genome.fa.s12.2.7.7.80.10.50.1000.26.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  26  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)
6804891--6804930	21	1.9	21	85	10	55	77	12	10	0	0.99
6805367--6805391	11	2.3	11	100	0	50	52	0	20	28	1.47
6805734--6805800	31	2.2	30	81	10	73	46	0	20	32	1.51
6806083--6806126	22	2.0	23	90	4	72	18	20	22	38	1.93
6815604--6815767	9	18.0	9	67	22	60	28	5	2	63	1.29
6815688--6815756	24	2.9	24	80	8	70	23	4	1	71	1.12
6820556--6820607	25	2.0	26	85	10	72	36	1	0	61	1.07
6820556--6820622	25	2.7	25	82	11	68	38	2	0	58	1.14
6824711--6824813	51	2.0	51	100	0	206	44	11	9	33	1.74
6825111--6825137	14	1.9	14	100	0	54	44	0	0	55	0.99
6831907--6831965	26	2.3	25	75	21	59	52	8	0	38	1.32
6842766--6842808	13	3.5	13	75	18	56	48	13	0	37	1.43
6842766--6842817	23	2.3	23	100	0	104	48	13	0	38	1.43
6842766--6842830	23	2.8	23	88	4	60	50	12	0	36	1.40
6846860--6846884	6	4.2	6	100	0	50	80	0	0	20	0.72
6850499--6853007	839	3.0	838	99	0	4984	36	19	14	29	1.91
6855632--6855801	89	1.9	89	89	2	261	38	17	10	33	1.84
6855958--6856016	26	2.2	28	82	11	79	62	1	0	35	1.05
6856029--6856074	19	2.3	20	89	10	69	58	0	2	39	1.10
6856068--6856105	19	2.0	19	100	0	76	57	10	10	21	1.61
6856374--6856446	10	7.4	10	78	7	78	31	2	1	64	1.16
6856374--6856446	19	3.7	19	81	5	83	31	2	1	64	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6856455--6856512	28	2.0	28	87	9	82	43	1	0	55	1.10
6861203--6861228	13	2.0	13	100	0	52	30	15	30	23	1.95
6869396--6869436	21	2.0	21	90	4	66	41	4	14	39	1.67
6870278--6870323	22	2.0	23	87	4	67	15	4	32	47	1.65
6871376--6871411	15	2.4	15	100	0	72	30	0	5	63	1.17
6872622--6872659	19	2.1	18	90	5	58	65	2	5	26	1.27
6874981--6875418	44	9.5	44	68	15	217	33	19	19	27	1.96
6875006--6875380	94	4.0	93	77	3	308	33	20	17	28	1.95
6875338--6875512	94	1.9	94	84	4	237	29	17	23	29	1.97
6875200--6875548	138	2.5	138	82	3	364	30	19	20	28	1.97
6874918--6875598	232	2.9	228	73	10	583	31	19	20	28	1.97
6875533--6875645	50	2.3	50	84	6	149	30	13	21	34	1.91
6875550--6875662	50	2.3	50	83	6	122	33	14	20	31	1.92
6876900--6876939	21	1.9	21	85	10	55	15	20	17	47	1.83
6877099--6877139	16	2.5	17	80	11	50	29	12	2	56	1.49
6884477--6884512	18	2.0	18	100	0	72	22	27	16	33	1.95
6887533--6887567	18	1.9	18	94	0	61	65	14	5	14	1.44
6890295--6890333	2	19.5	2	100	0	78	48	0	0	51	1.00
6890631--6890666	4	8.8	4	87	6	54	75	2	0	22	0.94
6891216--6891332	3	39.0	3	85	10	150	66	1	0	30	1.07
6891606--6891703	21	4.7	21	86	8	112	41	14	8	35	1.75
6910813--6910908	49	2.0	49	83	4	122	27	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6913940--6913997	28	2.1	27	93	3	98	32	13	12	41	1.82
6923565--6923591	6	4.5	6	100	0	54	55	0	29	14	1.40
6923733--6923792	26	2.3	27	85	5	79	41	11	15	31	1.82
6932206--6932230	6	4.2	6	100	0	50	16	0	0	84	0.63
6951696--6951723	9	3.1	9	100	0	56	32	10	10	46	1.73
6956711--6956763	23	2.2	24	83	12	74	39	1	0	58	1.09
6956733--6956839	19	6.0	18	74	17	73	43	0	0	56	0.99
6956733--6956841	16	6.3	17	74	20	68	43	0	0	56	0.99
6956720--6956812	39	2.4	40	84	12	122	40	0	0	59	0.98
6956711--6956808	21	4.8	21	79	14	107	38	1	0	60	1.04
6956792--6956817	12	2.2	12	100	0	52	42	0	0	57	0.98
6956722--6956825	20	5.2	20	74	22	85	42	0	0	57	0.98
6956761--6956833	19	3.8	20	80	18	75	45	0	0	54	0.99
6956878--6956983	13	8.8	12	67	30	59	40	0	1	57	1.09
6956871--6956945	22	3.5	22	83	7	82	40	0	1	58	1.06
