genome.fa.s12.2.7.7.80.10.50.1000.44.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  44  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)
11791478--11791669	56	3.4	56	76	4	199	30	18	19	31	1.96
11794763--11794864	28	3.7	28	89	1	152	31	25	12	30	1.93
11797095--11797162	26	2.7	26	88	2	93	63	13	2	20	1.42
11810357--11810735	93	4.1	90	77	9	291	29	15	17	37	1.91
11813823--11813853	13	2.4	13	94	0	53	0	25	0	74	0.82
11813834--11813891	30	2.0	28	86	6	80	17	13	3	65	1.40
11815232--11815257	2	13.0	2	100	0	52	50	0	50	0	1.00
11816160--11816226	2	33.5	2	100	0	134	0	49	0	50	1.00
11823686--11823734	20	2.3	22	75	17	57	42	26	14	16	1.86
11823694--11823734	20	2.0	20	90	0	64	41	26	17	14	1.88
11827736--11827774	19	2.1	19	100	0	78	38	10	5	46	1.60
11828748--11828803	6	9.3	6	86	0	76	16	33	3	46	1.64
11830903--11830936	17	2.0	17	94	0	59	47	0	26	26	1.53
11836066--11836154	26	3.3	26	78	13	76	34	4	0	60	1.17
11836079--11836157	26	2.9	27	78	16	81	36	3	0	59	1.16
11836096--11836154	26	2.2	27	88	8	86	37	1	0	61	1.07
11836109--11836151	19	2.1	21	83	8	54	37	2	0	60	1.10
11850662--11850752	45	2.0	45	95	0	164	31	21	23	23	1.98
11857976--11858008	12	2.8	12	86	13	50	45	0	0	54	0.99
11872544--11872577	16	2.1	16	94	0	59	20	29	5	44	1.75
11874923--11874992	30	2.4	28	83	7	77	41	11	5	41	1.65
11879970--11879997	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11880570--11880602	16	1.9	18	88	11	52	72	9	6	12	1.26
11881457--11881503	19	2.5	19	82	0	58	63	0	0	36	0.94
11899447--11899479	14	2.4	14	90	10	50	60	0	0	39	0.97
11899553--11899582	4	7.5	4	100	0	60	50	0	0	50	1.00
11901878--11901914	19	1.9	19	100	0	74	32	2	0	64	1.07
11901878--11901922	19	2.4	19	92	0	72	33	2	0	64	1.06
11901879--11901929	19	2.6	19	87	3	57	31	1	3	62	1.24
11912470--11912494	5	5.0	5	100	0	50	60	0	0	40	0.97
11914512--11914595	22	3.8	22	87	0	105	28	26	15	29	1.96
11914712--11914741	16	1.9	15	93	6	51	46	16	10	26	1.78
11927372--11927499	45	2.8	45	84	5	168	38	21	13	27	1.90
11928273--11928374	43	2.4	43	90	3	152	39	21	12	26	1.89
11932149--11932178	12	2.5	12	94	0	51	30	33	16	20	1.94
11946045--11946110	21	3.1	21	91	4	98	24	21	37	16	1.93
11950886--11950989	32	3.3	32	70	14	90	44	21	14	20	1.86
11954235--11954284	23	2.2	23	82	7	57	50	4	12	34	1.58
11956561--11956593	15	2.1	16	88	5	50	39	0	15	45	1.46
11958383--11958411	2	14.5	2	100	0	58	0	48	0	51	1.00
11965410--11965467	28	2.1	28	100	0	116	37	17	13	31	1.89
11970241--11970293	5	10.6	5	84	15	58	79	3	16	0	0.88
11970316--11970350	12	3.0	11	91	8	52	77	0	22	0	0.78
11994904--11994934	16	1.9	16	93	0	53	16	35	0	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11995700--11995785	45	1.9	45	90	4	138	52	22	4	20	1.65
11995754--11995812	28	2.0	28	83	9	73	50	23	3	22	1.63
11996275--11996305	15	2.1	15	93	0	53	35	3	45	16	1.63
11998578--11998621	20	2.2	21	88	8	65	52	6	11	29	1.63
12000842--12000882	21	2.0	21	85	0	55	43	14	0	41	1.45
12000953--12001013	30	2.0	30	100	0	122	22	24	9	42	1.84
12001721--12001808	29	3.1	30	76	18	80	55	15	4	23	1.59
12001798--12002049	4	62.8	4	76	15	195	51	19	2	25	1.59
12002121--12002230	24	4.5	24	74	17	84	54	21	5	18	1.63
12002325--12002370	19	2.4	18	82	13	56	65	13	4	17	1.42
12003849--12003924	35	2.2	35	78	4	82	40	11	1	46	1.49
12004365--12004569	70	2.9	70	90	0	320	30	16	19	33	1.94
12010841--12010877	17	2.2	17	90	0	56	37	10	2	48	1.52
12012884--12012958	39	1.9	39	88	0	114	36	20	13	30	1.91
12013407--12013444	19	2.0	19	100	0	76	26	0	36	36	1.57
12015308--12015349	2	21.0	2	100	0	84	50	0	0	50	1.00
