genome.fa.s3.2.7.7.80.10.50.1000.56.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  56  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)
16803254--16803296	18	2.4	18	88	0	59	44	9	27	18	1.80
16804529--16804772	122	2.0	122	100	0	488	27	31	18	22	1.97
16805241--16805338	11	9.3	11	68	12	71	45	2	28	23	1.64
16805276--16805338	33	1.9	33	93	6	110	46	1	28	23	1.62
16811576--16811648	31	2.4	30	77	8	78	49	1	9	39	1.44
16828368--16828420	24	2.2	24	100	0	106	15	24	28	32	1.95
16833358--16833391	17	2.0	17	100	0	68	35	17	11	35	1.87
16833432--16833473	15	2.9	15	82	3	50	11	14	9	64	1.50
16839334--16839420	45	1.9	46	83	6	115	35	6	1	56	1.34
16839607--16839689	37	2.3	35	75	4	85	33	9	6	50	1.60
16839873--16840043	40	4.3	40	88	5	258	33	2	1	63	1.15
16839873--16840043	39	4.3	39	88	4	254	33	2	1	63	1.15
16840017--16840056	21	1.9	21	89	0	62	37	2	0	60	1.11
16840016--16840070	21	2.5	20	80	13	56	38	1	3	56	1.28
16840295--16840345	12	3.9	13	76	16	52	21	9	0	68	1.18
16840640--16840783	74	1.9	74	88	0	216	29	18	15	35	1.93
16849761--16849787	4	6.8	4	100	0	54	48	0	0	51	1.00
16850404--16850464	29	2.0	30	87	6	88	40	8	11	39	1.71
16850984--16851039	3	18.7	3	100	0	112	66	0	0	33	0.92
16851704--16851778	27	2.7	28	91	8	118	42	12	0	45	1.41
16851835--16851910	27	2.8	27	88	4	109	25	27	28	18	1.98
16852035--16852073	19	2.0	21	85	10	55	23	0	10	66	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16852119--16852153	3	11.3	3	87	6	52	31	0	5	62	1.18
16852152--16852201	3	16.7	3	100	0	100	0	0	32	68	0.90
16852379--16852409	12	2.6	12	94	0	53	19	0	19	61	1.35
16852963--16853007	18	2.5	18	81	0	63	28	8	48	13	1.72
16857679--16857716	19	2.0	19	85	10	51	60	7	0	31	1.25
16857758--16857908	12	13.0	12	72	18	92	0	33	0	66	0.92
16857763--16857897	22	6.6	21	70	23	85	0	34	0	65	0.93
16857783--16857908	4	30.2	4	74	17	98	0	32	0	67	0.91
16857790--16857876	35	2.5	35	88	5	122	0	33	0	66	0.92
16857793--16857909	34	3.4	33	82	12	112	0	32	0	67	0.91
16858050--16858105	28	2.0	28	96	0	103	35	0	8	55	1.31
16858536--16858626	4	22.2	4	75	20	66	1	30	0	68	0.97
16858504--16858627	40	3.0	41	79	14	125	1	32	0	66	1.02
16858535--16858626	34	2.6	36	88	10	127	1	31	0	67	0.98
16858667--16858742	27	2.8	27	85	0	107	14	30	28	26	1.95
16858803--16858873	27	2.6	28	91	6	110	46	0	14	39	1.44
16857950--16859320	744	1.9	737	84	5	1697	32	15	12	39	1.85
16861200--16861253	20	2.8	20	78	10	60	27	1	5	64	1.26
16862089--16862123	17	2.0	17	88	5	52	77	2	5	14	1.07
16863654--16864173	39	13.3	39	88	0	745	47	18	2	31	1.63
16878101--16878374	41	6.6	41	79	7	140	21	17	25	35	1.95
16878141--16878378	84	2.8	84	97	0	449	20	18	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16878146--16878423	42	6.6	42	80	8	305	19	19	25	35	1.95
16883264--16883617	43	8.3	44	83	5	372	27	29	18	24	1.98
16883264--16883557	86	3.4	86	88	2	414	26	31	18	23	1.98
16883884--16883973	43	2.1	42	83	6	110	44	10	8	36	1.69
16887469--16887521	21	2.5	22	81	9	65	39	39	0	20	1.53
16887751--16887849	21	4.6	21	71	8	65	38	38	0	23	1.55
16887751--16887811	21	2.9	22	82	7	72	37	40	0	21	1.53
16888191--16888500	41	7.8	40	75	14	200	34	25	19	20	1.96
16888331--16888464	70	1.9	70	89	6	209	33	26	22	17	1.96
16888290--16888500	111	1.9	111	87	1	307	34	25	20	19	1.96
16892395--16892446	26	2.0	26	84	0	68	34	19	15	30	1.93
16894770--16895005	50	4.7	50	93	0	373	25	22	31	19	1.98
16905992--16906040	20	2.5	20	81	15	66	12	24	6	57	1.58
16914802--16914841	6	6.7	6	88	11	64	17	0	0	82	0.67
16914758--16915368	298	2.0	305	89	4	932	25	14	16	43	1.85
