	15	13	41	1.85
10711654--10711815	84	1.9	84	81	7	195	30	11	11	45	1.77
10725400--10725438	17	2.4	17	91	4	62	23	5	7	64	1.40
10729952--10729980	3	9.7	3	100	0	58	68	31	0	0	0.89
10730050--10730088	20	2.0	21	85	10	55	66	10	0	23	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10730115--10730151	11	3.5	11	88	7	58	0	29	0	70	0.88
10730232--10730334	54	1.9	54	86	4	145	16	29	28	26	1.97
10730232--10730334	27	3.8	27	85	2	127	16	29	28	26	1.97
10730364--10730392	12	2.4	12	100	0	58	0	0	13	86	0.58
10730394--10730464	27	2.6	27	93	2	115	47	0	9	42	1.36
10739440--10739535	48	2.0	48	100	0	192	37	25	8	29	1.85
10744846--10744872	4	6.8	4	100	0	54	77	0	0	22	0.76
10747241--10747274	9	3.8	9	88	0	50	44	2	2	50	1.32
10756318--10756432	57	2.0	57	87	0	167	31	22	8	37	1.85
10759873--10759920	23	2.1	23	92	0	78	45	14	0	39	1.45
10760031--10760067	19	1.9	19	88	0	56	29	29	24	16	1.96
10764627--10764697	32	2.2	32	87	0	97	12	12	12	61	1.56
10780024--10780056	11	3.1	11	86	4	50	69	3	0	27	1.03
10783025--10783072	6	8.3	6	86	4	64	18	0	2	79	0.84
10792081--10792128	13	3.7	13	76	18	55	60	0	6	33	1.22
10792125--10792207	27	2.9	30	81	12	95	73	4	18	3	1.16
10793081--10793129	19	2.5	20	78	18	59	18	0	18	63	1.32
10793078--10793116	17	2.2	18	86	4	53	23	0	15	61	1.33
10808284--10808432	40	3.7	40	84	1	192	19	15	28	36	1.92
10813919--10813965	3	15.7	3	95	0	76	27	0	4	68	1.08
10821868--10821897	12	2.5	12	88	0	51	50	6	0	43	1.28
10823976--10824097	25	4.9	25	72	3	93	35	16	27	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10823956--10824054	50	2.0	50	81	0	117	31	19	27	22	1.98
10839033--10839468	49	8.9	49	82	3	466	34	26	14	24	1.94
10839033--10839468	98	4.5	98	82	2	520	34	26	14	24	1.94
10839181--10839258	25	3.2	25	63	17	63	35	25	15	23	1.94
10839033--10839468	195	2.2	195	85	3	565	34	26	14	24	1.94
10840122--10840151	11	2.9	10	90	9	51	10	6	13	70	1.34
10848997--10849097	50	2.0	50	86	3	141	26	16	19	36	1.93
10853990--10854038	20	2.5	20	83	10	64	32	16	10	40	1.82
10857912--10858074	3	52.7	3	76	17	131	28	3	5	62	1.33
10869194--10869287	48	1.9	49	83	10	122	31	3	3	61	1.27
10871264--10871309	16	2.6	17	83	10	58	56	0	0	43	0.99
10885381--10885410	2	15.0	2	100	0	60	50	0	0	50	1.00
10886103--10886150	25	2.0	24	83	4	60	14	22	18	43	1.87
10899753--10899785	14	2.4	14	90	10	50	51	6	27	15	1.66
10902797--10902993	98	2.0	98	93	0	340	28	10	23	36	1.89
10914381--10915411	132	7.9	132	93	1	1684	29	20	24	25	1.99
10917354--10917549	97	2.0	98	91	1	322	28	10	25	36	1.88
10928741--10928769	10	2.9	10	100	0	58	31	10	6	51	1.62
10928971--10929017	24	2.0	24	86	0	67	19	34	0	46	1.50
10929177--10929204	2	14.0	2	100	0	56	50	0	0	50	1.00
10930421--10930498	39	2.0	39	97	0	147	25	12	19	42	1.87
10937532--10937573	19	2.2	19	100	0	84	38	23	7	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10939808--10939858	24	2.1	25	88	3	77	15	37	0	47	1.46
10940676--10940724	23	2.1	23	96	0	89	34	18	14	32	1.91
10941582--10941624	19	2.3	19	100	0	86	30	6	13	48	1.69
