genome.fa.s6.2.7.7.80.10.50.1000.112.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   

This is table  112  of  168  ( 20060 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)
32909665--32909704	14	2.9	14	84	0	53	32	7	17	42	1.77
32909688--32909727	20	2.0	20	90	0	62	27	10	12	50	1.72
32909673--32909739	34	1.9	35	90	3	109	31	8	13	46	1.74
32909667--32909743	14	5.0	15	71	20	52	32	9	15	42	1.78
32909892--32909943	26	2.2	24	78	21	58	59	5	0	34	1.21
32913870--32913916	16	2.9	17	78	15	55	51	2	12	34	1.52
32914197--32914233	17	2.1	18	90	5	58	45	5	5	43	1.49
32914328--32914374	3	16.0	3	95	4	87	65	0	0	34	0.93
32925797--32925826	14	2.1	14	93	0	51	66	0	0	33	0.92
32925834--32925914	23	3.5	23	72	12	60	39	0	0	60	0.97
32925849--32925909	31	2.0	31	83	6	79	39	0	0	60	0.97
32931771--32931893	47	2.6	49	78	8	128	33	25	8	33	1.85
32933763--32933799	3	12.0	3	88	5	56	35	2	0	62	1.10
32934451--32934657	108	1.9	108	86	2	290	29	16	20	33	1.94
32938386--32938442	8	6.9	8	84	15	80	84	0	15	0	0.63
32938385--32938443	17	3.5	17	80	15	77	84	0	15	0	0.62
32938387--32938441	25	2.2	24	87	3	83	83	0	16	0	0.64
32938385--32938442	27	2.3	26	78	18	68	84	0	15	0	0.62
32939688--32940841	89	13.0	89	87	0	1522	29	25	22	22	1.99
32940880--32941598	132	5.4	132	90	0	1087	30	17	24	28	1.97
32941879--32941912	14	2.3	15	95	5	61	61	32	0	5	1.20
32943092--32943131	3	13.0	3	89	5	62	35	2	0	62	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32943777--32943988	108	2.0	108	88	5	322	28	16	19	35	1.94
32945686--32945761	31	2.5	30	85	4	100	25	11	7	55	1.63
32949643--32949702	28	2.1	29	81	9	70	33	10	1	55	1.43
32953062--32953110	24	2.0	25	84	11	66	42	2	2	53	1.24
32953096--32953123	2	14.0	2	100	0	56	50	0	0	50	1.00
32956930--32956963	18	1.9	18	88	5	52	29	0	5	64	1.17
32957905--32957940	18	2.1	18	89	5	56	41	0	0	58	0.98
32958041--32958099	28	2.1	28	80	0	64	25	3	5	66	1.28
32960211--32960265	18	3.1	18	82	12	60	61	0	1	36	1.06
32960233--32960273	19	2.2	18	91	4	64	58	0	2	39	1.11
32960260--32960338	35	2.2	36	86	4	106	63	2	0	34	1.08
32960489--32960567	36	2.2	36	84	4	97	34	5	1	59	1.27
32960559--32960610	18	2.8	18	79	5	59	25	3	1	69	1.16
32960532--32960591	28	2.2	27	85	8	77	26	3	0	70	1.03
32960541--32960609	17	3.8	18	79	7	68	24	4	1	69	1.15
32960533--32960592	10	6.2	10	78	7	61	25	3	0	71	1.01
32960613--32960665	26	2.0	28	81	7	65	43	0	1	54	1.11
32960718--32960889	90	1.9	89	89	3	265	31	9	22	36	1.86
32961538--32961569	15	2.2	15	94	5	57	75	0	0	25	0.81
32963006--32963072	29	2.3	29	82	7	82	10	16	13	59	1.60
32963110--32963143	12	2.8	12	81	0	50	32	0	11	55	1.36
32963379--32963412	16	2.2	15	89	5	50	29	8	0	61	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32963690--32964119	108	3.9	109	89	4	602	30	17	17	33	1.94
32964573--32964824	125	2.0	125	99	0	495	20	16	17	45	1.85
32967561--32967622	6	10.7	6	83	11	67	70	9	4	14	1.29
32967573--32967632	28	2.1	28	82	11	70	75	8	5	11	1.19
32968610--32968668	7	8.7	7	88	7	95	67	0	16	15	1.23
32968610--32968668	20	2.9	21	92	5	95	67	0	16	15	1.23
32968610--32968668	27	2.2	27	96	0	109	67	0	16	15	1.23
32969862--32969970	46	2.4	46	89	3	159	31	23	21	23	1.98
32970077--32970522	44	9.9	44	70	13	178	30	17	23	28	1.97
32969854--32970560	175	4.0	175	75	8	674	30	18	22	28	1.98
32970107--32970393	142	2.0	142	92	0	475	31	17	22	28	1.97
32970250--32970605	44	8.1	44	74	9	237	31	17	22	28	1.96
32972111--32972148	3	12.7	3	94	0	67	31	0	2	65	1.06
32972684--32973092	108	3.8	108	93	1	649	30	17	18	33	1.94
32976440--32976568	39	3.3	41	75	11	130	73	6	10	9	1.25
