genome.fa.s12.2.7.7.80.10.50.1000.106.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  106  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)
31017050--31017093	9	5.0	9	78	15	56	29	2	0	68	1.02
31029228--31029269	16	2.7	15	85	7	66	59	2	2	35	1.23
31029305--31029388	38	2.2	39	89	4	134	38	3	7	51	1.47
31029512--31029774	22	11.3	22	72	18	185	54	13	0	31	1.44
31029565--31029763	49	4.1	49	87	7	296	54	12	1	32	1.44
31029518--31029757	98	2.5	98	88	6	355	53	13	0	31	1.46
31029591--31029731	27	5.6	27	79	17	169	53	14	0	31	1.46
31029712--31029895	19	9.2	19	72	17	124	54	11	0	32	1.41
31029518--31029900	49	8.0	47	74	14	240	54	13	0	31	1.45
31029729--31029900	41	4.3	38	68	20	111	55	11	0	32	1.40
31030673--31030703	16	1.9	16	93	0	53	29	6	0	64	1.18
31031462--31031547	44	2.0	44	93	2	147	26	16	16	40	1.89
31033818--31033858	20	2.0	20	95	0	73	17	9	36	36	1.82
31043327--31043707	186	2.0	186	97	0	717	21	23	14	39	1.91
31047145--31047200	26	2.0	28	86	10	80	33	16	12	37	1.86
31052586--31052637	26	2.0	26	100	0	104	23	11	0	65	1.25
31061067--31061139	30	2.4	31	81	9	87	42	5	10	41	1.63
31065392--31065418	13	2.1	13	100	0	54	62	7	22	7	1.46
31067255--31067301	23	2.0	23	100	0	94	27	25	8	38	1.85
31072272--31072338	24	2.8	25	73	22	72	43	1	0	55	1.09
31072307--31072337	11	2.8	11	90	0	53	45	0	0	54	0.99
31073079--31073144	22	3.0	22	93	0	105	30	16	27	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31073554--31073580	5	5.4	5	100	0	54	77	0	22	0	0.76
31077923--31077962	13	3.5	12	80	19	50	50	0	0	50	1.00
31080445--31080485	2	20.5	2	100	0	82	48	0	0	51	1.00
31081960--31081995	2	18.0	2	100	0	72	50	0	0	50	1.00
31085015--31085055	21	1.9	22	90	5	66	34	0	19	46	1.50
31090860--31090937	25	3.2	25	83	5	81	19	26	16	37	1.93
31093489--31093523	18	1.9	18	88	11	54	37	5	0	57	1.23
31093871--31093929	31	2.0	29	83	6	73	71	5	3	20	1.20
31098627--31098673	21	2.3	21	85	7	62	25	8	4	61	1.43
31102844--31102888	23	1.9	24	86	13	67	55	2	22	20	1.54
31106765--31106823	29	2.0	30	93	3	102	52	3	5	38	1.40
31106779--31106845	29	2.2	29	84	5	80	46	5	8	38	1.60
31112503--31112535	16	2.0	17	88	5	50	15	0	33	51	1.43
31113655--31113692	21	2.0	20	85	15	53	36	0	7	55	1.29
31125923--31125980	25	2.3	25	85	5	73	22	18	13	44	1.85
31126365--31126451	31	2.8	32	91	1	131	27	11	17	43	1.83
31128661--31128706	18	2.6	18	96	0	83	43	15	13	28	1.83
31128661--31128706	9	5.1	9	86	0	65	43	15	13	28	1.83
31135939--31135997	30	2.1	28	87	9	84	28	18	16	35	1.93
31141228--31141258	2	15.5	2	93	0	53	48	0	0	51	1.00
31143447--31143485	19	2.1	19	85	0	51	53	2	0	43	1.14
31143929--31143999	21	3.3	21	76	7	72	63	1	0	35	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31144141--31144195	3	18.3	3	100	0	110	67	0	0	32	0.91
31144863--31144893	3	10.3	3	100	0	62	64	0	0	35	0.94
31144892--31144946	3	18.3	3	100	0	110	34	0	0	65	0.93
31151240--31151270	16	1.9	16	93	0	53	48	3	0	48	1.17
31154314--31154371	29	2.0	29	100	0	116	44	10	6	37	1.65
31160333--31160365	17	1.9	17	100	0	66	6	18	18	57	1.60
31162636--31162660	4	6.2	4	100	0	50	24	0	0	76	0.80
31163456--31163494	18	2.2	17	86	9	51	71	2	0	25	0.98
31164608--31164661	2	27.0	2	100	0	108	50	0	0	50	1.00
31166393--31166420	5	5.6	5	100	0	56	42	39	0	17	1.50
31171545--31171656	32	3.5	32	92	2	172	27	25	33	14	1.94
31171643--31171687	18	2.6	18	85	3	65	20	31	33	15	1.93
31175230--31175334	42	2.5	42	83	6	124	43	17	21	17	1.87
31175215--31175379	21	7.9	21	71	2	102	44	16	19	19	1.86
31182814--31182848	18	1.9	18	94	0	61	5	8	0	85	0.73
