genome.fa.s12.2.7.7.80.10.50.1000.36.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  36  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)
9833221--9833408	45	4.2	45	77	6	159	35	26	16	22	1.95
9834817--9834855	6	6.3	6	88	5	60	66	2	17	12	1.35
9836011--9836310	163	1.8	163	86	2	433	26	20	13	40	1.89
9850583--9850951	193	1.9	186	88	4	542	28	19	24	27	1.99
9852735--9852760	3	8.7	3	100	0	52	65	0	34	0	0.93
9856317--9856341	5	5.0	5	100	0	50	20	0	0	80	0.72
9859677--9859741	3	20.3	3	84	12	85	63	1	0	35	1.04
9859677--9859741	13	5.1	12	89	9	85	63	1	0	35	1.04
9859677--9859740	16	3.9	16	90	8	94	62	1	0	35	1.05
9861412--9861869	44	10.7	42	70	12	225	27	20	21	29	1.98
9861403--9861951	129	4.3	129	90	3	767	27	21	20	30	1.98
9861412--9861822	85	4.8	84	72	10	278	27	20	21	29	1.98
9861744--9862177	222	1.9	224	90	6	702	28	21	17	31	1.97
9861972--9862528	44	12.8	44	73	10	310	28	22	18	30	1.98
9861869--9862050	98	1.9	93	86	7	258	30	21	16	31	1.96
9862065--9862527	87	5.3	86	73	9	357	28	23	20	28	1.99
9861620--9862354	351	2.1	347	81	7	844	28	22	19	30	1.98
9863757--9863785	13	2.1	14	93	6	51	13	17	0	68	1.20
9864708--9864740	16	2.1	16	94	0	57	12	3	6	78	1.04
9864710--9864762	28	1.9	28	84	3	72	9	7	9	73	1.25
9864749--9864781	14	2.4	14	90	10	50	0	0	15	84	0.61
9869149--9869183	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9869166--9869229	25	2.6	25	80	9	78	46	3	7	42	1.48
9869170--9869230	23	2.7	23	79	5	70	45	3	8	42	1.50
9869274--9869314	3	13.3	3	89	5	64	65	2	0	31	1.05
9874610--9874647	20	1.9	20	88	0	58	65	18	10	5	1.41
9875040--9875186	73	2.0	73	95	0	267	33	9	25	31	1.88
9878381--9878422	21	2.0	22	85	4	59	21	0	38	40	1.53
9878649--9878691	21	2.0	21	86	0	59	39	0	2	58	1.11
9878649--9878691	10	4.1	10	79	8	50	39	0	2	58	1.11
9878455--9878871	222	1.9	223	85	1	586	36	10	9	43	1.72
9879115--9879163	25	2.0	25	83	0	62	61	0	8	30	1.25
9883524--9883566	18	2.4	18	84	0	59	41	2	39	16	1.61
9884844--9885077	41	5.7	41	94	0	387	21	29	20	27	1.98
9885196--9885376	64	2.9	63	90	6	262	40	17	8	33	1.79
9885404--9885434	2	16.0	2	93	6	55	51	0	0	48	1.00
9889234--9889292	18	3.3	18	82	0	64	16	32	3	47	1.64
9893319--9893374	27	2.0	28	86	3	78	64	1	0	33	1.04
9893333--9893424	10	9.4	10	69	19	52	67	3	3	26	1.21
9893358--9893413	20	2.8	20	84	10	69	66	1	5	26	1.23
9893328--9893381	28	2.0	27	85	3	72	66	3	1	27	1.19
9893356--9893424	10	6.5	11	73	5	54	66	2	4	26	1.24
9893356--9893424	21	3.3	20	83	6	75	66	2	4	26	1.24
9893600--9893648	19	2.6	19	80	6	55	26	10	0	63	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9893670--9893763	27	3.5	26	74	16	75	35	3	2	59	1.25
9893670--9893777	27	4.0	26	72	17	62	36	3	1	58	1.27
9906057--9906094	2	19.0	2	100	0	76	0	0	50	50	1.00
9907408--9907491	27	3.1	27	82	0	96	35	16	25	22	1.95
9907474--9907546	27	2.7	26	79	8	76	32	10	30	26	1.90
9910315--9910405	45	2.0	45	91	0	146	31	23	17	27	1.97
9910407--9910545	51	2.7	50	78	3	152	32	26	15	25	1.96
9924261--9924328	31	2.2	31	86	5	93	22	38	17	22	1.93
9926457--9926538	26	3.2	25	69	27	73	23	12	29	35	1.91
9926352--9926536	101	1.8	101	89	3	291	23	17	27	31	1.97
9926344--9926538	51	3.8	52	84	7	258	23	16	28	31	1.96
9926540--9926624	46	1.9	43	83	7	107	23	14	27	35	1.93
9926762--9926793	16	2.0	16	93	0	55	59	0	15	25	1.36
9944783--9944821	20	2.1	19	90	9	62	64	0	0	35	0.94
9944759--9944870	10	11.5	10	64	16	56	65	2	1	30	1.17
9944855--9944902	25	2.0	24	87	4	69	60	2	0	37	1.09
