genome.fa.s12.2.7.7.80.10.50.1000.97.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  97  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)
28696627--28696702	23	3.3	23	83	0	107	22	19	26	31	1.98
28700416--28700507	44	2.1	44	97	0	175	51	2	13	33	1.53
28705095--28705565	44	10.9	44	69	8	232	30	20	22	27	1.98
28705055--28705418	172	2.1	172	88	1	523	28	19	22	28	1.98
28705397--28705583	89	2.1	88	83	3	223	30	19	20	28	1.97
28719327--28719395	32	2.2	31	84	7	86	17	11	15	55	1.70
28721806--28721990	46	4.0	46	92	1	291	30	25	8	35	1.85
28723215--28723261	17	2.8	17	90	3	69	55	17	0	27	1.42
28726910--28726949	19	2.1	19	90	0	62	57	7	15	20	1.61
28727536--28727573	5	7.6	5	85	8	51	36	0	5	57	1.21
28737967--28737994	2	14.0	2	100	0	56	50	0	0	50	1.00
28743937--28743972	18	2.0	18	88	0	54	77	5	0	16	0.94
28757718--28757770	13	4.1	13	78	9	63	30	5	26	37	1.79
28775221--28775246	6	4.3	6	100	0	52	69	15	15	0	1.20
28775261--28775299	2	19.5	2	100	0	78	48	0	0	51	1.00
28779236--28779295	3	19.7	3	86	10	86	33	3	0	63	1.11
28779454--28779511	28	2.1	28	87	6	82	44	8	0	46	1.34
28779572--28779611	18	2.2	18	86	0	53	40	0	0	60	0.97
28784971--28785018	2	24.0	2	100	0	96	50	0	0	50	1.00
28785382--28785435	19	2.9	18	78	10	56	50	7	0	42	1.30
28785382--28785420	18	2.1	19	85	4	53	53	5	0	41	1.23
28785437--28785474	20	1.9	20	88	0	58	63	2	0	34	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28785606--28785636	16	1.9	16	93	0	53	38	6	6	48	1.55
28799958--28800111	41	3.8	41	96	0	290	25	27	21	25	1.99
28802111--28802135	13	1.9	13	100	0	50	68	24	0	8	1.16
28819523--28819585	27	2.3	27	91	0	108	23	30	23	22	1.99
28820274--28820335	30	2.1	30	100	0	124	33	12	3	50	1.57
28821360--28821422	27	2.3	27	94	0	108	20	28	30	20	1.98
28821811--28821885	39	1.9	39	86	0	105	40	8	5	46	1.56
28828309--28828335	4	6.8	4	100	0	54	74	0	0	25	0.83
28831181--28831223	12	3.2	14	78	21	56	18	11	2	67	1.32
28831165--28831223	25	2.4	24	86	10	84	18	8	1	71	1.20
28831360--28831431	29	2.4	30	79	6	76	40	8	19	31	1.81
28835855--28835934	41	2.0	41	94	0	142	33	22	17	26	1.96
28837354--28837399	25	1.9	23	83	16	58	39	13	0	47	1.42
28843610--28843638	3	9.7	3	100	0	58	68	0	0	31	0.89
28850251--28850276	13	2.0	13	100	0	52	30	7	15	46	1.74
28850307--28850349	19	2.3	19	84	8	52	25	20	11	41	1.86
28853158--28853200	7	6.0	7	81	13	52	65	2	18	13	1.38
28853162--28853208	13	3.5	13	78	16	51	63	2	19	14	1.40
28854493--28855653	89	13.0	89	91	1	1779	31	17	23	26	1.97
28859426--28859450	7	3.6	7	100	0	50	88	0	12	0	0.53
28863160--28863186	5	5.4	5	100	0	54	18	0	62	18	1.32
28863968--28864009	22	1.9	22	95	0	75	57	4	0	38	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28865246--28865607	177	2.0	177	98	0	715	31	19	17	31	1.95
28871628--28871680	16	3.5	15	84	7	63	73	0	0	26	0.83
28871633--28871680	15	3.3	15	78	16	57	75	0	0	25	0.81
28881243--28881316	37	2.0	37	94	0	130	21	36	12	29	1.90
28888119--28888181	32	2.0	32	90	0	99	36	0	14	49	1.44
28893408--28893477	27	2.6	27	86	0	95	11	37	21	30	1.89
28894462--28894505	22	2.0	22	86	8	63	25	0	13	61	1.32
28895816--28896048	117	2.0	117	95	1	423	27	18	14	39	1.89
28896626--28896859	72	3.2	72	74	5	222	33	6	13	46	1.69
28896616--28896836	71	3.1	72	76	4	239	34	5	13	46	1.66
28896865--28896919	28	2.0	28	92	0	92	20	20	12	47	1.82
28897013--28897052	19	2.3	17	87	12	55	72	5	12	10	1.26
28897813--28897839	13	2.1	13	100	0	54	51	0	11	37	1.37
28897907--28898047	18	7.5	17	67	19	75	48	15	0	34	1.50
28897887--28898056	36	4.6	36	85	11	227	48	16	0	34	1.51
