genome.fa.s12.2.7.7.80.10.50.1000.59.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  59  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)
16636482--16636795	43	7.3	43	85	3	411	22	18	29	29	1.97
16636482--16636817	130	2.6	130	84	2	428	24	17	28	29	1.97
16640488--16640528	10	4.0	10	87	3	55	36	2	21	39	1.67
16649115--16649164	9	5.6	9	77	13	50	62	4	2	32	1.25
16649953--16649977	10	2.5	10	100	0	50	0	24	0	76	0.80
16650299--16650331	5	6.6	5	100	0	66	18	0	0	81	0.68
16653618--16653694	35	2.2	36	80	2	93	35	11	16	36	1.86
16658389--16658476	42	2.1	42	89	0	131	19	29	26	25	1.98
16670387--16670636	121	2.1	121	97	0	473	34	24	8	32	1.86
16673216--16673475	78	3.3	77	82	6	254	33	12	11	42	1.78
16673216--16673527	80	4.0	78	78	13	293	31	12	11	43	1.79
16673500--16673569	27	2.6	27	86	2	86	30	14	10	45	1.77
16673520--16673576	27	2.1	27	86	3	78	29	8	10	50	1.67
16682987--16683164	97	1.8	97	80	12	213	39	1	34	24	1.63
16685606--16685644	18	2.1	19	85	4	53	35	0	7	56	1.28
16689170--16689204	11	3.1	11	88	8	52	17	22	17	42	1.88
16689167--16689204	12	3.2	12	88	7	60	15	26	15	42	1.87
16690138--16690446	114	2.7	112	78	8	295	30	13	17	38	1.88
16694665--16694697	6	5.5	6	86	13	50	0	15	0	84	0.61
16694660--16694697	18	2.2	17	90	9	60	0	15	0	84	0.63
16696640--16696664	7	3.6	7	100	0	50	0	12	0	88	0.53
16699053--16699367	174	1.8	174	81	6	397	25	10	35	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16703667--16703738	33	2.2	33	85	5	92	34	23	22	19	1.96
16704011--16704130	33	3.6	33	74	6	91	32	28	15	23	1.95
16711769--16711846	38	2.1	38	87	0	111	55	12	5	26	1.58
16712479--16712509	2	16.0	2	93	6	55	51	0	0	48	1.00
16714698--16714735	20	2.0	20	89	5	60	50	0	26	23	1.50
16714807--16714865	30	2.0	30	83	6	75	42	0	37	20	1.52
16714978--16715038	30	2.0	30	90	0	95	44	0	36	19	1.51
16715072--16715108	9	4.1	9	92	0	65	29	10	13	45	1.77
16715337--16715366	14	2.1	14	93	0	51	6	3	20	70	1.25
16716947--16716998	23	2.3	23	93	0	86	38	0	11	50	1.39
16719745--16719861	59	2.0	59	100	0	234	22	5	22	49	1.71
16719770--16719863	30	3.2	30	60	19	70	22	6	19	52	1.68
16723817--16723931	20	6.2	18	68	17	67	29	10	0	59	1.37
16742564--16742633	27	2.6	26	84	8	86	28	20	12	38	1.89
16745150--16745201	25	2.0	26	85	10	72	57	0	5	36	1.23
16747835--16747866	13	2.6	13	85	14	50	56	9	12	21	1.64
16754077--16754116	20	2.1	19	86	9	55	55	5	2	37	1.35
16754322--16754364	20	2.2	20	86	0	59	41	9	9	39	1.69
16777529--16777573	23	2.0	23	100	0	90	20	22	22	35	1.96
16785148--16785238	45	2.0	45	85	2	121	37	28	6	27	1.82
16785219--16785287	16	4.2	16	96	3	129	37	37	0	24	1.56
16785219--16785287	33	2.1	32	97	2	129	37	37	0	24	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16788724--16788764	19	2.3	18	91	8	66	39	9	17	34	1.82
16788984--16789028	23	2.0	23	81	0	54	22	0	15	62	1.33
16789165--16789214	23	2.2	23	85	7	66	38	4	0	58	1.17
16789700--16789750	3	17.0	3	100	0	102	33	0	0	66	0.92
16797830--16797929	23	4.4	23	84	2	132	35	23	25	17	1.95
16797899--16797986	23	3.9	23	86	2	108	32	23	23	19	1.97
16800859--16800916	27	2.1	27	83	0	71	63	1	1	32	1.14
16800857--16800897	20	2.0	20	85	0	55	63	2	2	31	1.20
16835830--16835862	2	16.5	2	100	0	66	48	0	0	51	1.00
16837996--16838040	19	2.2	21	88	7	67	51	13	26	8	1.70
16844663--16844702	19	2.2	19	86	4	55	50	0	0	50	1.00
16844700--16844750	19	2.6	21	81	15	72	37	0	5	56	1.23
16844700--16844749	20	2.5	20	84	12	68	38	0	6	56	1.24
16851077--16851115	20	2.0	20	85	10	53	12	2	10	74	1.17
16852058--16852097	3	14.0	3	84	10	57	0	32	0	67	0.91
16853204--16853247	22	2.0	22	86	0	61	36	15	11	36	1.84
