genome.fa.s12.2.7.7.80.10.50.1000.119.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  119  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)
34805424--34805451	11	2.5	11	100	0	56	92	7	0	0	0.37
34807571--34807765	98	2.0	98	95	0	354	27	10	25	36	1.89
34808661--34808774	45	2.5	45	84	0	147	26	21	13	38	1.90
34816098--34816123	2	13.0	2	100	0	52	50	0	0	50	1.00
34817163--34817598	51	8.6	50	77	6	360	30	26	16	26	1.97
34817153--34817390	101	2.4	103	85	8	321	30	27	17	24	1.97
34817163--34817548	151	2.5	153	82	4	451	30	26	16	26	1.97
34817265--34817594	102	3.3	102	87	2	416	30	25	15	28	1.96
34817163--34817594	151	2.8	150	80	5	424	30	26	16	26	1.96
34825055--34825087	16	2.1	16	100	0	66	36	12	33	18	1.88
34828837--34828881	2	22.5	2	100	0	90	51	0	0	48	1.00
34829574--34829634	18	3.4	17	84	4	68	9	36	39	14	1.80
34833165--34833208	21	2.1	21	82	0	52	25	27	11	36	1.90
34849343--34849455	43	2.6	42	87	1	154	27	17	27	27	1.98
34850022--34850149	23	5.4	23	63	20	57	26	17	15	39	1.90
34850022--34850173	48	3.2	48	85	1	216	26	18	15	40	1.90
34850901--34850947	2	23.5	2	100	0	94	48	0	0	51	1.00
34851632--34851700	28	2.5	28	100	0	138	30	7	7	55	1.55
34853544--34853583	21	1.9	21	84	0	53	52	2	5	40	1.37
34856013--34856065	27	2.0	27	88	0	79	39	24	26	9	1.86
34860435--34860469	10	3.6	10	88	7	54	62	2	5	28	1.32
34860428--34860498	19	3.7	20	79	9	76	61	2	4	30	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34860451--34860541	29	3.1	29	73	23	91	56	2	6	35	1.38
34866384--34866499	56	2.1	53	87	7	162	53	10	9	26	1.65
34866439--34866936	63	7.7	63	76	14	392	50	12	10	27	1.72
34866443--34866936	130	3.8	126	82	11	484	50	12	10	27	1.73
34867317--34867365	4	12.2	4	95	0	89	22	0	26	51	1.49
34872923--34872958	16	2.1	18	90	10	58	44	0	2	52	1.15
34874648--34874681	17	2.0	17	88	0	50	38	20	5	35	1.77
34881615--34881662	24	2.0	24	84	8	62	39	8	2	50	1.44
34883841--34883896	27	1.9	28	86	13	78	39	21	8	30	1.84
34884642--34884668	3	9.0	3	100	0	54	66	0	0	33	0.92
34885293--34885342	23	2.2	23	85	7	66	54	2	0	44	1.11
34885497--34885526	2	15.0	2	100	0	60	50	0	0	50	1.00
34890555--34890593	2	20.0	2	94	5	71	0	0	48	51	1.00
34891153--34891317	83	2.0	83	91	0	267	36	13	9	40	1.77
34892443--34892478	18	1.9	19	88	5	56	41	2	0	55	1.14
34892944--34892986	21	2.0	21	86	0	59	32	9	2	55	1.44
34898541--34898592	26	2.0	26	85	3	70	65	1	1	30	1.14
34905400--34905527	69	1.9	69	88	4	197	42	14	9	32	1.78
34911653--34911699	23	2.0	23	100	0	94	42	4	12	40	1.63
34914784--34914816	2	16.5	2	93	0	57	48	3	0	48	1.17
34915824--34915867	21	2.1	21	83	8	54	43	0	9	47	1.35
34918162--34918187	6	4.3	6	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34918266--34918296	2	15.5	2	100	0	62	51	0	0	48	1.00
34918434--34918461	2	14.0	2	100	0	56	50	0	0	50	1.00
34918990--34919124	45	3.0	46	89	2	193	21	17	20	40	1.91
34919108--34919150	6	6.8	6	86	7	59	20	18	16	44	1.87
34919108--34919143	18	1.9	19	94	5	65	19	19	16	44	1.87
34919637--34919668	15	2.3	15	89	10	50	40	0	18	40	1.51
34940198--34940248	16	3.2	16	74	20	52	31	1	1	64	1.15
34940204--34940255	18	3.2	16	72	20	54	30	1	1	65	1.14
34940308--34940337	16	1.9	16	93	6	53	70	0	0	30	0.88
34942187--34942248	22	2.7	22	90	5	88	48	1	1	48	1.21
34942222--34942278	16	3.6	16	90	0	87	47	3	3	45	1.37
34942332--34942388	28	2.1	27	86	3	78	40	3	7	49	1.47
34942324--34942485	83	2.0	82	87	11	237	39	4	7	48	1.53
34942324--34942437	40	3.0	40	75	17	141	37	5	7	49	1.55
34947584--34948306	378	1.9	377	84	4	983	23	31	9	34	1.88
34949200--34949240	18	2.2	20	86	8	59	17	12	0	70	1.16
