genome.fa.s12.2.7.7.80.10.50.1000.23.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  23  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)
6188864--6188906	20	2.1	21	86	4	61	53	23	0	23	1.46
6189078--6189171	20	4.4	20	72	16	73	54	25	3	17	1.57
6188470--6189776	684	1.9	666	91	5	2104	51	23	1	23	1.55
6189003--6189239	20	11.6	20	67	22	64	51	24	1	22	1.58
6189639--6189715	20	3.8	20	79	16	88	53	25	0	20	1.46
6189639--6189695	13	4.1	14	73	24	50	56	26	0	17	1.41
6189631--6189716	20	4.2	21	78	12	83	51	24	0	24	1.49
6189712--6189736	7	3.6	7	100	0	50	60	0	0	40	0.97
6189663--6189757	14	6.9	14	72	13	56	53	18	0	27	1.45
6189646--6189778	20	6.6	20	73	15	78	54	21	0	24	1.45
6189967--6190046	20	4.0	20	77	9	81	52	25	0	22	1.47
6189974--6190058	7	12.4	7	76	5	66	50	28	0	21	1.49
6190078--6190129	21	2.6	19	76	11	59	53	26	1	17	1.54
6189967--6190129	20	7.7	20	67	20	66	51	25	1	21	1.55
6190138--6190172	14	2.6	13	86	8	52	57	31	0	11	1.34
6190245--6190270	13	2.0	13	100	0	52	53	38	0	7	1.30
6190244--6190348	40	2.6	40	84	0	147	48	23	0	26	1.57
6190324--6190403	20	4.1	20	75	12	76	55	25	1	18	1.51
6190433--6190472	21	1.9	21	89	0	62	50	25	0	25	1.50
6190596--6190635	21	2.0	20	85	5	53	55	15	2	27	1.53
6190679--6190710	14	2.3	14	94	0	55	46	21	0	31	1.52
6190704--6190770	21	3.2	20	71	14	55	49	23	0	26	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6190693--6190779	42	2.1	41	85	10	115	52	19	0	27	1.46
6190892--6190947	13	3.9	14	75	11	51	50	26	0	23	1.50
6190983--6191062	20	4.0	20	73	12	65	55	21	0	23	1.44
6191010--6191074	7	9.4	7	77	3	51	50	27	0	21	1.49
6191003--6191061	14	4.3	14	74	8	50	55	20	0	23	1.43
6191190--6191288	27	3.7	27	79	4	65	46	30	1	22	1.58
6191203--6191319	7	17.1	7	73	11	91	44	34	0	21	1.53
6191204--6191281	20	3.9	20	79	3	68	46	33	0	20	1.51
6191201--6191307	47	2.3	47	93	0	178	44	33	0	21	1.52
6191201--6191282	13	6.6	13	71	19	68	43	34	0	21	1.53
6191401--6191446	14	3.3	15	76	11	53	50	23	0	26	1.50
6191422--6191514	21	4.6	20	75	10	73	50	27	0	21	1.49
6191482--6191563	21	4.0	21	72	20	64	50	18	3	28	1.64
6191444--6192033	122	4.7	123	67	15	294	51	23	1	23	1.54
6191561--6192132	129	4.4	130	68	13	385	52	25	0	22	1.51
6191790--6191876	26	3.5	26	71	15	94	51	25	0	22	1.48
6191436--6192164	386	1.9	386	96	0	1350	51	24	0	22	1.53
6191756--6191886	47	2.8	47	91	3	210	52	25	0	21	1.47
6192101--6192178	20	3.9	21	79	5	63	48	26	0	24	1.51
6192541--6192600	27	2.2	27	87	0	84	43	30	3	23	1.70
6193746--6193803	31	1.9	30	86	6	82	43	12	8	36	1.73
6193741--6193807	31	2.3	27	80	14	80	41	10	8	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6194079--6194139	21	3.0	20	76	7	61	52	29	3	14	1.58
6194313--6194381	7	9.7	7	76	6	59	55	30	2	11	1.50
6194313--6194382	21	3.3	21	78	11	79	54	31	2	11	1.51
6194425--6194517	27	3.5	27	75	7	82	44	30	2	23	1.65
6194728--6194787	28	2.2	28	82	8	70	51	25	3	20	1.62
6194819--6194862	20	2.1	21	91	4	72	43	38	0	18	1.50
6195667--6195745	29	2.6	29	80	9	79	29	10	13	46	1.76
6195688--6195746	29	2.0	29	86	3	82	25	8	15	50	1.71
6195861--6195957	31	3.2	30	72	5	88	43	11	7	38	1.68
6196283--6196350	28	2.4	28	80	0	82	47	30	4	17	1.68
6196339--6196610	7	39.6	7	65	22	62	52	26	1	19	1.52
6196365--6196431	27	2.4	27	80	9	82	46	29	0	23	1.53
6196457--6196633	21	8.5	20	73	12	88	54	27	1	16	1.49
6196512--6196641	42	3.1	42	75	11	124	54	26	1	17	1.52
6196533--6196641	21	5.2	20	78	13	96	55	25	0	18	1.49
6196256--6196687	7	62.1	7	66	9	51	50	28	1	19	1.57