10944468--10944502	7	5.0	7	100	0	70	14	42	0	42	1.45
10961983--10962029	14	3.3	14	87	3	58	65	8	2	23	1.31
10965972--10966005	17	2.0	17	88	0	50	35	11	8	44	1.72
10965992--10966024	9	3.7	9	95	0	57	27	9	15	48	1.74
10971004--10971041	17	2.2	17	90	0	58	34	7	18	39	1.80
10973889--10973919	15	2.1	15	93	0	53	29	35	9	25	1.88
10976427--10976467	21	2.0	21	95	0	73	39	14	17	29	1.89
10976511--10976590	42	1.9	42	89	0	124	35	28	21	15	1.93
10976555--10976654	43	2.3	43	83	6	130	28	24	18	30	1.97
10979881--10979919	12	3.2	12	89	7	60	38	17	7	35	1.79
10980997--10981034	20	1.9	20	94	0	67	57	7	0	34	1.28
10981236--10981271	15	2.3	16	90	4	56	36	2	0	61	1.11
10981423--10981472	7	7.1	7	83	0	64	42	34	2	22	1.65
10981409--10981472	21	3.0	21	70	17	51	43	32	1	21	1.62
10981409--10981468	28	2.1	28	84	6	77	46	30	1	21	1.61
10981549--10981591	22	2.0	22	90	4	70	51	30	2	16	1.57
10981644--10981680	13	2.8	13	87	4	56	51	27	0	21	1.48
10982336--10982842	115	4.4	114	82	5	578	23	20	19	36	1.95
10982366--10982802	228	1.9	230	86	3	632	24	19	18	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10982366--10982861	228	2.2	228	82	4	572	24	20	18	36	1.95
10986676--10986741	31	2.1	31	85	0	87	37	19	12	30	1.88
10986851--10986901	23	2.3	22	82	3	57	27	0	5	66	1.14
10989233--10989272	20	2.0	20	90	0	62	27	10	12	50	1.72
10989219--10989284	35	1.9	34	90	6	107	31	7	13	46	1.71
10989212--10989288	14	5.0	15	71	20	52	32	7	15	44	1.75
10989706--10989733	13	2.2	13	100	0	56	32	0	14	53	1.41
10991846--10991922	18	4.3	18	78	6	93	41	2	40	15	1.61
10995251--10995288	13	3.0	13	92	3	60	15	13	31	39	1.86
10995622--10995718	27	3.6	27	81	0	104	24	20	10	44	1.83
10996878--10996913	17	2.1	18	89	5	56	72	0	19	8	1.10
10999623--10999661	17	2.3	17	86	0	51	7	30	5	56	1.49
10999634--10999669	17	2.1	17	100	0	72	5	22	5	66	1.34
10999638--10999682	17	2.6	17	89	0	63	4	31	2	62	1.27
11011242--11011283	16	2.5	17	81	14	52	54	0	2	42	1.13
11013861--11013885	12	2.1	12	100	0	50	8	24	36	32	1.84
11014092--11014262	41	4.2	41	90	1	245	18	25	25	30	1.98
11014235--11014328	41	2.3	41	78	10	104	28	23	25	22	1.99
11014112--11014284	82	2.1	82	82	6	208	20	24	26	28	1.99
11015184--11015215	17	1.9	16	93	6	55	43	0	3	53	1.16
11015185--11015222	19	2.1	18	90	5	58	44	0	2	52	1.14
11015327--11015472	74	2.0	73	87	4	213	30	19	14	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11017822--11017877	9	6.8	9	73	19	59	48	16	0	35	1.46
11017789--11017877	40	2.2	40	83	6	106	47	12	2	38	1.54
11017831--11017880	16	3.2	16	94	2	84	48	16	0	36	1.46
11018059--11018194	16	8.8	15	72	24	97	47	13	1	38	1.52
11018061--11018302	50	5.1	50	69	20	223	46	14	2	36	1.59
11018144--11018199	9	6.8	9	73	19	59	48	16	0	35	1.46
11018111--11018262	43	3.4	43	71	19	130	46	12	3	37	1.58
11018020--11018283	93	3.0	83	79	18	263	46	12	3	37	1.57
11018111--11018199	40	2.1	43	85	6	121	48	12	1	38	1.48
11018144--11018219	16	4.5	17	82	12	70	47	17	1	34	1.56

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