genome.fa.s12.2.7.7.80.10.50.1000.64.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  64  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)
18662890--18662918	13	2.1	14	93	6	51	68	13	6	10	1.37
18673548--18673592	22	2.0	23	83	8	58	68	0	20	11	1.19
18674785--18675021	88	2.7	88	88	0	348	27	22	24	25	2.00
18675110--18675784	50	13.5	50	71	2	415	33	20	20	25	1.97
18675119--18675652	199	2.7	198	86	3	730	33	20	20	25	1.97
18675110--18675784	150	4.5	149	73	5	511	33	20	20	25	1.97
18675119--18675652	100	5.3	100	87	3	655	33	20	20	25	1.97
18676682--18676709	14	2.0	14	100	0	56	14	7	28	50	1.69
18681596--18681710	43	2.7	41	81	6	131	33	26	20	19	1.96
18681687--18681736	26	1.9	26	84	8	66	30	34	20	16	1.94
18681713--18681901	41	4.6	41	92	0	279	24	25	18	31	1.98
18683384--18683412	13	2.1	14	93	6	51	68	13	6	10	1.37
18692870--18692946	20	3.8	20	76	13	59	37	19	28	14	1.91
18692884--18692991	40	2.7	40	78	7	110	40	18	27	12	1.87
18700402--18700439	20	2.0	20	84	5	51	34	15	15	34	1.90
18712735--18712916	80	2.5	68	79	19	238	26	10	6	56	1.57
18712757--18712926	80	2.1	80	96	1	313	25	10	5	57	1.55
18713114--18713172	13	4.5	14	75	12	54	32	6	0	61	1.22
18713134--18713184	21	2.5	20	81	9	57	27	3	0	68	1.07
18713134--18713182	24	2.0	24	84	0	62	28	4	0	67	1.09
18712848--18713299	228	2.0	226	95	2	807	30	8	5	55	1.52
18713476--18713507	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18718480--18718513	13	2.8	12	86	8	50	76	8	2	11	1.12
18718452--18718528	41	1.9	40	84	7	102	72	7	10	9	1.27
18719411--18719464	6	8.0	7	76	15	51	70	1	16	11	1.25
18720713--18720817	44	2.4	43	81	6	122	30	24	20	24	1.98
18720731--18720975	44	5.3	44	71	14	181	32	18	21	27	1.97
18720897--18720995	44	2.2	44	80	7	112	30	19	20	30	1.97
18720741--18721020	142	2.0	142	94	0	497	33	17	21	28	1.95
18721094--18722519	100	14.2	99	78	8	1332	33	22	20	23	1.97
18721101--18722519	301	4.7	301	90	1	2161	33	22	20	23	1.97
18721103--18722479	50	27.5	50	68	9	571	33	22	20	23	1.97
18724054--18724099	22	2.1	22	84	11	60	26	4	6	63	1.38
18725448--18725897	225	2.0	224	97	0	855	34	20	13	32	1.91
18727542--18727591	24	2.1	24	100	0	100	44	16	0	40	1.47
18731012--18731395	50	7.7	50	84	1	414	21	29	21	27	1.99
18733849--18734041	51	3.8	50	81	4	226	25	16	26	31	1.96
18750130--18750229	43	2.4	42	86	3	137	14	27	19	40	1.89
18750170--18750229	21	2.8	21	71	2	66	15	30	18	36	1.91
18756509--18756537	11	2.6	11	100	0	58	48	0	17	34	1.47
18757373--18757405	11	2.8	12	90	9	50	78	3	0	18	0.87
18760667--18760725	21	2.8	20	82	5	55	16	10	18	54	1.70
18766094--18766221	54	2.4	54	93	0	184	20	31	27	21	1.98
18776591--18776826	100	2.3	104	80	4	246	23	30	20	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18776648--18776838	50	3.7	50	84	8	206	22	30	21	24	1.99
18784628--18784924	50	5.8	50	77	5	213	23	27	20	28	1.99
18792865--18792947	42	2.0	42	85	4	114	25	20	30	24	1.99
18798338--18798399	30	2.1	30	81	0	70	53	9	6	30	1.59
18806094--18806208	60	1.9	60	94	0	203	32	34	15	17	1.91
18810568--18810856	126	2.3	126	91	0	452	31	18	21	28	1.97
18816408--18816480	11	6.6	11	78	10	69	42	1	32	23	1.63
18819022--18819103	20	4.2	19	71	17	60	59	1	1	37	1.13
18819217--18819266	22	2.3	23	80	16	61	48	0	0	52	1.00
18820366--18820404	5	7.8	5	97	0	69	43	15	0	41	1.46
18820567--18820597	15	2.0	16	93	6	55	3	51	38	6	1.44
18820650--18820702	22	2.4	22	83	3	70	33	0	3	62	1.13
18821089--18821527	41	10.9	41	83	5	475	17	20	34	27	1.95
18822128--18822226	21	4.6	21	69	19	60	24	0	35	40	1.55
18825823--18825913	43	2.1	43	84	6	114	37	9	8	43	1.69