6196680--6196727	20	2.5	20	83	10	55	50	18	0	31	1.48
6196922--6196964	13	3.2	13	80	6	59	48	34	0	16	1.46
6196912--6196954	14	3.1	14	76	6	52	44	39	0	16	1.48
6196912--6196964	27	2.0	27	96	0	97	47	35	0	16	1.48
6197111--6197148	7	5.6	7	93	6	60	52	31	0	15	1.43
6197111--6197148	13	2.8	14	92	4	60	52	31	0	15	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6199212--6199251	20	2.0	20	100	0	80	10	15	15	60	1.60
6201559--6201655	51	1.9	50	87	2	140	19	15	32	31	1.93
6213976--6214019	22	2.0	23	82	13	56	43	9	0	47	1.35
6214198--6214232	2	17.5	2	100	0	70	51	0	0	48	1.00
6222309--6222374	13	5.1	13	77	0	51	33	9	24	33	1.87
6230206--6230302	49	2.0	49	91	0	158	37	12	14	36	1.84
6234205--6234348	63	2.4	62	79	10	154	22	5	37	34	1.77
6236104--6236178	28	2.7	28	83	4	98	50	4	18	26	1.64
6238216--6238302	30	2.9	28	73	17	77	63	0	0	36	0.95
6238230--6238302	30	2.4	32	79	18	84	64	0	0	35	0.94
6240540--6240579	2	21.0	2	90	10	66	50	0	0	50	1.00
6246434--6246463	13	2.3	13	100	0	60	53	16	0	30	1.44
6246628--6246694	33	2.0	33	100	0	134	43	14	11	29	1.82
6247085--6247118	10	3.4	10	84	15	52	70	0	2	26	1.01
6247599--6247628	15	2.0	15	93	0	51	53	0	3	43	1.17
6248543--6248611	7	9.6	7	79	17	79	56	1	1	40	1.17
6248544--6248611	16	4.6	16	78	20	69	55	1	1	41	1.18
6249228--6249285	28	2.1	28	100	0	116	62	13	10	13	1.55
6252485--6252510	3	8.7	3	100	0	52	34	0	0	65	0.93
6253980--6254075	50	1.9	50	82	0	120	31	16	23	28	1.96
6254093--6254128	17	2.1	17	94	0	63	22	5	25	47	1.73
6255181--6255333	76	2.0	76	100	0	306	33	10	18	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6262970--6263322	43	8.1	42	71	11	219	20	13	19	46	1.83
6262970--6263216	86	2.8	85	81	6	262	21	14	19	44	1.86
6263080--6263255	92	1.9	92	83	2	228	19	14	21	45	1.85
6264677--6265055	200	1.9	200	94	0	677	23	19	16	40	1.91
6266453--6266959	251	2.0	250	86	4	700	28	5	13	51	1.65
6269494--6269700	43	4.8	43	81	6	181	26	27	22	24	2.00
6275506--6275625	25	4.8	25	80	5	143	33	1	20	45	1.61
6275494--6275625	50	2.6	50	86	3	183	34	2	20	43	1.64
6275610--6275686	32	2.3	34	80	17	97	41	0	15	42	1.47
6275635--6275677	12	4.0	11	77	17	54	41	0	11	46	1.40
6275662--6275686	13	1.9	13	100	0	50	36	0	16	48	1.46
6275493--6275673	9	20.9	9	71	16	107	35	1	18	43	1.60
6275728--6275788	9	7.2	9	74	20	60	32	0	21	45	1.52
6275735--6275779	16	2.8	16	83	6	56	31	0	22	46	1.52
6279792--6279954	88	1.8	89	94	1	292	45	23	0	30	1.58
6279881--6280025	70	2.1	69	93	1	245	46	24	0	29	1.53
6280062--6280092	14	2.2	14	94	0	53	41	38	0	19	1.51
6280119--6280151	14	2.3	15	94	5	59	36	33	0	30	1.58
6280538--6280744	81	2.5	82	88	2	292	30	25	21	22	1.99
6280538--6280769	41	5.7	41	86	1	295	30	25	21	23	1.99
6282204--6282277	32	2.3	32	84	9	89	16	24	40	18	1.90
6286272--6286578	129	2.4	124	79	8	323	27	28	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6286291--6286577	43	6.7	43	80	5	244	28	29	17	24	1.97
6286879--6286936	21	2.8	21	74	10	55	3	44	17	34	1.65
6292310--6292902	9	64.7	9	67	20	209	33	0	20	45	1.57
6292299--6292431	25	5.2	25	77	15	137	32	1	19	46	1.59
6292413--6292942	51	10.2	51	69	19	273	33	0	19	46	1.56
6292510--6292952	27	16.3	27	64	26	113	32	0	19	46	1.55
6292461--6292615	69	2.1	74	82	12	205	32	0	18	48	1.49
6292419--6292738	127	2.6	126	92	4	508	32	0	19	47	1.52
6292576--6292741	69	2.3	72	80	12	162	31	0	19	47	1.54
6292696--6292930	56	4.4	53	75	19	209	34	1	20	43	1.60

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