9944809--9944897	41	2.3	39	82	9	101	65	3	2	29	1.21
9944901--9944949	25	2.0	24	92	4	80	55	2	0	42	1.11
9945863--9945941	31	2.6	32	80	8	92	45	8	3	41	1.53
9953060--9953092	15	2.1	17	88	11	52	36	6	39	18	1.75
9965401--9965451	15	3.5	15	67	5	50	25	13	7	52	1.67
9966222--9966248	2	13.5	2	100	0	54	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9966362--9966397	16	2.2	16	90	9	56	55	2	0	41	1.14
9969803--9969924	61	2.0	61	95	0	217	50	4	15	28	1.64
9971766--9971806	18	2.4	17	87	4	55	14	41	29	14	1.86
9977284--9977331	25	1.9	25	86	0	69	35	14	14	35	1.87
9978617--9978652	17	2.1	17	89	5	54	13	38	30	16	1.88
9986007--9986154	57	2.5	59	83	9	185	30	22	25	22	1.99
9986180--9986311	67	2.0	67	92	0	219	20	18	32	28	1.96
9995239--9995278	13	3.2	12	86	13	55	75	0	25	0	0.81
9995235--9995282	19	2.6	19	87	6	64	72	0	27	0	0.84
9995244--9995282	6	6.0	7	82	17	57	71	0	28	0	0.86
9995232--9995282	12	4.3	12	79	16	54	70	0	29	0	0.87
9998337--9998366	12	2.5	12	94	0	51	6	30	40	23	1.80
10010020--10010052	16	2.0	17	94	5	59	30	0	0	69	0.88
10010363--10010416	27	2.0	27	81	0	63	42	9	7	40	1.65
10010575--10010605	12	2.7	12	95	5	55	32	0	0	67	0.91
10016900--10016938	2	19.5	2	100	0	78	48	0	0	51	1.00
10017210--10017240	2	15.5	2	100	0	62	51	0	0	48	1.00
10019092--10019117	2	13.0	2	100	0	52	50	0	0	50	1.00
10019526--10019555	15	2.0	15	93	0	51	16	0	10	73	1.09
10020240--10020646	108	3.8	108	93	2	667	33	18	16	30	1.94
10020240--10020646	215	1.9	217	91	3	678	33	18	16	30	1.94
10022858--10022906	25	2.0	25	100	0	98	28	34	0	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10025840--10025885	4	11.5	4	100	0	92	50	23	0	26	1.50
10033696--10033721	2	13.0	2	100	0	52	50	0	0	50	1.00
10034283--10034323	13	3.1	13	86	6	55	29	2	0	68	1.03
10034290--10034323	14	2.5	13	86	9	50	26	0	0	73	0.83
10037188--10037306	57	2.1	58	90	1	186	43	7	22	26	1.79
10038829--10038880	2	26.0	2	92	0	86	1	1	48	48	1.24
10039855--10040222	184	2.0	184	95	0	664	33	11	14	39	1.83
10045909--10046031	64	1.9	64	89	0	192	35	22	20	21	1.96
10048841--10049003	82	2.0	82	98	0	317	40	14	17	26	1.89
10050467--10050516	24	2.2	23	82	13	59	40	0	6	54	1.25
10051378--10051415	13	2.9	13	92	0	58	36	7	15	39	1.77
10056708--10056758	24	2.1	24	92	0	84	37	1	9	50	1.47
10059206--10059246	13	3.1	14	86	6	50	21	7	24	46	1.77
10059303--10059354	25	2.0	26	85	3	70	25	3	21	50	1.65
10060172--10060238	34	1.9	35	84	3	91	44	13	8	32	1.75
10061290--10061321	16	2.0	16	100	0	64	56	6	12	25	1.59
10062323--10062416	47	2.0	47	87	0	134	28	14	22	34	1.94
10062992--10063373	9	41.6	9	70	24	146	46	15	0	37	1.46
10063031--10063063	16	2.1	16	100	0	66	45	24	0	30	1.53
10063080--10063356	31	8.2	31	78	16	275	46	14	0	38	1.45
10062980--10063394	103	3.9	103	94	2	704	46	15	0	37	1.46
10063081--10063394	72	4.5	71	79	13	391	46	15	0	37	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10069059--10069256	87	2.3	87	85	5	267	39	16	31	12	1.85
10069225--10069264	21	1.9	21	89	0	62	37	12	42	7	1.71
10071849--10071995	39	3.6	39	80	16	165	18	20	21	39	1.93
10071876--10071973	45	2.2	45	94	0	169	19	19	20	40	1.91
10073336--10073659	43	7.6	42	89	3	420	23	20	26	29	1.99
10074629--10074658	2	15.0	2	100	0	60	50	0	0	50	1.00
10075193--10075237	16	2.7	17	83	13	58	66	0	0	33	0.92
10075181--10075689	9	54.9	9	68	20	132	59	3	1	35	1.27
10075194--10075242	16	3.1	15	77	11	53	65	0	0	34	0.93
10075228--10075330	28	3.7	27	72	16	86	62	2	0	33	1.17

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