genome.fa.s12.2.7.7.80.10.50.1000.31.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  31  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)
8289671--8289797	3	40.3	3	80	9	112	29	4	3	62	1.30
8290045--8290091	22	2.0	24	88	8	71	34	8	0	57	1.29
8290356--8290388	17	1.9	17	93	0	57	33	12	27	27	1.92
8291134--8291199	30	2.2	30	91	0	105	54	6	15	24	1.63
8297922--8297963	22	1.9	22	90	0	66	35	2	2	59	1.23
8298837--8298889	18	3.1	18	69	23	51	50	1	3	43	1.30
8303709--8303781	37	2.0	37	83	5	94	34	2	1	61	1.19
8303736--8303781	19	2.5	18	85	3	56	34	0	0	65	0.93
8303736--8303784	18	2.7	18	81	18	57	34	0	0	65	0.93
8306001--8306092	7	13.9	7	73	13	52	18	1	34	45	1.57
8306054--8306127	13	5.5	13	74	18	62	22	0	29	47	1.52
8306054--8306130	7	11.3	7	76	8	70	23	0	31	45	1.53
8306000--8306114	33	3.4	33	75	9	108	19	0	34	45	1.56
8306002--8306113	40	2.8	41	78	11	101	18	0	33	46	1.56
8306056--8306107	26	1.9	28	88	7	81	25	0	28	46	1.53
8306113--8306192	35	2.3	35	85	12	103	26	5	30	38	1.77
8307243--8307268	3	8.7	3	100	0	52	69	0	30	0	0.89
8311522--8311564	22	2.0	22	86	9	61	48	9	0	41	1.35
8312405--8312472	9	7.4	9	83	9	75	39	26	11	22	1.88
8319642--8319671	12	2.5	12	88	0	51	0	13	16	70	1.18
8319879--8319925	3	15.7	3	95	0	85	65	0	0	34	0.93
8320225--8320287	31	2.0	32	90	9	103	42	15	9	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8324186--8324224	17	2.3	17	86	0	51	35	5	0	58	1.20
8324659--8324691	6	5.5	6	96	0	57	30	0	69	0	0.88
8324658--8324701	18	2.4	18	81	7	54	27	0	65	6	1.17
8327174--8327222	3	16.3	3	100	0	98	67	0	0	32	0.91
8333414--8333821	46	9.6	46	84	11	441	27	22	14	35	1.93
8333595--8333780	36	4.9	36	81	13	221	28	19	12	39	1.88
8333503--8333821	82	3.9	81	82	14	361	28	21	13	36	1.91
8333549--8333780	118	2.0	118	93	1	394	28	20	12	37	1.90
8336282--8336364	34	2.5	33	81	11	100	26	21	22	28	1.99
8346684--8346711	6	4.7	6	100	0	56	50	17	17	14	1.79
8356138--8356218	25	3.4	25	70	11	62	61	2	1	34	1.17
8356730--8356760	3	10.3	3	100	0	62	32	0	0	67	0.91
8358449--8358477	6	4.8	6	100	0	58	17	31	0	51	1.45
8365042--8365075	14	2.4	14	85	0	50	73	0	26	0	0.83
8365235--8365363	60	2.2	60	94	0	231	31	0	13	55	1.39
8365480--8365530	13	4.1	13	80	10	61	27	5	0	66	1.14
8385752--8385840	31	2.9	31	88	9	137	24	19	11	44	1.83
8385752--8385903	31	5.0	31	70	9	132	22	18	13	46	1.83
8386037--8386082	24	2.0	23	86	4	65	28	4	2	65	1.23
8386268--8386350	30	2.8	30	81	0	103	51	13	10	24	1.72
8397912--8397958	7	6.7	7	95	0	76	0	4	8	87	0.67
8398942--8399172	44	5.2	44	84	2	266	29	20	19	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8412666--8412703	18	2.1	18	85	9	51	26	2	10	60	1.43
8414313--8414373	26	2.6	23	80	12	70	24	6	11	57	1.57
8422200--8422313	44	2.6	44	87	0	138	28	24	14	33	1.94
8422523--8422858	44	7.6	44	64	10	121	29	22	17	30	1.96
8422329--8422913	132	4.5	132	89	4	900	28	22	18	30	1.97
8424300--8424346	20	2.3	21	85	3	60	14	14	0	70	1.18
8424308--8424347	7	5.7	7	85	11	55	12	12	0	75	1.06
8425313--8425354	19	2.2	19	91	8	68	64	2	16	16	1.40
8427240--8427285	19	2.4	19	85	7	58	47	8	19	23	1.77
8437997--8438037	3	13.7	3	100	0	82	68	0	31	0	0.90
8441304--8441339	12	3.0	12	87	0	54	66	0	0	33	0.92
8448077--8448101	12	2.1	12	100	0	50	60	8	8	24	1.52
8448928--8448969	10	4.2	10	81	0	57	21	30	2	45	1.65
8448928--8448984	15	3.8	15	83	0	69	22	29	3	43	1.70
8452145--8452189	10	4.5	10	86	5	56	80	4	4	11	1.01
8453983--8454028	9	5.1	9	81	0	56	15	39	8	36	1.78
