genome.fa.s12.2.7.7.80.10.50.1000.52.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  52  of  120  ( 14336 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)
14571139--14571185	23	2.0	23	87	0	67	6	21	29	42	1.77
14571317--14571504	29	6.4	29	77	11	143	42	14	26	17	1.87
14571377--14571532	30	5.3	30	78	9	108	38	13	26	21	1.90
14571377--14571444	28	2.4	28	87	5	91	36	11	27	23	1.90
14571287--14571532	117	2.1	118	87	4	354	39	15	26	19	1.91
14571920--14571954	17	2.1	17	94	0	61	11	2	28	57	1.48
14574025--14574075	20	2.6	19	81	6	57	29	19	37	13	1.90
14577573--14577632	20	2.7	21	77	12	59	45	8	1	45	1.43
14578265--14578506	17	14.2	17	78	6	202	21	9	25	44	1.81
14581826--14581891	32	2.1	32	83	11	82	56	25	0	18	1.42
14582291--14582360	27	2.6	27	83	0	86	27	22	25	24	2.00
14588540--14588584	23	2.0	23	91	4	74	46	17	4	31	1.68
14588537--14588594	22	2.6	22	86	7	82	43	18	3	34	1.68
14593669--14593713	23	2.0	23	91	4	74	46	17	4	31	1.68
14593666--14593723	22	2.6	22	86	7	82	43	18	3	34	1.68
14594009--14594066	3	19.3	3	100	0	116	67	0	0	32	0.91
14594946--14594972	2	13.5	2	100	0	54	51	0	0	48	1.00
14596145--14596500	42	8.4	42	83	5	380	32	21	20	25	1.97
14596145--14596498	85	4.2	84	84	6	378	32	21	20	25	1.98
14604002--14604131	9	14.9	9	71	18	80	31	2	18	47	1.61
14604081--14604131	19	2.7	19	85	11	77	33	0	15	50	1.44
14604116--14604277	12	13.8	12	68	13	79	28	1	19	51	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14604216--14604284	24	3.0	24	87	8	92	27	1	17	53	1.52
14604236--14604290	24	2.5	22	85	8	67	27	1	21	49	1.60
14604413--14604450	19	2.0	19	94	0	67	55	0	0	44	0.99
14604468--14604548	9	9.0	9	67	15	51	38	1	18	41	1.58
14604505--14604553	18	2.9	17	85	8	64	42	2	18	36	1.62
14604627--14604661	15	2.3	15	100	0	70	45	5	0	48	1.26
14604643--14604731	28	3.2	28	67	17	85	52	3	4	39	1.38
14604616--14604738	56	2.2	55	84	8	167	56	4	3	36	1.35
14606225--14606312	45	2.0	45	90	0	140	35	9	30	25	1.87
14606957--14606983	12	2.2	12	100	0	54	40	0	0	59	0.98
14614398--14614424	6	4.5	6	100	0	54	0	14	14	70	1.17
14618579--14618615	6	6.0	6	96	3	65	32	0	32	35	1.58
14621826--14621867	13	3.4	12	84	12	50	50	14	2	33	1.56
14623357--14623721	178	2.1	178	100	0	730	64	5	10	19	1.43
14624090--14624167	30	2.6	30	87	2	122	15	32	33	19	1.93
14630282--14630343	22	2.9	22	79	9	58	64	3	27	4	1.29
14637584--14637632	24	2.0	25	84	8	64	57	6	0	36	1.24
14638083--14638119	2	18.5	2	100	0	74	51	0	48	0	1.00
14639071--14639311	50	4.7	50	82	7	261	24	27	20	27	1.99
14639071--14639311	100	2.3	103	84	6	294	24	27	20	27	1.99
14640550--14640584	19	1.9	17	88	11	52	65	14	0	20	1.26
14640593--14640635	22	2.0	22	85	0	59	53	6	13	25	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14641676--14641820	74	2.0	74	95	0	263	31	11	17	40	1.85
14645977--14646075	43	2.3	42	82	5	119	23	27	12	37	1.90
14648508--14648532	3	8.3	3	100	0	50	32	32	0	36	1.58
14650828--14650952	61	2.1	60	83	7	155	37	20	7	35	1.80
14651326--14651445	60	2.0	60	80	6	136	37	5	16	40	1.71
14654282--14654577	51	5.6	52	76	10	237	32	16	21	29	1.95
14654321--14654586	54	5.0	53	75	11	199	30	18	21	29	1.97
14656796--14657050	127	2.0	127	94	1	449	29	23	20	27	1.99
14658153--14658242	36	2.7	33	69	23	87	11	17	12	58	1.62
14665233--14665313	40	2.0	40	92	2	137	44	9	22	23	1.82
14666361--14666394	16	2.1	17	88	5	52	35	0	5	58	1.22
14666596--14666672	38	2.0	38	94	0	136	32	19	14	33	1.92
14668341--14668406	23	2.9	23	88	0	105	43	15	15	25	1.85
14669191--14669231	17	2.4	17	87	4	55	34	2	17	46	1.61
14669656--14669777	42	2.9	41	80	3	127	22	14	17	45	1.85