28897899--28898055	79	2.0	79	97	0	296	47	16	0	35	1.52
28904137--28904242	43	2.5	43	82	3	124	22	17	29	30	1.97
28905347--28905426	25	3.2	25	61	22	58	50	21	12	16	1.78
28905345--28905441	51	1.9	51	100	0	194	48	22	12	16	1.79
28906914--28907110	98	2.0	98	96	0	367	26	9	25	38	1.86
28908963--28909005	22	2.0	21	86	4	59	79	0	2	18	0.85
28921928--28921962	2	18.0	2	94	5	63	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28928422--28928465	16	2.8	16	89	0	61	36	2	34	27	1.70
28928685--28928726	15	2.7	16	82	14	52	52	2	0	45	1.13
28928694--28928735	15	2.9	15	82	10	52	52	0	0	47	1.00
28928804--28928855	15	3.6	15	80	12	56	53	1	0	44	1.11
28928688--28928988	59	5.0	59	70	15	267	50	5	1	42	1.36
28928924--28928975	15	3.6	15	80	12	56	53	1	0	44	1.11
28928688--28929159	120	3.9	120	96	1	831	49	6	2	42	1.40
28930715--28930741	11	2.5	11	100	0	54	51	18	7	22	1.70
28932315--28932345	15	2.1	15	100	0	62	45	12	6	35	1.68
28937842--28937882	13	3.1	13	82	6	55	0	19	7	73	1.07
28937847--28937889	14	3.2	14	83	9	54	0	16	9	74	1.06
28937846--28937889	12	3.4	13	84	6	54	0	15	11	72	1.11
28938623--28938677	26	2.1	25	78	15	58	30	1	5	61	1.29
28938644--28938686	15	2.8	16	79	10	54	34	0	2	62	1.08
28940855--28940881	4	6.8	4	100	0	54	25	0	0	74	0.83
28944455--28944505	20	2.4	22	83	6	61	64	7	0	27	1.21
28945608--28945650	20	2.2	20	87	4	61	55	0	2	41	1.12
28947820--28947872	27	2.0	27	85	7	72	47	0	3	49	1.19
28950092--28950116	2	12.5	2	100	0	50	0	0	48	52	1.00
28962000--28962032	2	16.5	2	100	0	66	51	0	48	0	1.00
28964360--28964391	3	10.7	3	93	0	55	0	37	0	62	0.95
28966570--28966612	15	2.6	17	82	7	54	58	2	0	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28967226--28967264	17	2.2	19	86	9	55	38	0	0	61	0.96
28967226--28967279	28	2.0	27	85	10	74	40	1	0	57	1.09
28974727--28974775	13	3.4	14	83	10	55	20	0	2	77	0.87
28974727--28974777	12	4.2	12	76	20	52	19	0	1	78	0.85
28974727--28974763	15	2.5	15	91	8	58	21	0	0	78	0.75
28974728--28974777	21	2.3	21	86	10	66	20	0	2	78	0.86
28974966--28975266	50	6.0	50	70	8	164	23	23	23	29	1.99
28974983--28975279	100	3.0	100	80	5	350	23	22	23	29	1.99
28975398--28975484	44	2.0	44	86	0	120	27	25	17	29	1.97
28975500--28975754	44	5.6	45	68	16	157	28	21	18	31	1.97
28975544--28975725	98	1.9	97	80	6	215	28	19	19	32	1.96
28975341--28975753	142	2.9	142	94	0	709	27	21	18	32	1.97
28977035--28977065	7	4.6	7	96	4	55	12	12	0	74	1.08
28986109--28986143	18	1.9	18	94	0	61	45	2	8	42	1.49
28986374--28986490	40	2.9	41	86	3	150	36	18	22	22	1.95
28986374--28986510	40	3.5	39	82	5	141	39	20	21	18	1.93
28986542--28986658	41	2.9	41	82	10	157	22	23	28	26	1.99
28987313--28987761	148	3.1	148	93	4	766	36	16	16	30	1.91
28990738--28990878	42	3.3	42	83	12	180	21	15	29	33	1.95
28990826--28991009	43	4.3	43	86	3	246	20	18	29	32	1.96
28991101--28991143	22	2.0	22	85	0	59	44	25	18	11	1.84
28994352--28994422	37	1.9	37	97	0	133	47	18	5	28	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28994361--28994421	17	3.4	17	65	12	50	50	18	3	27	1.62
28994352--28994443	37	2.5	37	87	7	116	46	17	5	30	1.70
28994537--28994584	24	2.0	23	84	4	60	29	0	2	68	1.01
28996371--28996410	2	20.0	2	100	0	80	50	50	0	0	1.00
29002500--29002532	2	16.5	2	100	0	66	48	0	0	51	1.00
29008875--29009037	43	3.7	43	78	15	190	29	29	19	21	1.98
29008875--29009038	89	1.8	89	88	7	253	29	29	19	21	1.98
29009442--29009543	21	4.9	21	79	0	105	4	43	15	36	1.69
29009525--29009671	66	2.2	66	85	4	190	14	28	17	39	1.89
29009564--29009694	66	2.0	66	86	3	183	15	25	19	40	1.90

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