genome.fa.s3.2.7.7.80.10.50.1000.48.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  48  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)
13728588--13728644	15	3.5	15	71	17	51	49	1	1	47	1.22
13731087--13731148	26	2.4	26	88	0	88	35	12	11	40	1.80
13741410--13741441	15	2.1	15	100	0	64	31	21	28	18	1.97
13742865--13742904	7	5.9	7	91	5	64	15	7	0	77	0.98
13742865--13742905	20	2.0	21	95	4	75	14	7	0	78	0.96
13742872--13742912	20	2.0	20	90	0	64	14	4	4	75	1.14
13742865--13742918	27	2.0	28	85	10	76	16	5	3	74	1.16
13744516--13744567	25	2.1	25	88	0	77	32	21	7	38	1.82
13745354--13745448	46	2.1	45	98	2	181	49	14	14	21	1.79
13749561--13749591	5	6.0	5	96	3	53	19	0	0	80	0.71
13750425--13750455	16	2.0	16	93	6	55	54	12	19	12	1.70
13752522--13752706	101	1.8	102	91	5	313	23	17	28	30	1.97
13752519--13752714	51	3.9	49	81	4	223	22	17	29	30	1.97
13752628--13752708	26	3.2	26	65	28	73	22	14	29	33	1.94
13752710--13752794	46	1.9	43	85	7	116	23	14	27	35	1.93
13752932--13752963	16	2.0	16	93	0	55	59	0	15	25	1.36
13756448--13756494	19	2.6	18	87	12	69	23	4	2	70	1.16
13756445--13756505	19	3.2	20	81	11	65	26	3	3	67	1.22
13759249--13759299	22	2.3	23	83	10	61	47	15	15	21	1.83
13763060--13763088	5	5.8	5	100	0	58	0	17	0	82	0.66
13766798--13766842	19	2.4	19	82	10	56	60	15	6	17	1.56
13769380--13769412	16	2.1	16	94	0	57	33	6	39	21	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13769394--13769488	44	2.1	45	86	5	131	32	5	29	32	1.80
13771338--13771420	25	3.3	26	76	17	75	55	6	4	33	1.46
13771439--13771483	15	3.1	15	84	15	67	44	2	0	53	1.13
13771425--13771483	29	2.0	29	83	6	75	44	1	1	52	1.21
13771425--13771483	15	4.1	14	80	8	64	44	1	1	52	1.21
13771448--13771497	23	2.2	23	81	0	55	44	2	2	52	1.24
13771454--13771499	23	2.0	23	86	0	65	39	2	2	56	1.24
13782193--13782221	9	3.0	10	90	10	51	51	6	0	41	1.28
13782267--13782325	27	2.1	28	84	3	75	22	3	20	54	1.59
13788246--13788391	50	2.9	50	82	0	175	23	28	21	26	1.99
13794579--13794776	50	3.8	50	78	4	162	23	27	22	27	1.99
13797916--13797952	18	2.0	19	89	5	58	51	0	43	5	1.24
13804539--13804595	30	1.9	30	85	7	80	49	12	8	29	1.70
13811387--13811423	18	2.0	19	89	5	58	51	0	43	5	1.24
13815430--13815472	21	2.0	21	86	8	61	25	0	20	53	1.46
13816271--13816334	25	2.6	25	79	0	74	29	15	25	29	1.96
13825553--13825593	14	3.0	14	83	13	50	21	21	21	34	1.97
13825559--13825595	14	2.6	15	87	8	51	24	24	21	29	1.99
13838701--13839060	181	2.0	181	95	0	648	33	16	18	31	1.93
13841613--13841684	29	2.5	29	84	4	83	41	13	27	16	1.87
13841586--13841830	118	2.1	117	80	6	280	39	15	25	19	1.91
13845518--13845553	18	1.9	19	94	5	65	44	0	19	36	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13848922--13849890	488	2.0	489	91	0	1562	27	25	18	29	1.98
13854756--13854797	17	2.4	17	81	14	50	11	7	9	71	1.31
13868261--13868607	50	6.8	50	79	4	306	28	20	27	23	1.99
13868261--13868557	150	1.9	152	80	4	346	27	20	28	23	1.99
13872366--13872419	21	2.5	21	84	3	72	40	5	31	22	1.77
13872385--13872426	21	2.2	18	87	12	57	50	4	26	19	1.67
13876485--13876584	23	4.3	23	81	0	119	19	15	21	45	1.86
13876485--13876584	46	2.2	46	90	0	155	19	15	21	45	1.86
13876511--13876601	46	2.0	46	82	0	110	21	18	21	37	1.94
13887873--13887925	11	4.6	12	86	9	83	24	32	0	43	1.55
13888001--13888051	25	2.0	25	84	3	66	60	1	11	25	1.41
13888557--13888608	21	2.4	22	87	6	70	13	3	11	71	1.28
13890630--13892015	151	9.2	150	87	5	1888	50	8	10	31	1.65
13893540--13893592	25	2.1	25	92	0	88	49	20	7	22	1.74
13909995--13910093	47	2.1	47	81	3	110	24	16	24	35	1.95
13913461--13913489	8	3.6	8	100	0	58	24	13	27	34	1.93