32976467--32976513	21	2.2	22	85	11	71	80	6	2	10	0.96
32977499--32977544	7	6.7	7	90	5	76	67	0	17	15	1.24
32977499--32977544	20	2.2	20	92	3	74	67	0	17	15	1.24
32978736--32978844	46	2.4	46	89	3	159	31	23	21	23	1.98
32978733--32979435	44	15.8	44	71	12	233	30	18	22	28	1.97
32978728--32979434	175	4.0	175	74	8	647	30	18	22	28	1.97
32978981--32979259	142	2.0	142	91	0	459	32	16	21	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32979228--32979390	46	3.8	41	77	10	146	26	19	24	29	1.99
32981586--32982301	232	3.0	238	82	7	869	33	10	20	35	1.87
32983736--32983980	96	2.6	96	86	2	323	27	33	15	24	1.95
32986990--32987061	31	2.3	31	82	0	90	31	15	9	43	1.79
32990808--32990866	30	2.0	30	87	9	86	30	3	10	55	1.49
32995101--32995135	2	17.5	2	100	0	70	51	0	0	48	1.00
33001501--33001552	19	2.6	19	79	14	61	23	38	15	23	1.92
33001795--33001893	38	2.6	38	80	3	92	30	17	15	37	1.90
33004251--33004294	2	22.0	2	90	9	72	50	2	0	47	1.13
33004350--33004417	18	3.1	22	68	22	54	50	1	4	44	1.31
33004339--33004428	42	2.1	43	86	8	123	48	2	4	44	1.35
33007912--33008012	38	2.7	38	85	0	139	35	20	11	31	1.89
33008948--33008994	5	9.6	5	77	13	53	40	0	0	59	0.97
33008948--33008984	8	4.5	8	86	6	56	40	0	0	59	0.97
33009935--33010021	25	3.5	25	95	0	147	17	22	21	37	1.93
33009935--33010069	50	2.8	48	82	11	154	17	24	20	37	1.93
33009935--33010061	25	5.3	23	88	4	105	16	25	21	37	1.94
33009983--33010062	22	3.5	23	83	8	92	16	27	20	36	1.93
33010153--33010211	31	1.9	31	92	0	100	52	3	22	22	1.61
33011283--33011335	23	2.2	24	87	9	74	58	0	0	41	0.98
33011357--33011401	23	2.0	23	90	0	72	48	8	11	31	1.69
33014950--33014974	6	4.2	6	100	0	50	16	0	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33015792--33015824	16	1.9	18	88	11	52	66	0	9	24	1.20
33016066--33016119	22	2.4	23	72	6	58	48	0	1	50	1.11
33018357--33018404	17	3.0	17	85	8	57	31	2	0	66	1.03
33018361--33018406	14	3.0	15	84	12	58	30	2	0	67	1.03
33018369--33018438	24	3.0	24	79	8	72	37	0	0	62	0.95
33018401--33018449	24	2.0	24	84	0	62	44	0	0	55	0.99
33019893--33020033	9	16.2	9	82	10	116	0	28	0	70	0.92
33019936--33020034	3	33.0	3	93	0	171	1	31	0	67	0.97
33021004--33021227	72	3.0	75	87	5	339	30	22	18	27	1.98
33028163--33028201	18	2.2	18	90	0	60	2	10	0	87	0.65
33028162--33028200	21	1.9	20	89	5	60	2	10	0	87	0.65
33028382--33028446	33	1.9	34	87	9	98	3	15	13	67	1.35
33028460--33028497	14	2.7	14	100	0	76	7	13	52	26	1.67
33028967--33029007	6	7.3	6	88	5	52	85	14	0	0	0.60
33028968--33029001	5	6.8	5	90	9	52	85	14	0	0	0.60
33029235--33029260	11	2.4	11	100	0	52	38	0	0	61	0.96
33029217--33029267	18	2.9	17	70	18	50	33	0	0	66	0.92
33035273--33035327	21	2.5	21	82	5	65	29	16	18	36	1.92
33035289--33035585	91	3.3	88	79	6	319	30	21	15	31	1.95
33039865--33039912	24	2.0	24	87	0	69	39	8	18	33	1.81
33041549--33041610	13	4.8	13	77	0	70	32	9	25	32	1.88
33043335--33043398	27	2.4	26	75	15	67	68	1	6	23	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33045969--33046207	72	3.3	72	91	4	385	55	15	5	23	1.61
33048966--33049000	17	2.0	17	88	5	52	60	0	0	40	0.97
33052622--33052672	24	2.1	24	85	0	66	41	3	43	11	1.60
33054952--33054984	17	2.0	17	94	5	59	72	3	6	18	1.18
33055495--33055532	12	3.2	12	85	7	51	73	0	0	26	0.83
33056533--33056580	21	2.3	21	77	0	51	16	39	29	14	1.88
33059456--33059486	3	10.0	3	93	6	53	64	0	0	35	0.94
33060014--33060122	2	54.5	2	100	0	218	50	0	0	49	1.00
33067679--33067729	23	2.2	23	89	0	75	27	7	21	43	1.80
33073256--33073301	22	2.0	24	84	16	62	26	6	0	67	1.15

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168