16917042--16917067	12	2.2	12	100	0	52	23	11	7	57	1.59
16925129--16925256	61	2.2	60	85	5	181	53	3	0	42	1.19
16925132--16925258	57	2.2	57	83	9	152	54	3	0	41	1.19
16925259--16925308	24	2.1	23	82	10	57	58	2	4	36	1.29
16931275--16931311	18	2.0	19	89	5	58	70	0	2	27	1.01
16937547--16937697	35	4.3	35	80	1	142	37	30	12	19	1.89
16937537--16937697	70	2.3	69	80	2	187	38	31	11	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16954135--16954164	12	2.5	12	94	0	51	6	20	40	33	1.78
16955171--16955229	31	1.9	30	83	10	75	37	13	6	42	1.71
16963502--16963544	22	2.0	22	100	0	86	23	25	13	37	1.92
16974276--16974325	3	16.7	3	95	0	91	32	0	34	34	1.58
16975075--16975240	87	1.9	86	88	3	253	36	22	15	25	1.94
16981870--16981922	24	2.2	24	96	0	97	22	13	22	41	1.88
16986990--16987023	16	2.1	17	88	5	52	76	11	0	11	1.02
16992458--16992507	20	2.5	20	80	0	64	42	20	12	26	1.86
17010300--17010336	3	12.3	3	94	0	65	32	2	0	64	1.07
17029852--17029994	71	2.0	71	91	2	234	32	9	6	52	1.58
17030497--17030548	22	2.5	20	82	11	68	50	13	11	25	1.75
17030826--17030853	14	2.0	14	100	0	56	14	14	28	42	1.84
17031524--17031553	11	2.6	12	89	10	53	56	0	0	43	0.99
17032771--17032808	20	1.9	20	94	0	67	65	10	2	21	1.35
17050762--17050790	8	3.6	8	100	0	58	79	0	0	20	0.74
17051160--17051189	9	3.2	9	95	4	51	76	0	13	10	1.01
17057735--17057779	22	2.0	24	82	8	58	31	24	6	37	1.81
17060228--17060261	17	2.0	18	88	11	54	41	0	17	41	1.50
17070372--17070463	25	3.7	24	81	5	103	26	22	22	28	1.99
17073191--17073220	15	1.9	16	93	6	53	43	0	0	56	0.99
17080113--17080181	24	3.0	23	83	16	81	5	18	1	73	1.10
17080145--17080184	19	2.1	19	86	9	55	5	17	0	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17096637--17096703	25	2.7	25	80	0	71	25	23	22	28	1.99
17103809--17103839	8	3.9	8	91	0	53	51	0	12	35	1.40
17104309--17104400	25	3.7	25	82	4	89	27	26	13	33	1.93
17104368--17104435	25	2.7	25	88	0	91	26	23	20	29	1.99
17109049--17109183	50	2.7	50	83	0	171	22	27	22	27	1.99
17113264--17113289	13	2.0	13	100	0	52	38	0	15	46	1.46
17114284--17114465	45	4.1	45	81	1	215	28	16	23	31	1.96
17117854--17118029	88	2.0	88	98	0	343	39	13	5	41	1.67
17120471--17120570	27	3.8	26	78	4	101	21	27	16	36	1.94
17122233--17122303	35	2.0	35	91	0	115	26	9	4	59	1.48
17122530--17122661	45	2.9	43	83	7	147	24	20	13	41	1.88
17126050--17126097	17	2.9	17	82	17	57	47	0	0	52	1.00
17131376--17131414	19	2.1	19	95	0	69	46	10	17	25	1.80
17135312--17135397	3	27.7	3	73	15	59	34	6	2	55	1.39
17135312--17135382	14	4.9	14	80	11	81	35	8	1	54	1.39
17144024--17144072	18	2.6	19	78	18	57	22	2	2	73	1.04
17144015--17144072	22	2.6	22	78	10	73	22	1	3	72	1.09
17145437--17147383	970	2.0	970	95	0	3493	31	14	20	33	1.93
17148583--17148643	6	10.3	6	82	8	54	80	9	4	4	1.01
17150213--17150269	30	1.9	30	100	0	114	38	3	24	33	1.73
17150874--17151634	131	5.8	131	92	1	1188	28	21	26	24	1.99
17151620--17151867	44	5.9	42	70	8	155	32	19	20	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17151882--17152045	50	3.3	50	73	10	163	35	25	15	24	1.94
17151913--17152075	50	3.3	50	68	13	136	37	22	17	22	1.94
17151863--17152072	100	2.1	100	87	0	303	37	22	16	23	1.94
17151883--17152107	100	2.2	100	84	1	281	35	23	16	24	1.95
17153743--17153828	3	28.7	3	70	13	52	33	5	3	56	1.40
17153743--17153781	14	2.8	14	96	0	69	35	2	0	61	1.10
17153743--17153782	17	2.4	17	87	8	55	35	2	0	62	1.09
17153740--17153828	14	6.7	12	72	19	54	34	5	3	56	1.40
17153757--17153844	30	2.8	31	73	14	83	34	5	3	56	1.39
17155515--17155545	4	8.0	4	92	7	55	48	0	0	51	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