genome.fa.s3.2.7.7.80.10.50.1000.104.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  104  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)
32588171--32588201	9	3.4	9	90	0	53	38	22	12	25	1.90
32589968--32589993	7	3.7	7	100	0	52	30	0	15	53	1.42
32590229--32590255	12	2.2	12	100	0	54	44	14	7	33	1.73
32592744--32592799	23	2.5	23	88	2	87	28	10	14	46	1.78
32593604--32593643	19	2.1	19	85	0	53	55	5	2	37	1.35
32601291--32601398	37	3.0	36	77	18	100	40	2	3	52	1.33
32601377--32601492	61	1.9	59	87	6	171	44	3	1	50	1.29
32603871--32603931	20	3.1	20	95	2	106	45	9	8	36	1.67
32606116--32606211	30	3.2	30	71	11	79	39	4	7	48	1.50
32606116--32606233	61	1.9	60	86	10	168	39	4	6	49	1.49
32606346--32606396	25	2.0	26	84	3	68	39	7	7	45	1.62
32608615--32608697	32	2.6	32	86	1	114	15	38	25	20	1.92
32612905--32613080	45	3.9	45	85	3	230	36	27	14	21	1.92
32614833--32614904	36	2.0	36	100	0	144	33	22	8	36	1.84
32615060--32615097	20	1.9	20	89	10	60	34	10	5	50	1.59
32617451--32617534	36	2.3	36	81	4	98	29	7	27	35	1.83
32617718--32617798	26	3.1	26	75	5	74	27	8	20	43	1.81
32621805--32621841	18	2.1	18	100	0	74	32	0	24	43	1.55
32629560--32629614	26	2.1	27	86	3	76	25	16	10	47	1.79
32629763--32629804	12	3.5	12	78	12	50	21	21	0	57	1.41
32650173--32650197	5	5.0	5	100	0	50	80	0	20	0	0.72
32652053--32652243	91	2.1	88	81	4	213	35	17	19	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32658747--32658818	27	2.6	28	91	6	112	41	8	0	50	1.33
32658890--32658983	27	3.5	27	86	0	125	30	26	24	18	1.97
32665051--32665100	23	2.3	22	83	13	59	8	6	6	80	1.04
32665303--32665339	9	4.1	9	86	13	58	45	10	10	32	1.74
32665523--32665553	9	3.4	9	90	0	53	25	12	22	38	1.90
32665606--32665643	9	4.2	9	93	0	67	44	13	10	31	1.77
32665152--32665758	304	2.0	303	93	2	1031	32	22	11	34	1.89
32666666--32666692	5	5.4	5	100	0	54	22	18	18	40	1.91
32670538--32670568	16	1.9	16	93	0	53	61	0	3	35	1.12
32671081--32671123	22	2.0	22	85	0	59	13	18	25	41	1.88
32671255--32671436	86	2.1	86	87	4	260	31	29	17	20	1.96
32671258--32671416	43	3.7	43	90	1	239	30	28	18	22	1.97
32672346--32673039	91	7.6	90	83	5	675	40	23	5	30	1.77
32672332--32673200	137	6.3	136	82	5	946	40	23	5	30	1.77
32672332--32673203	23	38.0	23	73	10	585	40	23	5	30	1.77
32674671--32674746	38	2.0	38	100	0	152	39	26	0	34	1.57
32676185--32676420	41	5.8	41	89	2	359	30	24	21	23	1.99
32676185--32676420	81	2.9	82	90	1	377	30	24	21	23	1.99
32676185--32676420	122	1.9	122	90	1	375	30	24	21	23	1.99
32676480--32676610	40	3.3	38	73	7	102	22	25	19	32	1.98
32679409--32679479	20	3.6	19	75	7	54	32	11	15	40	1.83
32681352--32681387	15	2.5	14	86	8	54	44	8	0	47	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32682983--32683052	12	5.5	12	77	19	63	72	0	4	22	1.01
32682983--32683057	4	18.5	4	75	22	52	73	0	4	22	1.00
32682975--32683063	26	3.6	25	83	10	103	73	0	4	22	1.02
32689438--32689475	15	2.6	15	91	4	60	47	7	0	44	1.32
32700374--32700896	260	2.0	260	96	1	958	32	17	15	34	1.91
32708196--32708397	101	2.0	101	100	0	404	29	19	15	34	1.93
32709119--32709170	24	2.2	24	89	0	77	36	3	9	50	1.54
32713486--32713537	24	2.2	24	89	0	77	36	3	9	50	1.54
32718649--32718690	18	2.3	18	91	0	66	52	23	9	14	1.71
32721606--32721631	12	2.2	12	100	0	52	34	38	26	0	1.57
32728791--32728820	15	2.1	15	93	6	53	6	26	0	66	1.16
32729519--32729617	48	2.1	48	81	7	112	21	12	22	44	1.85
32730534--32730580	21	2.2	22	81	11	53	38	4	2	55	1.31
32731771--32731825	20	2.8	20	78	10	67	12	25	20	41	1.87
32749437--32749465	2	14.5	2	100	0	58	51	0	0	48	1.00
32749864--32749903	12	3.3	12	89	0	53	42	0	57	0	0.98