8462528--8462560	16	2.0	17	88	5	50	57	0	24	18	1.40
8464077--8464220	73	2.0	73	90	2	227	30	25	21	22	1.99
8464121--8464681	114	4.9	114	88	1	811	26	23	26	24	2.00
8464137--8464681	229	2.4	228	89	2	833	26	23	26	24	2.00
8465242--8465280	7	5.4	7	81	6	51	17	0	46	35	1.49
8465235--8465305	15	4.9	14	72	13	63	23	0	40	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8465992--8466238	106	2.3	108	83	4	338	47	12	11	28	1.76
8469812--8469969	43	3.7	43	82	7	146	23	17	29	29	1.97
8487594--8487636	12	3.6	12	93	0	68	39	16	13	30	1.87
8502904--8503043	25	5.6	24	79	5	127	34	25	18	22	1.96
8502880--8503052	50	3.5	50	76	9	181	34	23	18	23	1.96
8502880--8503053	75	2.3	75	82	2	197	33	24	18	23	1.96
8503846--8503909	3	21.3	3	93	0	110	70	0	29	0	0.88
8516287--8516332	21	2.2	20	84	3	56	50	2	4	43	1.34
8520941--8521005	3	22.3	3	76	17	66	0	33	0	66	0.92
8520955--8521005	26	2.0	26	96	0	93	0	31	0	68	0.90
8520937--8521002	32	2.1	32	88	5	98	0	33	0	66	0.92
8521762--8521804	14	3.0	15	80	10	54	62	2	0	34	1.08
8524700--8524813	57	2.0	57	86	3	158	26	22	15	35	1.94
8525847--8525911	2	32.5	2	87	0	94	47	0	52	0	1.00
8526435--8526520	22	3.9	22	89	0	118	29	25	13	31	1.94
8530872--8530922	23	2.2	23	82	6	59	54	7	3	33	1.47
8534715--8534740	12	2.2	12	100	0	52	30	26	7	34	1.85
8536458--8536583	9	14.0	9	73	14	91	34	0	19	46	1.51
8536460--8536574	52	2.3	45	85	12	131	33	0	19	46	1.50
8536460--8536602	56	2.6	55	90	6	213	35	0	18	45	1.50
8537604--8537794	41	4.6	41	98	0	337	23	28	20	27	1.99
8538014--8538044	2	15.5	2	100	0	62	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)
8541736--8541777	18	2.3	18	84	8	59	38	14	38	9	1.78
8541893--8541970	40	2.0	40	89	0	120	11	30	23	34	1.90
8541969--8541993	12	2.1	12	100	0	50	48	32	12	8	1.69
8542541--8542566	7	3.7	7	100	0	52	57	42	0	0	0.98
8542501--8542560	29	2.1	29	81	6	68	41	40	0	18	1.50
8542539--8542587	14	3.5	14	83	8	64	57	34	0	8	1.29
8542539--8542677	28	4.8	28	71	11	91	49	34	0	15	1.45
8542562--8542649	21	4.2	21	75	13	74	50	29	0	20	1.49
8542568--8542616	20	2.4	21	86	3	73	48	30	0	20	1.50
8542562--8542681	14	8.2	14	73	15	73	49	32	0	18	1.48
8542726--8542772	7	6.9	7	75	4	51	44	38	2	14	1.58
8542726--8542784	14	4.3	14	76	2	57	45	35	1	16	1.58
8542960--8543038	40	2.0	40	84	0	104	25	24	20	30	1.98
8542886--8543373	152	3.2	152	82	2	584	29	20	18	30	1.97
8543135--8543220	40	2.2	40	82	0	109	23	17	22	37	1.94
8543318--8543413	40	2.4	40	89	0	147	26	22	26	25	2.00
8543126--8543583	192	2.4	194	81	4	514	26	20	21	31	1.98
8547673--8548239	126	4.5	125	83	2	699	30	16	22	30	1.96
8547673--8548239	251	2.3	251	87	2	802	30	16	22	30	1.96
8551404--8552736	21	62.0	22	73	13	799	24	0	29	45	1.58
8551480--8552707	43	28.6	41	75	12	707	24	0	29	45	1.58
8551645--8551734	8	11.8	8	81	13	109	25	0	25	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8551634--8551769	7	18.4	7	81	8	94	25	0	26	48	1.51
8552687--8552735	14	3.6	14	71	17	50	22	0	34	42	1.54
8553282--8553323	18	2.3	18	87	0	66	47	4	28	19	1.69
8554110--8554147	20	1.9	20	89	10	60	55	5	2	36	1.37
8555158--8555255	51	1.9	51	85	8	137	45	3	23	27	1.67
8555217--8555293	11	6.9	11	70	24	63	42	1	29	25	1.63
8555217--8555293	22	3.5	22	72	22	70	42	1	29	25	1.63
8563723--8563751	7	4.1	7	100	0	58	13	41	0	44	1.44
8574500--8574561	22	3.0	22	64	22	62	46	14	9	29	1.76
8574483--8574561	39	2.0	39	97	0	149	46	13	10	29	1.76

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