16854321--16854359	7	5.6	7	84	0	51	48	15	2	33	1.58
16854321--16854359	14	2.8	14	92	0	60	48	15	2	33	1.58
16860858--16860887	3	10.0	3	100	0	60	33	0	33	33	1.58
16866040--16866108	22	3.1	22	97	0	129	26	24	14	34	1.94
16866985--16867077	46	2.1	45	84	11	120	37	26	4	31	1.76
16867059--16867109	16	3.2	16	86	5	68	33	25	0	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16867154--16867211	13	4.5	13	74	8	55	37	15	10	36	1.82
16867401--16867433	2	17.0	2	93	6	59	48	0	0	51	1.00
16869533--16869724	96	2.0	96	90	0	303	39	12	8	39	1.74
16874451--16875491	526	2.0	525	90	3	1657	33	16	14	35	1.89
16882141--16882197	30	1.9	30	85	0	78	38	8	22	29	1.85
16882565--16882811	43	5.8	43	76	7	234	24	15	24	35	1.94
16882546--16882855	85	3.7	85	90	0	460	24	17	23	34	1.96
16888627--16888911	51	5.6	51	71	11	219	30	26	17	26	1.97
16888623--16888909	101	2.8	101	89	1	405	30	26	17	26	1.97
16891320--16891390	29	2.6	27	82	8	83	16	8	9	64	1.47
16891381--16891424	22	2.0	22	100	0	88	13	9	9	68	1.40
16891585--16891609	13	1.9	13	100	0	50	32	4	24	40	1.73
16892687--16892850	43	3.8	43	80	4	161	23	15	27	33	1.95
16900579--16900738	43	3.7	43	76	13	159	23	17	27	31	1.97
16900579--16900742	86	1.9	87	81	10	203	23	17	27	31	1.97
16901044--16901221	90	2.0	90	97	0	338	24	19	20	35	1.95
16901354--16901405	28	1.9	26	84	7	68	32	3	19	44	1.69
16907969--16908017	9	5.4	9	90	0	80	26	12	22	38	1.89
16907967--16908017	18	2.8	18	100	0	102	29	11	21	37	1.89
16916958--16917025	31	2.2	31	100	0	136	32	23	29	14	1.94
16917072--16917217	43	3.4	43	86	2	159	30	26	17	26	1.98
16917094--16917319	43	5.3	43	80	4	244	33	28	15	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16917094--16917319	86	2.7	86	83	2	269	33	28	15	22	1.95
16919559--16919626	29	2.3	30	82	2	75	55	7	7	29	1.54
16922267--16922314	14	3.3	15	80	8	55	33	37	0	29	1.58
16922256--16922331	22	3.5	21	73	10	55	34	39	0	26	1.57
16922568--16922600	16	2.1	16	88	11	50	57	0	0	42	0.98
16922617--16922660	7	6.3	7	79	10	54	47	36	0	15	1.46
16922617--16922660	13	3.2	13	83	9	52	47	36	0	15	1.46
16922617--16922658	21	2.0	20	95	4	75	50	35	0	14	1.43
16922950--16923544	114	4.9	114	73	14	510	25	28	20	25	1.99
16923069--16923316	73	3.4	73	86	1	343	25	26	20	27	1.99
16922955--16923430	261	1.8	261	91	0	792	25	28	20	25	1.99
16924678--16924851	73	2.4	73	85	5	235	23	27	20	29	1.99
16931054--16931125	28	2.6	28	81	0	90	20	18	15	45	1.85
16931301--16931496	51	3.7	51	71	10	115	24	29	12	34	1.92
16931251--16931617	109	3.4	109	82	2	425	25	28	10	35	1.89
16932011--16932114	27	3.9	27	78	5	102	23	13	28	34	1.92
16940568--16940598	15	2.0	16	93	6	55	25	9	6	58	1.54
16946733--16946863	57	2.3	57	83	0	154	32	18	22	26	1.97
16946872--16946928	28	2.0	28	83	6	71	26	19	22	31	1.98
16956283--16956524	118	2.0	119	85	5	330	24	23	14	36	1.93
16978753--16978800	25	1.9	25	100	0	96	22	0	16	60	1.36
16979597--16979628	16	2.0	16	100	0	64	25	18	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16985209--16985251	22	2.0	22	90	4	70	62	0	0	37	0.95
16998194--17002230	580	7.0	576	91	1	6426	35	16	19	28	1.93
17003433--17003480	25	2.0	25	84	15	66	37	18	0	43	1.51
17007740--17007791	25	2.1	25	88	0	77	30	13	38	17	1.88
17009160--17009211	23	2.3	23	89	0	77	42	23	7	26	1.81
17011586--17011675	27	3.3	27	85	3	128	47	23	12	16	1.80
17024851--17025190	78	4.4	78	83	4	404	34	14	12	38	1.84
17025253--17025472	84	2.6	84	83	5	259	29	13	12	44	1.81
17031999--17032036	20	1.9	20	89	10	60	60	5	0	34	1.19
17037905--17037931	7	3.9	7	100	0	54	29	0	55	14	1.40

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