18826180--18826490	43	7.3	41	82	4	334	26	18	28	26	1.98
18826180--18826486	128	2.4	128	81	2	366	26	18	28	26	1.98
18834918--18834985	31	2.2	31	86	5	93	22	22	16	39	1.92
18839264--18839359	37	2.6	36	75	14	88	38	3	5	53	1.39
18839260--18839325	30	2.2	31	84	13	84	36	0	9	54	1.32
18839333--18839387	26	2.1	25	80	12	58	41	7	3	47	1.49
18848338--18849120	389	2.0	389	91	0	1251	31	20	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18869966--18869990	5	5.0	5	100	0	50	80	0	0	20	0.72
18870296--18870364	25	2.8	25	78	8	77	33	18	18	28	1.95
18877896--18877928	17	1.9	17	93	0	57	12	18	30	39	1.87
18877995--18878052	25	2.3	25	85	5	73	29	18	20	31	1.97
18877935--18878048	50	2.3	50	78	3	122	22	21	22	32	1.98
18879399--18879437	20	2.0	20	90	10	62	15	23	5	56	1.59
18879646--18879768	49	2.5	49	77	6	124	22	25	21	30	1.98
18883168--18883197	14	2.1	14	93	0	51	40	0	43	16	1.48
18893220--18893249	14	2.1	14	93	0	51	40	0	43	16	1.48
18898832--18898856	10	2.5	10	100	0	50	20	0	16	64	1.30
18904823--18904872	25	2.0	25	100	0	100	28	28	4	40	1.74
18904814--18904884	25	2.5	30	74	25	91	30	23	4	40	1.74
18909025--18909068	22	2.0	22	82	8	54	50	9	20	20	1.75
18909064--18909108	23	2.0	23	90	0	72	71	11	4	13	1.29
18909839--18909902	21	3.0	21	74	21	69	34	1	0	64	1.03
18909813--18909889	20	3.9	20	74	14	63	36	2	1	59	1.19
18909843--18909933	44	2.0	45	85	6	123	29	2	1	67	1.10
18909864--18909901	13	3.2	12	82	10	51	26	2	0	71	1.00
18910024--18910049	3	8.7	3	100	0	52	30	0	0	69	0.89
18910518--18910744	126	1.8	126	91	1	375	31	15	22	30	1.95
18914701--18914915	116	1.9	116	94	0	385	43	8	9	38	1.68
18914920--18914965	22	2.2	20	85	11	58	28	0	26	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18914953--18915016	23	2.9	20	88	9	74	31	0	18	50	1.48
18914944--18915450	29	18.4	29	76	17	505	27	0	26	45	1.57
18914949--18915466	52	9.6	52	84	11	538	27	0	26	45	1.57
18915360--18915414	23	2.4	21	100	0	74	27	0	25	47	1.52
18915466--18915578	25	4.7	25	71	18	105	44	13	1	40	1.54
18915466--18915621	70	2.3	69	94	2	269	46	12	1	39	1.50
18915546--18915631	43	2.0	45	90	4	140	50	12	0	37	1.41
18916044--18916078	18	1.9	18	94	0	61	34	8	31	25	1.86
18917880--18917998	50	2.4	50	95	2	213	43	0	26	28	1.61
18917966--18918021	22	2.5	22	97	2	103	39	0	32	28	1.57
18920230--18920278	23	2.1	23	100	0	98	26	12	26	34	1.92
18924040--18924083	2	23.0	2	81	9	56	45	2	2	50	1.27
18924170--18924229	30	2.0	30	90	6	95	53	3	5	38	1.39
18949833--18949905	36	2.0	36	100	0	146	31	19	19	30	1.96
18975167--18975229	28	2.2	29	91	2	101	31	7	4	55	1.50
18978454--18978489	15	2.5	14	91	8	63	33	0	0	66	0.92
18979756--18979783	6	4.7	6	100	0	56	14	0	0	85	0.59
18983083--18983110	11	2.5	11	100	0	56	39	0	17	42	1.50
18995785--18995862	38	2.1	35	81	11	86	32	19	12	35	1.89
19015994--19016141	64	2.3	64	86	0	206	31	22	19	27	1.98
19016089--19016134	24	1.9	24	86	0	65	32	17	19	30	1.95
19016225--19016336	42	2.7	42	84	0	134	38	19	14	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19022761--19022812	17	3.2	16	86	7	70	44	9	17	28	1.80
19034437--19034477	19	2.2	19	91	8	66	31	9	7	51	1.62
19039031--19039072	15	2.8	15	85	0	57	42	4	19	33	1.72
19041110--19041150	19	2.2	19	91	8	66	31	9	7	51	1.62
19044485--19044514	12	2.4	13	94	5	53	0	10	3	86	0.67
19048186--19048312	51	2.5	51	83	1	148	25	15	27	30	1.96
19048176--19048367	50	3.8	50	77	1	186	26	16	27	29	1.97
19049581--19049646	33	2.0	33	93	0	114	30	10	22	36	1.88
19063574--19064525	480	2.0	480	91	1	1559	24	19	19	36	1.95
19070866--19070918	25	2.1	25	82	0	61	33	0	11	54	1.36

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