genome.fa.s5.2.7.7.80.10.50.1000.61.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  61  of  208  ( 24913 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)
17543406--17543451	19	2.4	19	100	0	92	60	0	28	10	1.30
17554518--17554558	21	2.0	21	90	0	64	41	14	12	31	1.83
17554668--17554803	24	5.7	24	78	3	114	26	25	19	28	1.99
17554691--17554805	24	4.8	24	77	6	117	26	24	20	28	1.99
17554890--17555002	42	2.7	42	87	0	163	38	20	13	28	1.90
17556576--17556640	28	2.3	28	94	0	121	36	13	6	43	1.70
17564645--17565053	140	3.0	138	79	11	452	29	22	21	27	1.99
17564780--17565041	126	2.1	125	88	2	382	29	22	22	26	1.99
17566649--17566736	43	2.0	43	95	4	160	40	4	19	35	1.72
17577634--17577669	15	2.4	15	95	0	63	19	22	36	22	1.95
17578417--17578455	19	2.0	20	85	5	53	69	0	0	30	0.89
17578425--17578469	22	2.2	20	84	11	56	57	2	0	40	1.11
17587945--17588527	77	7.3	77	78	11	482	46	11	12	28	1.77
17587950--17588484	161	3.3	160	84	6	606	46	11	11	29	1.76
17587950--17588517	238	2.4	238	80	10	590	46	11	12	29	1.77
17588339--17588517	85	2.1	86	80	8	204	48	12	12	26	1.77
17588380--17588540	85	1.9	85	84	2	216	45	12	14	27	1.81
17588668--17588711	16	2.7	17	79	6	56	61	0	0	38	0.96
17588670--17588717	22	2.2	22	92	7	80	56	0	0	43	0.99
17591037--17591072	17	2.1	17	89	5	54	19	44	25	11	1.83
17598813--17598881	25	2.8	24	78	10	68	36	4	1	57	1.27
17602991--17603114	45	2.7	45	81	1	131	30	22	14	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17615553--17615585	12	2.8	12	100	0	66	24	15	33	27	1.95
17615682--17615723	17	2.5	17	96	3	77	52	0	9	38	1.34
17617259--17617310	22	2.4	22	87	9	72	57	1	5	34	1.33
17643020--17643056	2	18.5	2	100	0	74	48	0	0	51	1.00
17643191--17643240	25	2.1	23	81	7	55	52	4	2	42	1.31
17644220--17644315	16	5.9	16	68	13	54	34	0	1	64	1.01
17670618--17670695	38	2.1	38	95	0	138	29	6	20	43	1.76
17671292--17671350	30	1.9	31	83	10	77	30	13	30	25	1.94
17677107--17677253	74	2.0	76	89	5	228	32	13	7	46	1.71
17678863--17678968	18	6.0	18	71	12	76	34	21	18	24	1.96
17678862--17678960	35	2.8	35	84	3	128	34	21	19	25	1.96
17689779--17689814	16	2.2	16	90	0	54	41	2	27	27	1.70
17689796--17689888	44	2.1	44	88	9	136	33	4	25	36	1.76
17691093--17691126	16	2.1	16	100	0	68	76	0	0	23	0.79
17702417--17702460	22	2.0	21	83	12	54	40	0	0	59	0.98
17708176--17708209	17	1.9	17	88	5	50	32	0	20	47	1.51
17712059--17712113	27	2.0	27	100	0	110	41	18	3	36	1.68
17714356--17714418	11	5.9	11	72	18	53	60	3	3	33	1.28
17714357--17714418	21	2.9	21	73	4	61	61	3	3	32	1.28
17718699--17719009	160	1.9	160	92	1	525	29	17	17	34	1.93
17719194--17719219	12	2.2	12	100	0	52	30	15	11	42	1.82
17720178--17720219	21	2.0	21	86	9	59	45	2	0	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17720394--17720433	13	3.1	13	82	13	55	40	17	7	35	1.78
17737481--17737511	15	2.0	16	93	6	55	38	6	0	54	1.26
17741800--17741827	14	2.0	14	100	0	56	57	0	7	35	1.26
17757189--17757256	33	2.1	33	81	10	77	75	4	7	13	1.17
17757208--17757268	10	5.8	10	75	16	52	75	3	6	14	1.13
17757213--17757267	24	2.3	23	84	12	67	74	3	7	14	1.17
17758425--17758542	21	5.5	21	72	9	85	38	17	18	24	1.92
17771411--17771454	19	2.3	19	80	0	52	63	4	0	31	1.14
17772120--17772147	12	2.3	12	100	0	56	28	7	0	64	1.20
17773946--17773979	8	4.2	8	100	0	68	35	0	23	41	1.55
17784738--17784839	39	2.6	39	84	3	134	24	38	20	16	1.93
17792055--17792084	15	2.0	15	93	0	51	36	40	13	10	1.78
17793991--17794035	17	2.6	17	100	0	90	53	4	22	20	1.63
17795264--17795294	16	1.9	16	93	0	53	35	0	25	38	1.56
17798392--17798436	22	2.0	22	86	0	63	44	4	22	28	1.72
