genome.fa.s12.2.7.7.80.10.50.1000.98.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  98  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)
29015182--29015215	16	2.1	16	94	0	59	32	0	14	52	1.42
29015253--29015450	9	22.7	9	65	16	60	38	3	14	43	1.61
29015295--29015373	34	2.3	34	80	0	86	41	1	13	43	1.53
29015373--29015525	34	4.7	34	80	9	183	37	3	10	48	1.54
29015373--29015770	56	6.7	56	78	16	349	38	3	10	47	1.54
29015373--29015897	96	5.7	96	75	17	413	38	3	10	46	1.56
29015373--29015897	152	3.5	152	93	3	839	38	3	10	46	1.56
29015524--29015677	34	4.7	34	80	9	194	38	2	10	48	1.51
29015468--29015903	208	2.1	208	88	5	641	39	3	10	46	1.56
29015787--29015903	56	2.1	56	98	0	225	40	2	10	47	1.51
29017819--29017892	33	2.2	33	92	2	121	36	28	2	32	1.71
29018108--29018146	16	2.6	15	84	11	53	35	5	35	23	1.77
29018122--29018178	23	2.4	22	80	13	60	36	1	42	19	1.62
29018141--29018194	23	2.3	23	84	6	65	38	1	38	20	1.63
29019785--29019851	26	2.5	27	78	2	64	52	1	1	44	1.19
29020190--29020593	41	9.8	41	83	2	407	33	25	24	16	1.96
29020693--29020768	40	1.9	39	86	2	107	15	25	22	36	1.93
29028288--29028322	14	2.5	14	90	9	54	57	5	0	37	1.23
29028494--29028535	20	2.1	20	86	8	59	59	9	2	28	1.41
29029265--29029699	125	3.5	124	87	0	600	32	17	19	29	1.95
29030151--29030191	18	2.3	18	95	0	73	46	7	29	17	1.74
29030840--29030865	7	3.7	7	100	0	52	57	15	0	26	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29031333--29031377	23	2.0	23	100	0	90	37	44	4	13	1.64
29031590--29031629	17	2.4	18	84	16	59	22	5	0	72	1.04
29031626--29031690	5	13.2	5	85	9	80	60	4	0	35	1.18
29032611--29032708	51	1.9	51	87	4	144	46	3	24	25	1.67
29032672--29032734	22	2.8	22	80	20	69	44	3	30	22	1.68
29033245--29033316	5	14.4	5	73	21	53	4	36	0	59	1.17
29033219--29033321	43	2.4	42	77	16	120	4	33	0	61	1.17
29035140--29035219	21	3.8	21	77	12	92	22	8	10	58	1.57
29035145--29035346	42	4.7	42	81	7	194	21	11	10	55	1.65
29035155--29035320	45	3.8	44	85	3	212	22	10	10	56	1.63
29039410--29039476	18	3.7	18	70	4	53	38	4	0	56	1.19
29039417--29039492	13	6.1	13	73	11	54	42	3	0	53	1.19
29039444--29039492	26	1.9	25	84	12	64	46	0	0	53	1.00
29039457--29039515	14	4.5	13	74	19	52	50	1	0	47	1.11
29039633--29039679	21	2.3	20	80	20	53	72	0	10	17	1.12
29041821--29041895	31	2.4	30	73	6	78	24	26	26	22	2.00
29042204--29042254	26	1.9	27	92	4	86	41	41	3	13	1.63
29043683--29043709	14	1.9	14	100	0	54	33	7	0	59	1.25
29043877--29043910	18	1.9	17	88	5	50	17	5	14	61	1.52
29045033--29045064	15	2.1	15	100	0	64	18	0	6	75	1.01
29049451--29049486	16	2.2	16	90	0	54	41	2	0	55	1.14
29051659--29051711	9	5.7	9	76	8	52	71	0	3	24	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29055352--29055399	25	1.9	25	86	0	69	31	18	22	27	1.97
29061169--29061209	19	2.0	21	86	9	59	60	2	12	24	1.43
29067269--29067462	104	1.9	104	85	4	275	26	19	29	24	1.98
29071777--29071807	13	2.4	13	94	0	53	32	0	12	54	1.38
29071902--29072143	50	4.7	50	86	3	286	27	23	28	19	1.99
29071902--29072151	100	2.4	103	87	5	353	26	23	28	20	1.99
29086572--29086609	10	3.6	11	79	13	53	71	2	0	26	1.00
29088855--29088896	20	2.1	20	86	0	57	52	0	2	45	1.13
29100866--29101038	71	2.4	71	80	3	188	23	15	25	35	1.94
29101026--29101077	19	2.7	19	96	0	95	25	25	28	21	1.99
29101795--29101924	19	6.7	19	66	5	64	16	18	27	36	1.93
29101797--29101924	58	2.2	58	84	0	157	17	18	27	36	1.93
29106626--29106661	16	2.2	17	95	5	65	47	0	8	44	1.33
29113704--29113778	29	2.5	29	82	4	87	48	16	12	24	1.79
29116405--29116444	18	2.2	18	90	0	62	22	10	7	60	1.54
