genome.fa.s12.2.7.7.80.10.50.1000.87.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  87  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)
26007653--26007697	19	2.5	18	83	16	58	6	26	0	66	1.16
26010774--26010859	41	2.1	40	81	10	95	44	1	2	52	1.21
26011727--26011792	18	3.7	18	72	10	55	34	1	3	60	1.21
26016249--26016275	3	9.0	3	100	0	54	33	33	0	33	1.58
26018942--26018976	18	1.9	18	94	0	61	60	0	11	28	1.32
26019290--26019323	16	2.2	16	89	5	52	55	0	2	41	1.15
26020175--26020212	7	5.4	7	84	12	51	0	18	0	81	0.69
26020175--26020212	13	2.7	15	88	8	53	0	18	0	81	0.69
26025853--26025888	19	1.9	19	94	5	65	33	2	0	63	1.08
26025854--26025894	19	2.2	18	86	4	55	34	2	0	63	1.08
26026570--26026611	13	2.9	14	80	13	50	54	0	0	45	0.99
26026574--26026610	16	2.3	16	86	13	58	59	0	0	40	0.97
26027761--26027811	21	2.4	21	83	6	68	9	11	39	39	1.75
26028468--26028521	28	1.9	28	88	0	81	50	14	5	29	1.66
26030732--26030813	6	13.7	6	82	0	92	59	14	4	20	1.53
26030730--26030825	18	5.3	18	74	9	79	57	13	7	21	1.61
26031286--26031325	21	1.9	21	94	0	71	22	30	20	27	1.98
26031864--26031890	9	3.0	9	100	0	54	44	0	0	55	0.99
26033205--26033231	5	5.4	5	100	0	54	81	0	0	18	0.69
26033996--26034034	19	2.1	19	85	9	53	74	2	7	15	1.15
26034583--26034694	45	2.5	44	76	9	111	23	24	24	28	2.00
26034640--26035083	143	3.1	143	85	1	604	27	22	20	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26038476--26038797	47	6.6	47	85	7	380	23	30	19	26	1.98
26051918--26051962	9	5.0	9	88	0	72	44	17	11	26	1.82
26051915--26051962	18	2.7	18	100	0	96	45	16	10	27	1.80
26052274--26052312	14	2.8	14	88	0	51	41	15	2	41	1.61
26055351--26055431	41	2.0	41	87	0	117	50	1	8	39	1.41
26057166--26057229	23	2.8	23	85	4	85	23	31	21	23	1.99
26058397--26058969	301	1.9	300	83	5	753	34	13	11	39	1.81
26058983--26059140	2	79.0	2	91	0	217	46	1	3	47	1.31
26063514--26063555	21	2.0	21	85	0	57	52	9	19	19	1.72
26065316--26065390	19	3.8	19	91	6	114	36	18	10	34	1.86
26065737--26066015	89	3.2	89	88	3	429	28	25	15	31	1.95
26065737--26066017	44	6.4	44	80	2	278	28	25	14	30	1.95
26066025--26066168	44	3.3	44	72	3	146	22	22	28	25	1.99
26066052--26066194	45	3.2	45	73	4	155	22	27	23	26	1.99
26066012--26066211	88	2.3	88	96	0	364	24	27	24	24	2.00
26066012--26066149	43	3.2	43	71	4	141	23	26	23	26	2.00
26066069--26066211	44	3.2	44	72	3	153	25	27	23	22	1.99
26066154--26066272	61	2.0	61	98	0	229	29	30	22	17	1.97
26066069--26066356	149	1.9	149	92	0	486	25	27	23	23	2.00
26066212--26066428	88	2.5	88	83	3	274	25	26	21	26	2.00
26068591--26068651	26	2.3	26	83	5	70	57	4	14	22	1.57
26071616--26071657	21	2.0	21	85	0	57	52	9	19	19	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26073319--26073393	19	3.8	19	87	6	105	37	17	10	34	1.84
26073567--26073600	18	2.0	18	88	11	54	44	0	2	52	1.16
26074817--26074859	22	2.0	22	95	0	77	9	20	27	41	1.83
26074931--26075377	43	10.3	43	85	4	508	31	31	19	18	1.96
26074953--26075396	173	2.6	173	84	3	574	31	31	18	18	1.95
26074953--26075377	130	3.3	129	86	3	559	31	31	19	18	1.95
26075642--26075705	9	7.1	9	92	0	101	1	29	43	25	1.64
26081180--26081221	22	1.9	22	85	0	57	33	7	14	45	1.72
26081202--26081296	9	10.6	9	73	17	81	34	1	17	46	1.56
26081202--26081296	16	5.3	18	74	15	81	34	1	17	46	1.56
26081247--26081321	22	3.6	21	76	23	79	36	1	17	45	1.57
26081323--26081460	69	2.0	69	95	0	249	47	4	6	42	1.49
26084750--26084804	15	3.6	15	81	18	69	30	49	0	20	1.49
26084750--26084856	22	4.6	22	77	14	99	35	42	0	22	1.54
26084760--26084856	50	2.0	50	82	8	119	37	39	0	23	1.55
26084750--26084878	14	9.1	14	67	17	54	35	41	0	22	1.54