13913576--13913628	23	2.3	23	96	0	97	24	20	24	30	1.99
13918285--13918469	101	1.8	102	91	3	311	23	18	27	30	1.98
13918282--13918477	51	3.9	49	81	4	223	23	18	28	29	1.98
13918391--13918471	26	3.2	26	65	28	73	22	14	29	33	1.94
13924332--13924375	20	2.2	20	100	0	88	52	15	9	22	1.71
13929963--13930566	29	20.8	29	88	1	816	39	13	27	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13932193--13932308	51	2.3	52	82	10	134	27	20	5	46	1.72
13932294--13932328	19	1.9	18	88	11	54	14	28	0	57	1.38
13947053--13947103	26	1.9	27	88	4	77	21	21	23	33	1.97
13947153--13947183	16	1.9	16	93	0	53	32	25	16	25	1.96
13955858--13955908	26	2.0	26	100	0	102	37	11	15	35	1.84
13960499--13960599	37	2.7	37	74	6	96	36	14	12	35	1.85
13961841--13961872	15	2.1	15	94	0	55	25	15	28	31	1.96
13962517--13962543	13	2.1	13	100	0	54	48	7	7	37	1.59
13966030--13966063	14	2.5	13	81	9	50	8	17	0	73	1.08
13966049--13966117	23	3.0	22	72	16	68	20	7	5	66	1.37
13971522--13975928	481	9.2	478	82	5	4681	37	21	10	30	1.87
13978803--13979557	120	6.3	120	95	0	1289	44	2	4	49	1.35
13979498--13979532	18	2.0	17	88	5	52	45	0	0	54	0.99
13979765--13979802	16	2.4	16	86	0	58	28	34	2	34	1.71
13979827--13981244	482	2.9	483	83	3	1732	37	22	10	29	1.87
13981257--13985693	482	9.3	480	82	5	4871	37	21	10	29	1.88
13981279--13985693	963	4.6	961	83	4	5010	37	21	10	29	1.88
13986432--13986569	39	3.5	39	88	0	186	44	21	2	30	1.67
13989201--13989397	50	3.8	50	79	7	191	23	27	20	28	1.99
13993777--13993878	36	2.8	36	83	0	123	32	38	13	15	1.87
13993784--13993924	36	4.0	35	75	11	92	33	35	14	16	1.89
13999891--13999951	27	2.3	27	100	0	122	6	42	31	19	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14000025--14000127	11	10.4	11	73	22	86	37	0	0	61	1.03
13999986--14000128	38	3.8	38	90	3	225	35	2	0	62	1.07
14000036--14000118	26	3.0	29	84	6	93	38	0	0	61	0.96
14000074--14000148	26	3.0	25	78	17	77	34	1	0	64	1.02
14000025--14000148	11	11.2	11	69	22	55	36	0	0	62	1.01
14011376--14011441	25	2.6	25	76	9	71	30	19	21	28	1.98
14012431--14013218	269	2.9	270	91	0	1242	35	15	10	38	1.82
14015033--14015062	11	2.7	11	89	0	51	76	3	6	13	1.11
14033848--14033943	20	4.8	20	72	0	75	20	22	21	34	1.97
14033848--14033943	40	2.4	40	83	0	111	20	22	21	34	1.97
14036459--14036489	16	1.9	16	100	0	62	38	19	0	41	1.51
14036317--14037631	335	4.0	320	90	7	1893	38	22	9	29	1.86
14036317--14037631	644	2.0	657	91	5	2174	38	22	9	29	1.86
14037438--14037473	8	4.5	8	92	0	63	36	16	0	47	1.47
14038809--14038846	19	2.0	19	85	10	51	21	42	0	36	1.53
14049738--14049782	15	2.8	16	83	6	56	26	0	24	48	1.51
14049817--14049973	39	3.9	39	83	4	172	33	3	19	44	1.66
14064914--14065105	50	3.9	50	77	2	181	29	25	21	23	1.99
14065014--14065107	49	1.9	49	91	0	152	28	27	20	23	1.99
14065124--14065239	49	2.3	50	77	5	128	29	23	21	25	1.99
14064984--14065226	121	2.0	121	86	0	333	27	26	20	25	1.99
14067974--14068004	13	2.4	13	94	0	53	61	9	0	29	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14075779--14075824	21	2.1	22	84	4	58	71	4	0	23	1.03
14077451--14077490	17	2.3	18	95	4	73	42	20	0	37	1.52
14077677--14077730	22	2.6	19	73	18	54	40	3	3	51	1.37
14078030--14078334	108	2.9	106	87	2	432	31	18	19	31	1.95
14094149--14094239	38	2.4	37	83	7	121	35	16	17	30	1.92
14100179--14100225	19	2.6	18	87	12	69	70	2	4	23	1.16
14110480--14110510	7	4.4	7	100	0	62	70	0	12	16	1.16
14117100--14117151	15	3.2	15	73	19	50	44	0	0	55	0.99
14117239--14117273	16	2.2	16	89	0	52	57	2	0	40	1.14
14117674--14117698	4	6.2	4	100	0	50	48	0	0	52	1.00

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