34949676--34949714	19	2.0	20	90	5	62	51	12	0	35	1.40
34958426--34958515	36	2.5	36	83	0	108	17	24	30	27	1.97
34960795--34961213	210	2.0	209	96	0	766	47	20	12	20	1.82
34963476--34963540	29	2.2	29	86	5	87	64	0	4	30	1.14
34963712--34963752	21	2.0	21	85	9	57	41	4	2	51	1.36
34963759--34963832	18	4.1	18	80	13	71	40	5	0	54	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34963777--34963831	20	2.9	20	84	7	62	41	3	0	54	1.18
34964546--34964588	19	2.3	19	84	8	52	62	16	2	18	1.43
34967228--34967270	22	2.0	20	82	8	50	37	2	2	58	1.24
34967647--34967721	31	2.4	31	86	4	107	32	9	10	48	1.70
34970663--34970694	12	2.8	11	90	9	55	31	0	0	68	0.90
34970675--34970734	30	2.0	30	86	0	84	25	1	13	60	1.43
34974729--34974764	16	2.2	16	95	0	63	61	2	5	30	1.33
34974970--34975022	17	3.2	17	81	7	56	54	0	0	45	0.99
34974979--34975038	33	2.0	33	84	15	85	53	0	0	46	1.00
34975411--34975441	9	3.4	9	95	0	53	61	3	0	35	1.12
34984301--34984568	132	2.0	131	91	7	436	27	10	14	47	1.77
34984802--34985174	186	2.0	186	97	0	710	24	14	14	46	1.82
34987459--34987542	39	2.2	39	95	0	150	26	19	16	38	1.92
34988409--34988438	9	3.3	9	95	0	51	46	16	10	26	1.78
34988652--34988711	30	2.0	31	86	3	86	20	40	0	40	1.52
34992664--34992694	2	15.5	2	93	0	53	0	48	3	48	1.17
34995951--34996119	55	3.1	54	87	8	234	56	1	20	21	1.52
34998343--34998367	13	1.9	13	100	0	50	24	0	0	76	0.80
35005901--35005956	22	2.5	23	82	2	69	51	1	1	44	1.22
35005932--35005971	16	2.5	16	91	0	62	47	2	7	42	1.45
35005981--35006160	68	2.9	61	90	8	274	40	4	9	46	1.56
35006044--35006071	9	3.1	9	100	0	56	32	0	10	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35005960--35006130	68	2.5	68	97	1	319	39	4	8	47	1.54
35005994--35006194	68	3.2	60	83	14	218	39	4	8	46	1.57
35008130--35008244	57	2.0	57	100	0	230	45	10	22	21	1.82
35010178--35010214	13	2.9	12	88	11	56	67	0	0	32	0.91
35020301--35020396	29	3.2	29	68	5	84	35	10	15	38	1.82
35024915--35024945	16	1.9	16	93	0	53	45	35	3	16	1.63
35042817--35043298	168	2.9	166	80	8	493	41	18	11	28	1.85
35049283--35049325	2	21.5	2	100	0	86	0	48	0	51	1.00
35055132--35055203	31	2.3	31	95	0	126	33	11	11	44	1.75
35063750--35063838	42	2.1	42	97	2	171	35	21	13	29	1.91
35068057--35068121	29	2.2	30	80	5	78	35	9	16	38	1.81
35068067--35068142	29	2.6	29	82	4	89	38	13	18	30	1.89
35070892--35070918	3	9.0	3	100	0	54	66	0	0	33	0.92
35076746--35078108	616	2.2	619	96	2	2480	36	18	12	33	1.88
35090956--35091018	31	2.0	31	84	0	81	33	9	11	46	1.72
35101239--35101275	5	7.8	5	82	11	51	59	0	0	40	0.97
35104799--35105243	229	1.9	234	86	4	630	37	10	13	39	1.78
35107136--35107182	16	2.9	17	87	6	62	21	2	0	76	0.89
35117061--35117091	16	2.0	15	93	6	53	48	0	0	51	1.00
35128917--35128963	15	3.1	15	81	6	58	59	0	2	38	1.09
35128925--35128962	16	2.4	16	82	4	51	63	0	2	34	1.09
35128971--35129009	14	2.7	14	84	4	51	53	2	7	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35138008--35138040	16	2.1	16	88	5	50	27	0	0	72	0.85
35139247--35139288	21	2.0	22	90	4	68	4	54	16	23	1.61
35140230--35140255	4	6.5	4	100	0	52	76	0	23	0	0.78
35153527--35153558	9	3.6	9	91	0	55	40	21	12	25	1.88
35156045--35156096	24	2.2	25	90	10	83	44	0	5	50	1.26
35159629--35160140	271	1.9	273	88	2	769	44	9	11	34	1.73
35160187--35160812	155	4.0	155	84	2	779	38	10	15	35	1.81
35162048--35163047	286	3.6	281	83	6	1099	43	9	12	34	1.75
35162654--35163924	574	2.3	556	85	6	1691	42	11	12	33	1.78
35163489--35164084	147	4.0	147	84	5	713	41	11	13	33	1.81

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