32749858--32749905	18	2.7	18	76	0	51	45	0	52	2	1.12
32755838--32755963	67	1.9	67	86	3	182	42	14	6	36	1.71
32756361--32756403	14	3.0	13	83	16	50	27	2	9	60	1.40
32756924--32756978	26	2.1	27	93	3	94	21	30	21	25	1.98
32760906--32761105	43	4.7	41	75	7	177	35	25	16	22	1.95
32760880--32761102	43	5.3	41	73	13	168	35	25	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32760880--32761105	85	2.7	84	85	4	278	35	25	15	23	1.94
32767633--32767862	75	3.1	75	87	3	311	54	10	8	26	1.63
32768076--32768216	33	4.3	33	85	0	165	24	9	47	18	1.78
32768807--32768834	13	2.2	13	100	0	56	71	0	14	14	1.15
32769989--32770050	24	2.6	24	77	10	72	16	25	22	35	1.94
32772437--32772500	27	2.4	27	97	0	119	40	10	0	48	1.38
32772550--32772628	27	2.9	27	88	0	104	30	22	30	16	1.96
32772672--32772731	4	15.0	4	76	13	52	68	0	30	1	0.99
32772672--32772815	13	10.3	13	66	22	53	67	0	30	2	1.02
32772748--32772837	17	5.8	14	70	20	63	73	0	25	1	0.90
32772761--32772843	18	4.6	18	76	10	71	69	0	28	1	0.96
32772783--32772865	26	3.4	25	75	19	70	72	0	26	1	0.92
32772738--32772857	41	3.0	41	71	10	106	66	0	32	0	0.97
32772747--32772837	46	2.0	46	85	8	123	72	0	26	1	0.91
32772871--32772907	18	2.1	19	90	10	60	35	0	0	64	0.94
32773591--32773646	27	2.1	27	93	0	94	44	14	32	8	1.76
32776374--32776400	11	2.5	11	100	0	54	37	7	14	40	1.74
32778646--32778680	18	1.9	18	100	0	70	11	45	5	37	1.64
32778647--32778688	18	2.3	18	91	0	66	16	50	2	30	1.58
32779544--32779617	3	24.7	3	100	0	148	67	32	0	0	0.91
32779616--32779655	3	13.3	3	100	0	80	67	0	0	32	0.91
32779714--32779752	19	2.0	21	85	10	55	69	12	0	17	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32779826--32779880	3	18.3	3	96	0	101	0	30	0	69	0.89
32779928--32780002	27	2.8	27	81	0	96	18	32	25	24	1.97
32780052--32780141	28	3.3	28	96	3	166	51	0	10	38	1.36
32781188--32781613	101	4.1	101	84	9	535	55	15	0	28	1.43
32781188--32781613	206	2.1	201	85	10	569	55	15	0	28	1.43
32781590--32781753	72	2.3	72	96	1	303	53	15	0	29	1.47
32781639--32781759	41	3.2	41	62	22	100	56	14	0	28	1.39
32781590--32781696	34	3.1	33	65	17	81	52	17	0	28	1.51
32781620--32781734	38	3.1	38	67	14	114	54	12	0	32	1.43
32782014--32782049	3	12.3	3	94	5	65	0	30	0	69	0.89
32782232--32782315	27	3.1	27	91	0	123	17	34	29	17	1.94
32782308--32782701	194	2.0	194	97	0	743	36	17	14	32	1.90
32782797--32782832	6	6.0	6	96	0	63	16	13	0	69	1.19
32783239--32783264	6	4.3	6	100	0	52	84	0	15	0	0.62
32784811--32784849	20	2.0	19	95	5	69	25	0	23	51	1.49
32792847--32793280	146	3.0	144	95	2	769	35	14	17	32	1.89
32795150--32795257	53	2.0	53	98	0	207	31	18	15	34	1.92
32798206--32798428	84	2.7	83	78	12	242	46	10	9	33	1.72
32798267--32798433	84	2.0	86	88	7	252	47	10	8	34	1.68
32798414--32798606	85	2.2	84	87	5	251	41	9	13	35	1.78
32798443--32798606	85	1.9	86	91	3	269	43	10	15	29	1.80
32798445--32798629	85	2.2	86	87	4	259	44	11	14	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32799772--32799817	24	2.0	24	83	12	60	65	2	0	32	1.05
32800698--32800741	16	2.7	16	80	13	54	54	0	0	45	0.99
32803363--32803443	24	3.2	23	77	19	90	44	0	11	44	1.39
32806214--32806477	9	29.0	9	77	4	253	48	17	2	32	1.61
32806214--32806477	27	9.7	27	83	4	280	48	17	2	32	1.61
32809890--32809935	21	2.2	21	96	0	83	30	19	50	0	1.48
32810254--32810364	42	2.6	42	73	1	105	31	18	19	29	1.96
32810351--32810396	24	1.9	24	95	0	83	13	17	19	50	1.78
32810375--32810481	42	2.5	43	93	1	180	19	20	22	37	1.94
32813941--32813971	9	3.4	9	90	0	53	25	12	22	38	1.90

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