genome.fa.s3.2.7.7.80.10.50.1000.57.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   

This is table  57  of  150  ( 17918 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)
17157783--17157816	18	1.9	18	88	5	52	8	2	26	61	1.40
17159814--17159852	20	2.0	20	89	0	60	25	17	7	48	1.74
17163625--17163669	23	2.0	24	86	8	67	37	2	2	57	1.23
17164394--17164420	13	2.1	13	100	0	54	40	7	29	22	1.81
17165113--17165139	3	9.0	3	100	0	54	66	0	0	33	0.92
17173629--17173696	24	2.7	25	75	9	66	32	25	16	26	1.96
17173651--17173698	24	2.0	24	87	0	69	31	20	14	33	1.93
17177689--17177729	21	2.0	21	85	9	57	46	17	7	29	1.74
17179303--17179392	44	2.0	45	95	2	164	43	10	14	32	1.78
17180570--17180762	97	2.0	97	94	0	341	27	17	21	33	1.96
17186076--17186136	28	2.2	28	82	5	70	37	0	19	42	1.52
17187124--17187168	22	2.0	24	86	8	67	40	11	4	44	1.60
17187572--17187606	5	6.6	5	87	12	52	80	0	0	20	0.72
17187567--17187603	12	3.2	12	88	11	60	75	0	0	24	0.80
17190993--17191670	342	2.0	342	95	0	1230	39	13	14	32	1.85
17192397--17192434	19	2.0	19	90	10	60	39	0	39	21	1.53
17195486--17195574	28	3.2	28	79	3	90	42	12	21	23	1.86
17196945--17197010	31	2.1	31	88	0	96	30	12	7	50	1.67
17196957--17197017	31	2.0	31	90	0	95	27	11	11	49	1.73
17197480--17197623	59	2.4	59	85	4	175	47	11	13	27	1.77
17198124--17198200	19	3.9	19	90	6	127	36	10	16	36	1.83
17198124--17198223	19	4.8	22	78	14	90	36	9	17	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17202982--17203009	6	4.7	6	100	0	56	85	0	14	0	0.59
17203852--17203940	47	1.9	46	90	2	142	42	20	21	15	1.89
17205187--17205368	45	4.0	45	89	0	283	31	17	22	28	1.97
17205473--17205582	44	2.5	44	92	0	175	29	22	23	24	1.99
17206124--17206198	19	3.8	19	93	6	132	37	10	16	36	1.83
17206124--17206221	19	4.7	22	80	14	95	36	9	16	37	1.80
17212794--17212926	58	2.3	58	88	2	196	24	30	15	30	1.96
17217526--17217578	21	2.5	21	81	6	63	30	5	32	32	1.81
17219534--17219567	16	2.2	16	89	5	52	58	14	2	23	1.50
17221510--17222463	29	32.3	30	91	6	1553	37	10	0	51	1.37
17221510--17222463	60	16.2	58	91	5	1535	37	10	0	51	1.37
17221800--17221851	21	2.4	22	87	9	79	38	11	0	50	1.39
17222419--17222477	28	2.1	28	81	3	66	40	11	3	44	1.58
17222532--17222556	13	1.9	13	100	0	50	12	56	0	32	1.36
17224991--17225076	22	4.0	22	75	11	70	51	17	31	0	1.46
17224992--17225071	21	3.8	20	83	9	88	50	17	32	0	1.47
17229554--17229585	16	2.0	16	100	0	64	43	12	31	12	1.80
17231358--17231461	51	2.0	52	90	3	165	37	0	15	46	1.53
17231454--17231500	24	2.0	23	83	4	58	51	2	6	40	1.39
17232401--17232436	18	2.0	18	94	0	63	27	2	22	47	1.65
17232667--17232714	21	2.2	21	85	3	60	37	18	16	27	1.92
17232676--17232717	21	2.0	21	100	0	84	28	19	14	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17234190--17234253	13	4.9	13	92	0	110	40	28	6	25	1.79
17237627--17237782	41	3.8	41	77	3	136	28	27	20	23	1.99
17252542--17252597	21	2.6	22	80	11	71	35	7	32	25	1.83
17252894--17252924	14	2.2	14	94	0	53	64	0	35	0	0.94
17253039--17253072	17	2.0	17	88	0	50	20	8	11	58	1.59
17257507--17257705	68	3.2	59	71	19	145	50	4	4	41	1.40
17257607--17257662	25	2.2	27	78	12	64	50	5	1	42	1.35
17260408--17260440	13	2.5	13	90	0	57	33	6	30	30	1.82
17266350--17266415	33	2.0	33	100	0	132	42	3	12	42	1.57
17272714--17272774	30	2.0	30	90	6	97	14	24	27	32	1.95
17272782--17272814	8	4.2	8	84	7	50	3	21	0	75	0.93
17272785--17272815	15	2.1	15	93	0	53	3	19	0	77	0.90
17276499--17276690	42	4.6	42	79	10	196	22	19	18	38	1.93
17276499--17276690	84	2.3	84	80	7	221	22	19	18	38	1.93
17282433--17282475	19	2.3	19	84	4	61	9	13	0	76	1.01