6960606--6960713	53	2.0	53	100	0	216	37	11	23	28	1.89
6965216--6965266	19	2.7	19	82	11	61	70	0	1	27	0.98
6965220--6965326	10	10.9	10	69	14	62	64	0	0	34	1.00
6965278--6965326	10	4.8	10	85	5	71	63	0	0	36	0.95
6965280--6965325	21	2.2	21	92	0	74	65	0	0	34	0.93
6965278--6965382	29	3.5	30	74	12	99	61	0	4	32	1.23
6965611--6965691	37	2.2	37	84	4	101	32	2	4	60	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6971015--6971071	27	2.1	27	86	0	78	22	22	26	28	1.99
6971024--6971085	27	2.3	27	85	0	79	24	25	30	19	1.98
6971666--6971742	27	2.9	27	92	0	118	18	33	27	20	1.96
6972829--6972879	26	2.0	24	85	7	66	29	0	3	66	1.09
6977879--6977965	23	3.8	22	80	7	95	19	26	20	33	1.97
6978888--6978912	13	1.9	13	100	0	50	48	0	16	36	1.46
6981712--6981814	41	2.5	41	82	0	98	35	29	18	16	1.93
6981724--6981817	41	2.3	41	84	0	125	35	28	20	15	1.94
6984330--6984385	23	2.5	22	75	18	60	46	10	1	41	1.49
6984390--6984419	15	2.0	15	93	0	51	33	6	23	36	1.81
6989731--6989764	2	18.0	2	88	11	54	47	0	0	52	1.00
6996221--6996256	16	2.3	16	90	4	56	66	2	5	25	1.27
6999136--6999197	30	2.1	30	96	0	115	43	3	27	25	1.70
7008231--7008278	24	2.0	25	83	4	62	50	10	14	25	1.74
7018492--7018536	23	1.9	23	82	13	56	15	8	40	35	1.79
7020227--7020268	22	1.9	22	90	0	66	33	0	33	33	1.58
7020218--7020320	52	2.0	51	83	9	129	34	0	32	33	1.58
7020270--7020361	22	4.2	23	82	8	111	42	0	27	30	1.56
7020270--7020361	44	2.1	44	85	4	123	42	0	27	30	1.56
7021072--7021197	61	2.1	61	80	3	137	43	15	3	37	1.65
7022545--7022581	2	18.5	2	100	0	74	0	48	0	51	1.00
7041144--7041205	30	2.1	30	84	6	81	58	14	3	24	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7049416--7049452	2	18.5	2	100	0	74	51	0	0	48	1.00
7049582--7049641	29	2.0	30	96	3	113	50	10	3	36	1.53
7054116--7054173	30	1.9	30	86	6	82	25	5	15	53	1.63
7069743--7069791	21	2.3	21	85	0	62	32	2	4	61	1.26
7069753--7069795	21	2.0	21	90	0	68	32	0	6	60	1.23
7075866--7075895	14	2.1	14	100	0	60	36	6	23	33	1.81
7079311--7079339	3	9.7	3	100	0	58	31	0	0	68	0.89
7095780--7095876	48	2.0	48	85	0	131	38	20	6	35	1.78
7098449--7098473	5	5.0	5	100	0	50	20	20	20	40	1.92
7100381--7100440	27	2.3	25	88	5	84	41	10	16	31	1.81
7106358--7106409	26	2.0	26	88	0	77	25	19	21	34	1.96
7115362--7115401	17	2.3	17	87	12	55	75	7	17	0	1.03
7119469--7119534	27	2.5	27	80	7	82	34	13	10	40	1.79
7120156--7120265	42	2.6	42	78	4	125	32	19	19	29	1.96
7123237--7123277	16	2.5	17	80	15	50	24	0	7	68	1.15
7123670--7123732	32	2.0	32	90	0	99	55	4	12	26	1.57
7124230--7124331	39	2.6	38	80	7	107	43	5	2	48	1.42
7124315--7124356	19	2.2	19	83	8	50	52	2	2	42	1.27
7137296--7137328	13	2.3	15	90	10	52	75	0	3	21	0.93
7137666--7137712	24	1.9	25	86	4	69	29	4	6	59	1.41
7141680--7141734	22	2.5	22	79	5	67	61	9	7	21	1.50
7144927--7144983	17	3.4	16	75	20	55	75	0	22	1	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7156575--7156668	41	2.3	41	92	0	170	25	27	20	26	1.99
7156575--7156693	41	2.9	41	86	2	123	26	27	19	26	1.99
7157497--7157534	2	19.0	2	100	0	76	50	0	0	50	1.00
7168731--7168794	27	2.4	27	87	10	87	23	35	17	23	1.95
7170187--7170354	81	2.1	81	96	0	309	29	11	16	42	1.84
7170187--7170376	81	2.3	81	88	3	222	29	13	17	39	1.88
7173531--7173558	2	14.0	2	100	0	56	50	0	0	50	1.00
7184382--7184412	15	2.0	16	93	6	55	51	0	0	48	1.00
7189784--7189837	21	2.6	21	90	0	90	11	38	20	29	1.87
7194311--7194349	2	19.5	2	100	0	78	48	0	0	51	1.00

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