29119278--29119353	37	2.1	37	97	0	143	11	25	5	57	1.54
29119339--29119376	3	12.7	3	100	0	76	0	31	0	68	0.90
29119405--29119472	3	22.3	3	84	3	91	30	2	2	63	1.24
29125908--29126192	88	3.2	88	93	0	489	26	28	25	19	1.99
29125942--29126169	44	5.2	43	65	4	150	25	29	27	17	1.98
29126054--29126324	132	2.1	132	93	0	461	25	26	26	21	2.00
29125966--29126417	220	2.1	220	91	0	735	25	26	25	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29125908--29126500	308	1.9	308	91	0	963	27	26	24	21	1.99
29126186--29126717	264	2.0	264	90	0	832	27	26	25	21	1.99
29126186--29126724	88	6.1	88	86	1	740	26	26	24	21	2.00
29126751--29126891	43	3.3	43	72	5	158	26	27	21	24	1.99
29126713--29126911	87	2.4	80	84	12	283	25	25	25	24	2.00
29126883--29126969	44	2.0	44	95	0	156	25	17	27	29	1.97
29126743--29126914	87	2.0	87	94	2	301	27	24	23	24	2.00
29127109--29127210	45	2.3	46	81	13	124	30	18	25	25	1.98
29126955--29127391	217	2.0	219	86	3	605	31	20	21	27	1.98
29126967--29127344	44	8.7	44	70	11	201	30	20	21	27	1.98
29128910--29128971	3	20.3	3	86	3	88	30	3	1	64	1.19
29129364--29129459	8	11.6	8	72	23	58	23	8	4	63	1.40
29129389--29129487	23	4.5	22	69	23	64	21	11	7	60	1.53
29129364--29129493	66	2.0	66	98	0	251	22	10	6	61	1.49
29140112--29140153	20	2.2	19	83	12	50	35	2	0	61	1.09
29140453--29140520	28	2.5	27	78	19	79	60	1	0	38	1.06
29152312--29152337	13	2.0	13	100	0	52	61	7	7	23	1.49
29152312--29152345	12	2.8	12	90	4	50	55	8	8	26	1.59
29152494--29152543	23	2.2	22	82	3	55	50	2	8	40	1.43
29152819--29152868	6	8.3	6	90	0	73	46	2	0	52	1.12
29152819--29152868	4	12.5	4	86	0	73	46	2	0	52	1.12
29152819--29152868	10	5.0	10	92	0	73	46	2	0	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29152987--29153051	3	21.7	3	72	12	53	63	1	3	32	1.19
29152986--29153045	10	5.8	10	74	18	52	63	1	3	31	1.20
29152999--29153051	13	4.2	12	81	11	61	64	0	3	32	1.12
29153004--29153051	16	3.2	15	80	13	55	64	0	4	31	1.12
29152986--29153045	31	1.9	31	83	6	77	63	1	3	31	1.20
29155089--29155118	11	2.7	11	100	0	60	63	0	0	36	0.95
29155743--29155767	13	1.9	13	100	0	50	56	0	0	44	0.99
29161788--29161939	43	3.5	43	82	1	180	27	15	26	30	1.96
29161756--29161939	86	2.1	86	82	2	217	26	15	27	30	1.96
29162974--29163025	20	2.6	20	90	0	86	15	15	28	40	1.88
29164990--29165055	22	3.1	22	82	4	73	36	7	21	34	1.82
29169999--29170029	3	10.7	3	93	6	55	64	0	35	0	0.94
29170035--29170140	48	2.2	46	75	14	108	62	0	33	2	1.16
29172089--29172175	33	2.6	34	73	10	90	19	39	14	26	1.91
29172500--29172531	8	4.0	8	100	0	64	50	25	0	25	1.50
29172518--29172610	48	1.9	48	97	0	177	48	12	7	31	1.69
29176455--29176489	14	2.7	13	87	12	54	0	22	2	74	0.95
29176827--29176893	17	3.8	17	77	15	64	29	0	2	67	1.06
29189288--29189346	29	2.0	29	93	0	100	57	8	3	30	1.45
29192321--29192377	11	5.0	11	73	4	51	54	1	0	43	1.10
29192321--29192378	22	2.5	22	83	5	71	53	1	0	44	1.10
29192321--29192378	12	5.0	12	75	14	50	53	1	0	44	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29198787--29198842	21	2.7	20	78	10	58	26	5	7	60	1.44
29198873--29198897	2	12.5	2	100	0	50	48	0	0	52	1.00
29198881--29198970	25	3.6	26	73	11	98	40	6	3	50	1.45
29202172--29202318	35	4.2	35	91	0	231	18	11	29	40	1.86
29205870--29205943	9	8.3	9	72	14	64	63	1	1	33	1.11
29205879--29205942	16	3.8	17	83	10	78	62	1	1	34	1.14
29206487--29206520	16	2.1	16	88	0	50	73	2	2	20	1.09
29206486--29206559	28	2.6	29	72	6	71	64	6	4	24	1.35
29206546--29206651	10	10.6	10	72	13	76	61	3	1	33	1.25
29206527--29206631	30	3.4	31	88	9	144	62	4	0	31	1.22

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