17283777--17283818	20	2.3	19	84	12	52	66	4	2	26	1.23
17291446--17291489	23	1.9	23	86	9	63	43	4	0	52	1.22
17291588--17291628	17	2.4	17	83	0	55	46	0	2	51	1.14
17291588--17291642	17	3.2	18	77	12	53	49	0	1	49	1.11
17292144--17292270	65	2.0	65	91	0	209	36	6	2	55	1.38
17298011--17298054	22	2.0	22	90	0	70	54	0	0	45	0.99
17298008--17298169	72	2.2	75	80	9	172	48	2	0	48	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17298079--17298109	15	2.0	16	93	6	55	61	0	0	38	0.96
17298147--17298203	15	3.5	15	71	17	51	49	1	1	47	1.22
17305226--17305284	21	2.6	24	76	15	70	38	25	23	11	1.89
17305405--17305554	24	6.2	24	81	3	176	24	25	34	15	1.94
17305426--17305584	48	3.3	47	80	6	176	25	25	35	13	1.93
17309016--17309052	16	2.4	16	90	4	58	59	5	2	32	1.34
17309628--17309800	19	8.6	19	72	18	120	55	13	1	30	1.45
17309630--17309796	21	8.2	21	72	15	120	56	13	1	29	1.45
17309572--17309797	101	2.2	101	93	0	389	56	12	0	29	1.43
17311432--17311805	126	3.0	123	85	5	518	30	14	21	33	1.94
17314931--17315411	23	19.6	23	75	20	408	27	0	25	45	1.58
17314983--17315023	22	1.9	22	95	5	75	24	0	31	43	1.54
17315228--17315318	21	4.0	21	73	20	83	25	1	29	43	1.61
17315407--17315499	25	3.7	25	92	0	159	40	15	2	41	1.58
17315467--17315553	44	2.0	45	88	2	131	49	12	1	36	1.48
17316650--17316674	7	3.6	7	100	0	50	60	12	0	28	1.32
17317852--17317907	22	2.5	22	94	2	94	41	0	30	28	1.57
17317890--17317924	10	3.2	11	88	12	54	45	0	37	17	1.48
17321006--17321039	16	2.1	16	94	0	59	32	11	11	44	1.77
17324210--17324405	102	1.9	102	88	0	293	35	10	16	37	1.82
17325653--17325705	22	2.4	22	96	0	97	33	13	24	28	1.93
17330594--17330697	46	2.3	43	80	12	120	24	18	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17330816--17330847	16	2.0	16	93	0	55	59	0	15	25	1.36
17343547--17343571	13	1.9	13	100	0	50	40	0	28	32	1.57
17344093--17344202	54	2.1	51	83	8	132	42	3	17	36	1.67
17344213--17344237	13	1.9	13	100	0	50	44	8	16	32	1.76
17361563--17361627	27	2.4	28	92	2	105	40	10	1	47	1.48
17361635--17361664	15	1.9	15	93	6	51	66	20	6	6	1.38
17361665--17361718	27	2.0	26	92	3	90	29	22	33	14	1.94
17362608--17362661	27	2.0	26	92	3	90	14	33	22	29	1.94
17363067--17363107	21	1.9	22	90	5	66	41	9	0	48	1.36
17376231--17376298	27	2.4	29	87	4	95	41	23	0	35	1.55
17376600--17376628	14	2.0	15	93	6	51	24	13	0	62	1.32
17376906--17377324	114	3.6	116	83	8	476	30	19	25	24	1.98
17378088--17378124	14	2.7	14	91	4	58	16	0	45	37	1.47
17380070--17380129	29	2.1	29	93	3	104	28	5	20	46	1.71
17381641--17381684	15	2.8	16	82	10	54	38	4	0	56	1.20
17381812--17381836	12	2.1	12	100	0	50	48	12	0	40	1.40
17381850--17382000	9	16.8	9	71	15	107	47	18	2	31	1.63
17388257--17388319	28	2.3	28	81	8	67	20	1	41	36	1.62
17397334--17397389	19	2.9	19	76	10	60	41	0	7	51	1.29
17402406--17402565	41	3.9	41	70	14	114	19	18	25	36	1.95
17402485--17402850	124	3.0	123	83	6	350	18	17	27	37	1.93
17402637--17402811	41	4.2	41	67	15	117	14	15	30	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17402631--17402891	125	2.1	122	84	4	333	15	15	29	39	1.88
17403908--17404068	7	22.7	7	73	11	60	13	1	47	37	1.54
17403907--17404041	14	9.5	15	76	8	72	14	1	46	37	1.53
17404544--17404579	16	2.2	17	90	5	56	61	2	5	30	1.33
17404766--17404814	12	4.3	11	79	7	53	34	42	0	22	1.54
17404772--17404824	11	4.6	12	79	6	56	33	47	0	18	1.49
17404763--17404822	23	2.6	23	91	2	93	33	46	0	20	1.51
17405221--17405246	12	2.2	12	100	0	52	23	7	11	57	1.59
17405295--17405334	12	3.3	12	83	13	55	22	7	12	57	1.60
17406846--17406945	24	4.2	24	67	19	75	38	8	3	51	1.47

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150