31182815--31182854	18	2.2	18	86	0	53	5	10	2	82	0.91
31183758--31183799	2	21.0	2	100	0	84	50	0	0	50	1.00
31186862--31186982	60	2.0	60	96	0	224	27	10	22	39	1.87
31187272--31187346	22	3.5	22	79	1	71	60	17	10	12	1.59
31191272--31191333	22	2.8	22	87	0	88	33	22	27	16	1.95
31191329--31191374	20	2.2	22	84	7	60	34	17	28	19	1.94
31196120--31196193	31	2.5	29	82	4	85	27	13	14	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31215591--31215640	18	2.7	19	79	11	59	72	0	6	22	1.07
31215998--31216055	22	2.6	22	83	2	62	18	27	3	50	1.63
31217758--31217829	30	2.4	30	80	0	81	31	41	15	11	1.82
31217906--31217948	18	2.4	18	88	0	59	18	27	9	44	1.80
31221593--31221872	126	2.2	126	93	1	481	27	21	18	32	1.97
31222961--31223089	56	2.3	56	78	9	136	50	4	0	44	1.28
31226216--31226243	14	2.0	14	100	0	56	64	0	28	7	1.20
31226219--31226263	19	2.5	18	82	17	58	66	0	26	6	1.16
31226830--31226894	29	2.2	30	78	13	73	27	16	15	40	1.89
31228112--31228146	17	2.1	16	89	5	52	2	0	8	88	0.61
31228121--31228146	13	2.0	13	100	0	52	0	0	7	92	0.39
31228142--31228174	16	2.1	16	88	5	50	18	15	3	63	1.43
31228202--31228266	22	2.9	23	77	11	64	36	0	3	60	1.13
31228202--31228279	23	3.5	22	79	10	61	39	0	2	57	1.12
31228253--31228344	33	2.8	33	83	8	98	53	1	0	45	1.07
31228366--31228413	25	1.9	25	84	16	64	33	2	4	60	1.27
31228415--31228458	23	1.9	23	85	0	61	54	4	0	40	1.21
31228415--31228466	23	2.3	23	82	0	59	51	5	0	42	1.25
31228546--31228573	7	4.0	7	100	0	56	57	0	0	42	0.99
31238897--31238938	14	2.9	14	85	7	57	78	9	0	11	0.96
31238924--31238962	11	3.2	12	86	10	53	74	5	2	17	1.12
31238899--31238962	4	16.8	4	78	15	55	76	6	1	15	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31238897--31238954	15	3.8	16	86	11	77	75	8	1	13	1.10
31238914--31238993	39	2.1	39	81	9	92	72	6	6	15	1.25
31238981--31239034	24	2.2	24	81	12	67	74	5	12	7	1.21
31239013--31239050	16	2.4	16	90	0	58	78	7	10	2	1.04
31239746--31239780	8	4.2	8	85	7	52	48	0	0	51	1.00
31239747--31239866	17	6.4	18	67	24	70	45	4	1	49	1.31
31240005--31240079	9	8.6	9	66	16	50	42	2	0	54	1.14
31239995--31240104	19	5.5	19	71	21	73	37	2	0	59	1.18
31247116--31247181	29	2.2	30	83	5	80	56	10	12	21	1.65
31247853--31247880	13	2.2	13	100	0	56	60	0	0	39	0.97
31253003--31253041	21	1.9	20	84	5	51	64	23	10	2	1.37
31258620--31258648	14	2.1	14	100	0	58	20	27	6	44	1.77
31268053--31268081	13	2.3	13	94	5	51	72	0	0	27	0.85
31268078--31268108	9	3.4	9	95	0	53	70	3	0	25	1.02
31269744--31269775	5	6.2	5	96	3	55	0	56	43	0	0.99
31269787--31269927	37	3.9	37	88	8	197	34	2	0	63	1.07
31269823--31269879	8	6.5	8	74	18	51	29	1	0	68	1.00
31271138--31271182	23	1.9	24	90	4	74	35	0	0	64	0.94
31272212--31272236	4	6.2	4	100	0	50	24	0	0	76	0.80
31277942--31278594	108	6.0	108	93	0	1072	37	26	5	29	1.80
31279566--31280112	206	2.6	214	77	11	534	27	12	18	42	1.86
31282318--31282378	2	30.5	2	100	0	122	50	49	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31288686--31288754	28	2.4	29	83	9	90	26	23	13	37	1.91
31293584--31293674	46	2.0	46	86	0	128	31	24	7	36	1.84
31304616--31304675	31	1.9	31	86	6	86	43	5	11	40	1.63
31315056--31315087	15	2.1	15	94	0	55	43	25	0	31	1.55
31315559--31315702	71	2.0	71	97	0	270	38	11	13	36	1.81
31317734--31317771	16	2.2	18	86	9	53	28	0	2	68	1.03
31319655--31319688	2	17.0	2	100	0	68	50	0	0	50	1.00
31319960--31320193	36	6.4	36	70	9	159	22	20	22	34	1.97
31323617--31323729	36	3.2	36	70	2	111	27	18	20	33	1.96
31323572--31323746	36	4.9	35	65	9	95	25	22	21	31	1.98

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