14675479--14675549	31	2.3	31	95	2	126	42	22	1	33	1.63
14682766--14682839	31	2.4	30	84	6	87	39	12	24	24	1.89
14687297--14687338	22	1.9	22	85	0	57	59	2	2	35	1.23
14692228--14692298	35	2.0	35	100	0	142	26	8	25	39	1.84
14700857--14700901	16	2.8	16	86	6	56	66	13	17	2	1.34
14705413--14705457	16	2.8	16	86	6	56	66	13	17	2	1.34
14706781--14706808	3	9.3	3	100	0	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14711182--14711341	87	1.8	86	91	1	266	27	26	20	25	1.99
14711182--14711410	43	5.3	43	83	2	253	29	27	18	24	1.98
14711182--14711415	87	2.7	86	82	3	238	29	26	18	24	1.98
14711727--14711817	43	2.1	43	83	2	112	43	9	10	35	1.73
14720029--14720154	7	17.7	7	67	12	51	45	33	0	21	1.52
14720026--14720068	20	2.1	21	95	4	79	53	27	0	18	1.45
14720112--14720149	15	2.6	15	87	4	60	44	36	0	18	1.50
14720107--14720154	22	2.2	21	81	3	60	47	29	0	22	1.51
14720175--14720209	14	2.5	14	90	0	52	48	37	0	14	1.44
14720115--14720282	74	2.3	75	95	1	302	46	30	2	20	1.64
14720249--14720282	14	2.4	14	90	0	50	50	35	0	14	1.44
14720581--14720666	40	2.2	40	85	4	111	25	24	19	30	1.98
14735359--14735397	20	2.0	20	89	0	60	30	5	15	48	1.66
14735364--14735402	20	2.1	19	86	13	55	30	10	15	43	1.80
14738191--14738220	6	5.2	6	92	8	53	53	0	30	16	1.44
14738157--14738220	11	5.6	11	79	17	53	53	0	26	20	1.46
14738157--14738220	17	3.7	17	75	17	60	53	0	26	20	1.46
14741045--14741187	41	3.5	41	80	5	146	18	25	29	26	1.98
14745427--14745727	131	2.3	131	84	0	368	34	13	12	39	1.82
14745712--14745751	20	2.0	20	100	0	80	30	10	10	50	1.69
14745581--14745874	151	1.9	151	83	0	381	33	13	13	38	1.85
14745767--14746004	131	1.8	131	85	1	334	32	14	14	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14745450--14746004	282	2.0	282	84	0	734	33	14	13	38	1.85
14747140--14747178	20	2.0	20	94	0	69	30	12	10	46	1.75
14747301--14747325	13	1.9	13	100	0	50	44	8	0	48	1.32
14747383--14747457	39	1.9	39	94	0	132	17	28	28	26	1.98
14752437--14752464	2	14.0	2	100	0	56	50	0	0	50	1.00
14762936--14762978	2	21.5	2	100	0	86	0	48	0	51	1.00
14769426--14769674	31	8.1	31	72	7	152	34	7	15	42	1.75
14769417--14769661	92	2.7	89	83	3	256	35	7	15	42	1.74
14769505--14769711	92	2.3	91	82	3	227	34	7	14	43	1.74
14769594--14769710	31	3.8	31	81	2	146	31	8	15	44	1.76
14769531--14769719	61	3.1	61	77	1	164	33	6	15	43	1.74
14769835--14770151	84	3.9	83	89	8	472	26	17	27	29	1.97
14769986--14770057	34	2.1	35	89	10	112	25	16	29	29	1.97
14769945--14770100	77	2.0	76	96	3	287	25	17	28	28	1.97
14769861--14770151	161	1.8	161	90	5	473	26	16	27	29	1.97
14774068--14774107	16	2.4	17	87	4	55	60	22	10	7	1.54
14783519--14783607	25	3.6	25	71	7	83	16	26	22	33	1.96
14783635--14783699	25	2.6	25	82	0	94	29	24	13	32	1.94
14785648--14785719	35	2.1	35	97	0	135	41	11	9	37	1.74
14787579--14787663	42	2.0	42	93	0	143	41	9	17	31	1.82
14788077--14788163	32	2.7	32	87	1	102	41	6	2	49	1.42
14788108--14788162	16	3.4	17	65	10	51	38	7	3	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14795010--14795039	15	2.0	15	100	0	60	53	0	0	46	1.00
14797333--14797425	9	9.9	9	75	16	73	33	0	2	64	1.06
14797333--14797425	10	9.8	10	75	12	72	33	0	2	64	1.06
14797333--14797402	29	2.4	30	87	2	106	37	0	1	61	1.05
14797346--14797408	19	3.3	18	71	10	54	34	0	1	63	1.04
14797333--14797425	29	3.3	29	80	5	102	33	0	2	64	1.06
14800832--14800868	18	2.0	19	89	5	58	5	2	24	67	1.25
14801418--14801458	21	2.0	21	90	0	64	21	26	19	31	1.97
14804552--14804615	31	2.1	31	100	0	128	29	6	20	43	1.76
14805931--14806004	37	2.0	37	100	0	148	48	8	8	35	1.62

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