12018312--12018399	9	9.8	9	92	0	140	22	9	29	38	1.85
12018560--12018584	12	2.1	12	100	0	50	16	24	36	24	1.94
12020551--12020589	12	2.9	14	81	18	55	23	0	10	66	1.22
12020560--12020589	12	2.5	12	100	0	60	20	0	6	73	1.05
12020485--12020660	97	1.8	96	88	2	271	29	0	5	64	1.16
12020785--12020841	25	2.3	25	81	6	62	63	1	5	29	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12020828--12020862	10	3.6	10	84	7	54	62	2	0	34	1.10
12021593--12021680	18	4.9	17	71	8	68	61	3	0	35	1.13
12021625--12021680	18	3.2	18	79	5	69	60	1	0	37	1.07
12030319--12030355	2	18.5	2	100	0	74	51	0	0	48	1.00
12030692--12030723	17	1.9	17	93	6	57	40	0	3	56	1.15
12031142--12031172	15	2.1	15	100	0	62	32	6	22	38	1.80
12033113--12033195	30	2.7	30	83	10	98	36	9	13	40	1.77
12042266--12042290	9	2.8	9	100	0	50	32	0	36	32	1.58
12042424--12042517	19	5.2	18	72	11	68	53	3	2	41	1.29
12042415--12042517	36	2.9	35	73	16	95	53	2	1	41	1.27
12044100--12044131	15	2.1	15	94	0	55	68	9	6	15	1.36
12049468--12049506	16	2.5	15	83	4	51	43	0	12	43	1.42
12049813--12049874	25	2.5	25	81	0	79	20	27	19	32	1.97
12051613--12051675	20	2.8	22	79	18	60	38	0	3	58	1.14
12063937--12064027	44	2.0	45	85	2	121	30	19	25	24	1.98
12063964--12064562	175	3.4	175	93	0	1002	32	18	20	28	1.96
12064183--12064777	219	2.7	216	85	6	583	32	17	20	29	1.96
12064139--12064905	394	1.9	394	92	0	1291	32	17	20	29	1.96
12064533--12064905	175	2.1	175	95	0	674	32	17	20	30	1.95
12064321--12064781	219	2.1	219	95	0	823	32	17	21	28	1.96
12064838--12064936	46	2.2	46	84	0	135	30	21	20	28	1.98
12066875--12066937	20	2.8	22	79	18	60	38	0	3	58	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12073116--12073163	21	2.3	21	88	0	69	52	6	31	10	1.60
12073727--12073751	11	2.3	11	100	0	50	40	8	0	52	1.31
12073710--12073868	50	3.7	40	77	19	142	35	3	0	61	1.14
12073766--12073815	10	4.5	11	72	18	50	36	2	0	62	1.07
12073727--12073842	50	2.3	51	90	4	198	37	3	0	59	1.14
12073757--12073811	21	2.7	19	76	17	58	32	1	0	65	1.03
12073766--12073836	11	6.9	11	71	20	55	39	1	0	59	1.06
12078328--12078443	23	5.0	23	76	2	81	40	21	12	25	1.89
12081796--12081834	2	19.5	2	100	0	78	51	0	0	48	1.00
12081922--12081956	2	17.5	2	100	0	70	51	0	0	48	1.00
12081800--12082044	122	2.0	122	99	0	481	37	7	10	44	1.67
12090165--12090202	10	3.9	10	80	19	53	18	7	10	63	1.50
12090158--12090200	19	2.3	19	100	0	86	16	9	11	62	1.53
12099139--12099214	36	2.1	36	80	11	84	51	1	9	38	1.42
12099809--12099866	22	2.6	22	81	7	64	41	17	5	36	1.72
12099845--12099899	21	2.7	21	94	5	96	36	14	10	38	1.81
12100957--12101058	44	2.3	44	84	0	132	24	24	20	30	1.99
12101175--12102331	45	25.7	44	84	1	1231	30	21	15	32	1.95
12101170--12102331	135	8.6	135	86	0	1457	30	21	15	32	1.95
12103579--12103611	9	3.7	9	100	0	66	9	0	9	81	0.87
12108624--12108657	16	2.1	16	88	0	50	41	23	17	17	1.90
12110291--12110334	23	2.0	22	90	4	70	56	2	6	34	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12110342--12110409	12	5.7	12	70	11	50	51	2	2	42	1.32
12111062--12111121	21	3.0	21	75	25	67	33	16	10	40	1.82
12111070--12111123	21	2.8	20	91	8	85	35	14	11	38	1.82
12112249--12112296	23	2.1	23	84	0	60	41	35	4	18	1.70
12118478--12118508	16	1.9	16	100	0	62	29	6	0	64	1.18
12119878--12119918	6	6.5	6	88	5	55	4	19	0	75	0.98
12120604--12120654	23	2.2	24	82	3	59	41	9	1	47	1.48
12132624--12132783	44	3.6	44	70	8	128	32	23	18	25	1.97
12134914--12134948	14	2.5	15	90	9	56	0	14	0	85	0.59
12139832--12139912	42	1.9	42	94	0	144	9	32	16	41	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