genome.fa.s12.2.7.7.80.10.50.1000.53.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  53  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)
14809175--14809205	15	2.1	15	100	0	62	38	19	22	19	1.93
14810071--14810104	17	2.0	17	94	0	59	26	17	11	44	1.83
14810877--14810917	21	2.0	21	90	0	64	19	31	24	24	1.98
14812515--14812616	38	2.6	39	76	7	109	32	25	16	25	1.96
14812515--14812616	41	2.6	37	78	7	105	32	25	16	25	1.96
14816381--14816424	20	2.2	20	84	4	54	50	6	22	20	1.72
14824816--14824871	19	3.0	19	86	2	69	37	3	5	53	1.41
14824846--14824880	18	1.9	18	88	0	52	42	0	5	51	1.25
14830448--14830668	66	3.3	66	81	1	246	30	18	24	26	1.98
14830988--14831046	28	2.1	28	100	0	118	30	11	25	32	1.92
14836146--14836189	2	22.0	2	90	0	70	50	4	0	45	1.22
14836929--14836976	23	2.2	21	82	10	53	43	20	6	29	1.76
14846355--14846406	24	2.2	24	89	0	77	57	5	1	34	1.33
14853547--14853691	59	2.4	60	81	10	161	28	2	17	51	1.59
14853547--14853684	32	4.5	32	84	12	164	27	2	17	52	1.59
14856688--14856806	24	5.1	24	69	11	68	46	18	8	26	1.77
14857627--14857783	41	3.8	41	87	0	215	32	28	21	17	1.96
14878543--14878586	14	3.1	14	80	6	52	25	0	4	70	1.06
14890441--14890518	30	2.6	29	76	11	79	46	3	24	25	1.70
14893777--14893810	2	17.0	2	100	0	68	50	0	0	50	1.00
14908661--14908695	17	2.1	17	100	0	70	5	22	37	34	1.78
14910399--14910451	13	3.7	15	75	14	58	56	3	0	39	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14910393--14910457	28	2.3	28	78	5	69	56	3	1	38	1.24
14914325--14914442	43	2.8	43	85	1	166	22	17	27	31	1.97
14914325--14914434	42	2.6	42	88	1	157	24	18	26	30	1.98
14915364--14915391	13	2.2	13	100	0	56	35	0	17	46	1.49
14916306--14916336	16	1.9	16	93	0	53	58	19	19	3	1.53
14923493--14923532	12	3.2	13	86	13	57	0	30	0	70	0.88
14925049--14925078	7	4.1	7	95	4	51	13	13	26	46	1.80
14926805--14926850	6	7.7	6	100	0	92	32	17	0	50	1.47
14928830--14928858	14	2.1	14	93	6	51	13	3	0	82	0.79
14929677--14929710	16	2.1	17	88	5	52	32	14	5	47	1.69
14932918--14932977	27	2.2	27	90	0	102	41	5	6	46	1.52
14932919--14932988	27	2.5	28	81	6	88	40	4	7	48	1.50
14933466--14933491	2	13.0	2	100	0	52	50	0	0	50	1.00
14933637--14933716	31	2.5	32	84	9	94	38	13	0	47	1.43
14935385--14935439	14	4.1	13	84	9	74	29	1	5	63	1.27
14935385--14935439	27	2.0	27	89	6	85	29	1	5	63	1.27
14935385--14935448	14	4.6	14	83	11	62	28	3	4	64	1.29
14935518--14935559	10	4.2	10	93	0	57	47	7	0	45	1.30
14935518--14935551	2	17.0	2	93	0	59	50	2	0	47	1.16
14936995--14937031	17	2.2	17	100	0	74	35	16	24	24	1.95
14939866--14939931	23	2.8	24	70	9	64	72	9	7	10	1.27
14939835--14939956	52	2.3	50	83	5	145	73	6	11	8	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14940317--14940356	21	1.9	21	90	10	64	70	0	15	15	1.18
14941596--14941876	87	3.2	85	83	5	323	27	23	23	25	2.00
14941977--14943738	86	20.4	86	93	1	2836	28	23	24	23	1.99
14943804--14943987	44	4.3	43	70	9	133	28	17	22	30	1.97
14943784--14944025	129	1.9	129	91	1	396	29	19	21	29	1.98
14944147--14944232	44	2.0	44	83	0	109	29	20	24	25	1.99
14945784--14945838	14	4.1	13	84	9	74	29	1	5	63	1.27
14945784--14945838	27	2.0	27	89	6	85	29	1	5	63	1.27
14945784--14945847	14	4.6	14	83	11	62	28	3	4	64	1.29
14945892--14945947	22	2.6	21	85	5	67	35	3	3	57	1.34
14945915--14945951	2	18.5	2	88	0	56	43	0	2	54	1.14
14945889--14945951	10	5.9	10	75	14	54	36	3	3	57	1.31
14950165--14950196	2	16.0	2	100	0	64	50	0	0	50	1.00
14952104--14952220	59	1.9	59	83	8	146	49	4	4	41	1.42
14964699--14964774	36	2.1	36	92	0	125	28	6	30	34	1.83
14973213--14973238	6	4.3	6	100	0	52	80	0	0	19	0.71