17801544--17801588	22	2.0	22	86	0	63	53	15	11	20	1.72
17802201--17802323	63	2.0	62	82	4	149	26	29	21	23	1.99
17802841--17802913	17	4.1	17	69	19	51	73	1	20	4	1.06
17806785--17806816	16	1.9	17	93	6	57	37	21	0	40	1.54
17806977--17807147	43	4.0	43	75	8	145	33	26	15	23	1.95
17812819--17812844	7	3.7	7	100	0	52	38	30	15	15	1.88
17813208--17813358	47	3.2	47	84	5	207	35	19	13	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17813414--17813452	20	2.0	20	89	0	60	38	15	0	46	1.46
17817535--17817575	3	13.7	3	100	0	82	34	0	31	34	1.58
17826995--17827037	19	2.3	19	84	8	52	41	2	0	55	1.12
17827006--17827067	31	1.9	33	90	6	101	43	0	0	56	0.99
17827008--17827075	31	2.3	31	85	7	88	44	0	0	55	0.99
17827272--17827303	16	2.1	15	94	5	55	37	0	9	53	1.34
17827474--17827549	14	5.0	15	74	22	70	36	5	15	42	1.70
17827494--17827532	20	2.0	20	94	0	69	35	2	15	46	1.60
17827481--17827544	34	1.9	33	87	9	94	35	4	15	43	1.68
17827525--17827611	33	2.7	32	79	13	106	28	6	17	47	1.73
17830121--17830146	13	2.0	13	100	0	52	23	30	0	46	1.53
17830953--17831007	22	2.5	22	82	5	67	41	5	1	50	1.36
17834741--17835035	69	4.3	69	87	6	413	29	7	1	61	1.32
17834889--17835016	65	2.1	63	84	11	167	32	7	0	60	1.23
17834741--17835035	137	2.2	137	87	6	420	29	7	1	61	1.32
17838672--17838711	20	2.0	20	85	4	55	32	7	15	45	1.74
17846401--17846474	20	3.8	19	72	15	53	45	0	1	52	1.09
17846418--17846452	18	2.0	18	88	5	54	51	0	0	48	1.00
17846405--17846479	26	3.0	23	74	14	69	46	0	1	52	1.09
17848067--17848106	15	2.7	15	88	3	64	27	0	0	72	0.85
17849251--17849312	3	20.7	3	96	0	115	35	0	32	32	1.58
17853569--17853594	5	5.2	5	100	0	52	38	19	19	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17854074--17854123	21	2.5	20	83	9	57	50	0	30	20	1.49
17855399--17855428	15	1.9	16	93	6	53	26	13	0	60	1.34
17856125--17856165	21	2.0	21	100	0	82	24	21	14	39	1.91
17861378--17861440	31	2.1	30	85	8	85	50	15	1	31	1.54
17864082--17864119	2	19.0	2	100	0	76	50	0	50	0	1.00
17870365--17870633	22	12.2	22	82	0	322	28	8	19	43	1.81
17870362--17870624	44	6.0	44	89	0	391	29	9	18	42	1.81
17872417--17872737	160	2.0	161	92	0	536	44	10	13	32	1.77
17873087--17873118	7	4.4	7	92	7	55	43	40	0	15	1.47
17873089--17873118	15	2.0	15	100	0	60	46	40	0	13	1.43
17874686--17874727	13	3.1	14	83	10	52	73	4	0	21	1.01
17876824--17877024	62	3.2	59	73	20	156	52	4	2	40	1.37
17876919--17877027	37	3.0	35	79	12	105	54	2	1	41	1.25
17876924--17877027	23	4.2	25	73	18	83	53	2	1	41	1.26
17878495--17878525	14	2.2	14	94	0	53	32	25	3	38	1.72
17879084--17879128	22	2.0	22	91	0	72	35	8	8	46	1.66
17883736--17883925	5	38.0	5	98	0	308	60	4	0	35	1.17
17890515--17890864	175	2.0	175	98	0	673	23	27	15	33	1.95
17892904--17892992	44	2.0	44	100	0	178	46	11	13	29	1.78
17895301--17895331	15	2.1	15	93	0	53	64	0	35	0	0.94
17896383--17896436	21	2.6	21	82	5	65	18	7	40	33	1.78
17897128--17897302	77	2.3	77	88	0	251	48	22	9	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17901657--17901709	26	2.0	26	96	0	97	56	22	3	16	1.56
17901922--17902055	48	2.8	48	88	3	207	46	16	11	26	1.80
17902149--17902215	35	1.9	34	84	3	89	62	19	1	16	1.40
17902374--17902480	44	2.6	41	84	10	130	34	25	7	32	1.84
17903553--17903603	10	5.3	10	77	13	54	37	0	3	58	1.16
17903543--17903647	43	2.5	43	77	17	114	38	0	2	59	1.13
17903567--17903637	19	3.5	20	75	19	74	40	0	2	56	1.14
17907476--17907532	26	2.1	26	81	12	62	47	3	1	47	1.29
17909482--17909517	18	2.1	16	90	10	54	33	5	0	61	1.19
17912521--17913070	275	2.0	275	97	0	1046	36	18	14	30	1.91

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208