26085158--26085189	2	16.0	2	93	0	55	50	3	0	46	1.17
26085501--26085632	41	3.2	41	74	13	128	38	28	17	15	1.91
26090372--26090417	24	1.9	24	86	8	67	47	23	2	26	1.63
26090442--26090467	11	2.4	11	100	0	52	84	0	15	0	0.62
26091005--26091138	71	1.9	71	95	0	241	32	4	23	39	1.75
26095981--26096040	9	6.4	10	75	19	58	73	5	0	21	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26095981--26096040	18	3.3	18	84	11	86	73	5	0	21	1.02
26099133--26099298	42	4.0	41	86	4	192	29	24	18	27	1.98
26099155--26099298	42	3.4	42	89	0	216	29	25	18	27	1.98
26099558--26099609	20	2.7	19	80	13	61	42	17	0	40	1.49
26100521--26100568	24	2.0	24	100	0	96	16	45	8	29	1.76
26125696--26125837	42	3.4	42	84	2	187	15	21	19	44	1.87
26125721--26125820	21	4.8	21	70	0	74	14	19	19	48	1.82
26151641--26151689	20	2.5	20	89	0	71	34	10	6	48	1.62
26153488--26153832	101	3.4	98	76	8	279	34	12	21	31	1.91
26156247--26156429	96	1.9	97	83	7	239	42	4	15	37	1.67
26156474--26157016	126	4.3	126	91	0	872	32	18	22	26	1.97
26162440--26162489	22	2.3	21	76	10	55	48	2	28	22	1.62
26164424--26164459	18	1.9	18	88	5	54	58	2	0	38	1.13
26164448--26164507	18	3.2	19	76	23	56	51	0	0	48	1.00
26188491--26188527	14	2.7	14	80	19	51	72	0	13	13	1.11
26189337--26189388	16	3.2	15	84	10	59	82	1	5	9	0.90
26189300--26189387	26	3.4	25	70	13	63	76	4	7	11	1.15
26203229--26203357	18	7.2	18	80	3	134	34	18	19	27	1.95
26204723--26204770	24	2.0	24	95	0	87	41	12	14	31	1.83
26212910--26213023	40	2.9	40	90	2	178	64	0	3	32	1.11
26212983--26213007	11	2.3	11	100	0	50	52	0	8	40	1.31
26214364--26214417	24	2.3	23	80	3	63	46	3	3	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26219819--26219872	28	2.0	27	82	10	65	48	11	1	38	1.50
26225253--26225307	5	10.8	5	88	3	83	36	0	3	60	1.15
26232439--26232474	11	3.4	11	92	3	56	55	0	5	38	1.23
26232603--26232664	10	6.1	10	75	20	58	51	0	3	45	1.17
26232687--26232748	18	3.4	18	73	18	65	64	0	3	32	1.09
26232609--26232747	37	3.6	38	85	7	158	58	0	3	36	1.20
26239209--26239259	23	2.3	23	86	3	68	49	21	0	29	1.50
26249683--26250072	195	2.0	195	99	0	771	24	16	18	40	1.91
26251516--26251542	14	1.9	14	100	0	54	22	11	29	37	1.89
26256796--26256888	28	3.4	28	77	3	98	29	12	21	36	1.91
26257763--26257825	2	31.5	2	100	0	126	49	0	0	50	1.00
26259457--26259515	31	1.9	31	89	0	91	45	11	5	37	1.63
26260042--26260360	110	2.9	112	93	0	543	32	21	16	29	1.96
26265877--26265923	8	5.3	9	82	14	62	78	8	0	12	0.95
26265874--26265923	18	3.0	15	78	21	55	80	8	0	12	0.92
26265926--26265959	14	2.4	14	95	0	59	79	0	14	5	0.91
26265911--26265983	27	2.8	25	81	8	74	79	1	10	8	0.99
26265936--26265990	6	9.3	6	80	11	60	81	0	12	5	0.84
26266809--26266842	8	4.1	8	88	7	50	73	0	14	11	1.10
26266804--26266843	17	2.3	18	86	8	64	72	0	12	15	1.12
26268037--26268176	45	3.2	45	69	19	139	28	22	26	22	1.99
26268050--26268188	44	3.2	44	69	15	142	25	25	25	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26268036--26268303	88	3.1	88	85	4	339	28	23	25	23	1.99
26268286--26269488	44	27.3	44	68	12	375	30	19	21	27	1.98
26268286--26269522	87	14.0	87	67	14	348	30	19	21	27	1.98
26268286--26268992	218	3.2	218	92	0	1173	30	19	22	27	1.98
26268730--26269360	316	2.0	316	88	1	942	31	19	21	27	1.97
26269062--26269533	175	2.7	175	93	1	786	30	20	20	27	1.98
26269584--26269762	95	1.9	95	92	2	306	26	17	22	32	1.96
26271681--26271715	2	17.5	2	100	0	70	48	0	0	51	1.00
26271698--26271759	27	2.4	26	81	5	72	46	4	9	38	1.58
26273721--26273858	44	3.2	42	66	15	118	25	24	23	26	2.00

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