14995528--14995628	50	2.0	50	100	0	202	50	21	7	19	1.73
14997410--14997449	18	2.2	18	100	0	80	32	32	0	35	1.58
15003684--15003717	7	4.9	7	89	10	52	14	14	0	70	1.17
15003691--15003717	13	2.1	13	100	0	54	14	14	0	70	1.17
15030330--15030388	28	2.1	28	96	0	109	45	13	16	23	1.83
15030943--15030969	7	3.9	7	100	0	54	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15032668--15032701	17	2.0	17	88	0	50	14	29	29	26	1.95
15038727--15038751	12	2.1	12	100	0	50	0	40	0	60	0.97
15038866--15039175	159	1.9	159	90	3	491	39	10	5	43	1.64
15047588--15047625	6	6.2	6	90	3	58	0	60	0	39	0.97
15047590--15047625	18	2.0	18	100	0	72	0	61	0	38	0.96
15050695--15050893	59	3.3	58	71	14	197	41	1	3	54	1.24
15050676--15050915	120	2.0	120	98	0	462	42	1	4	51	1.31
15050830--15050888	26	2.3	25	85	8	82	40	0	1	57	1.09
15050843--15050898	15	4.0	15	73	17	57	44	0	0	55	0.99
15050891--15050948	17	3.4	17	86	6	82	41	3	1	53	1.28
15050751--15050934	41	4.6	40	67	23	109	41	2	3	52	1.31
15050676--15050961	120	2.4	120	90	3	384	42	1	3	52	1.29
15051112--15051165	21	2.6	21	81	0	72	29	33	9	27	1.88
15052909--15053020	56	2.0	56	94	1	199	22	14	16	47	1.82
15053619--15053690	33	2.2	32	82	7	83	50	13	5	30	1.65
15057100--15057132	17	1.9	17	88	11	50	78	9	12	0	0.95
15057417--15057463	22	2.2	21	84	3	58	25	14	46	12	1.80
15057997--15058159	50	3.3	50	77	0	173	22	17	22	38	1.94
15057997--15058191	100	1.9	101	86	1	275	23	18	22	35	1.96
15058211--15058586	44	8.6	44	69	11	159	29	21	18	30	1.97
15058183--15058585	219	1.8	219	92	0	680	29	20	18	31	1.97
15058573--15058864	129	2.3	129	89	2	444	25	22	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15059810--15059868	21	2.8	20	80	14	57	54	3	1	40	1.27
15059850--15059916	11	6.4	11	75	20	63	59	0	2	37	1.13
15059841--15059972	40	3.3	40	90	5	223	64	0	2	33	1.06
15059839--15059962	38	3.2	38	90	8	205	62	0	2	35	1.09
15060533--15060576	7	6.1	7	82	12	54	11	15	0	72	1.11
15066556--15066593	2	19.0	2	100	0	76	50	0	0	50	1.00
15067345--15067394	23	2.2	21	80	13	55	72	8	18	2	1.19
15067350--15067395	22	2.0	24	87	8	69	73	8	17	0	1.07
15071215--15071253	18	2.2	17	86	13	53	33	0	20	46	1.51
15071371--15071399	8	3.6	8	100	0	58	24	13	27	34	1.93
15071486--15071580	23	4.3	23	78	10	117	26	20	24	29	1.99
15078586--15078624	18	2.1	19	86	13	55	35	0	17	46	1.49
15078857--15078955	23	4.3	23	93	0	171	22	22	25	30	1.99
15099937--15099964	14	2.0	14	100	0	56	50	28	14	7	1.69
15101060--15101102	16	2.6	16	82	14	52	34	0	4	60	1.17
15101549--15101590	19	2.2	20	82	4	50	30	7	11	50	1.66
15104527--15104572	24	1.9	24	86	0	65	47	17	26	8	1.76
15112610--15113163	44	12.7	44	73	11	324	27	20	24	27	1.99
15112480--15113285	216	3.7	216	92	1	1244	28	20	23	27	1.99
15112871--15113199	173	1.9	173	81	10	406	26	21	24	27	1.99
15112484--15113252	44	17.8	43	68	14	275	28	20	23	27	1.99
15113545--15113572	14	2.0	14	100	0	56	50	28	14	7	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15114662--15114710	17	2.9	17	84	9	64	34	0	4	61	1.15
15115157--15115198	19	2.2	20	82	4	50	30	7	11	50	1.66
15125774--15125848	31	2.4	31	97	0	141	37	2	4	56	1.32
15125798--15125848	16	3.2	16	75	25	63	37	1	1	58	1.20
15135792--15135843	21	2.5	22	75	9	54	40	0	0	59	0.97
15138429--15138686	54	4.8	54	80	1	214	27	20	14	37	1.92
15138491--15138747	54	4.8	53	80	4	223	28	19	14	37	1.91
15138491--15138694	107	1.9	108	84	1	275	27	19	14	38	1.91
15138490--15138723	108	2.2	106	82	4	272	27	20	14	38	1.91
15139063--15139363	24	12.5	24	73	4	185	27	19	12	39	1.88

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