genome.fa.s2.2.7.7.80.10.50.1000.117.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  117  of  206  ( 24623 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)
34816892--34816940	21	2.3	21	93	6	82	32	46	16	4	1.65
34817083--34817141	29	2.0	29	96	0	109	25	28	25	20	1.99
34818784--34818808	10	2.5	10	100	0	50	32	44	0	24	1.54
34821205--34821238	17	1.9	18	88	5	52	35	44	0	20	1.52
34827022--34827133	25	4.5	26	68	13	76	33	21	23	22	1.98
34829487--34829617	45	2.9	44	77	13	124	43	14	19	22	1.87
34829881--34829944	27	2.4	27	76	10	85	35	18	25	20	1.95
34829924--34830002	27	2.9	27	88	0	113	32	13	30	22	1.93
34833145--34833194	23	2.1	23	81	7	55	62	4	18	16	1.48
34834410--34834435	3	8.7	3	100	0	52	69	0	0	30	0.89
34840457--34840499	17	2.5	17	85	11	52	37	2	0	60	1.10
34840703--34840760	17	3.5	17	77	13	59	62	1	0	36	1.06
34840886--34840959	19	4.0	19	71	25	52	58	4	0	37	1.17
34840903--34840960	18	3.2	18	72	20	57	56	1	0	41	1.09
34841078--34841152	29	2.7	29	80	14	77	62	5	0	32	1.17
34842500--34842554	18	2.8	20	75	13	69	27	23	21	27	1.99
34842666--34842714	22	2.3	22	92	3	82	30	22	26	20	1.98
34842676--34842723	21	2.2	22	85	3	62	41	25	16	16	1.89
34842834--34842898	34	1.9	34	90	0	103	32	12	13	41	1.82
34844217--34844255	21	2.0	21	85	10	55	46	2	2	48	1.29
34846169--34846223	3	17.7	3	77	7	56	30	0	3	65	1.10
34850460--34850583	55	2.3	55	82	12	141	73	6	10	9	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34850476--34850570	27	3.5	27	73	13	77	73	7	7	11	1.24
34852700--34852828	43	3.0	43	94	1	215	29	20	26	23	1.99
34853135--34853261	45	2.8	45	77	10	134	28	19	25	25	1.99
34852963--34853286	44	7.4	44	69	13	161	27	20	24	27	1.99
34853006--34853331	44	7.5	44	72	8	184	28	18	23	29	1.98
34855016--34855058	19	2.4	17	81	14	50	32	2	0	65	1.06
34855106--34855163	3	18.7	3	78	7	62	31	0	3	65	1.09
34856476--34856514	11	3.5	11	85	0	60	48	0	0	51	1.00
34856932--34856971	20	2.1	19	85	4	53	30	2	0	67	1.04
34872572--34872637	20	3.3	20	93	0	105	39	13	7	39	1.73
34880069--34880230	86	1.9	85	88	1	243	33	20	14	30	1.93
34882921--34883016	43	2.2	44	87	3	133	28	30	16	25	1.97
34882966--34883083	43	2.8	41	77	15	125	27	27	16	27	1.97
34887249--34887316	22	3.3	22	72	15	56	52	0	4	42	1.21
34887705--34887795	7	12.9	7	73	15	53	35	41	0	23	1.54
34887695--34887763	14	4.7	15	78	7	52	31	44	1	21	1.61
34887783--34887824	14	2.9	14	82	6	57	35	35	0	28	1.58
34887779--34887825	15	3.3	15	82	8	62	40	31	0	27	1.57
34888209--34888491	41	6.9	41	86	1	359	28	30	19	21	1.97
34888526--34888610	40	2.1	41	88	2	127	18	20	25	35	1.95
34889735--34889920	20	10.2	18	66	20	61	56	1	4	38	1.26
34889742--34889792	8	6.0	8	84	11	66	58	3	0	37	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34889719--34889808	46	1.9	47	82	14	116	56	3	2	37	1.28
34889862--34889920	22	2.8	20	82	14	66	54	0	1	44	1.10
34891614--34891667	19	2.8	19	91	0	81	40	9	14	35	1.78
34892529--34892643	23	4.9	24	74	14	96	32	6	4	56	1.46
34892530--34892676	23	6.3	23	75	9	93	33	6	3	56	1.42
34892603--34892661	21	2.7	23	82	12	79	35	8	1	54	1.41
34892720--34892778	24	2.4	23	77	22	59	35	1	3	59	1.24
34892825--34892869	23	2.0	23	90	0	72	31	6	4	57	1.44
34896618--34896653	15	2.4	15	90	0	54	52	0	13	33	1.41
34897559--34897642	20	4.4	18	71	21	55	53	4	0	41	1.22
34897873--34897974	41	2.5	41	80	3	116	39	23	19	17	1.92
34903395--34903554	43	3.7	43	82	1	178	26	16	27	29	1.97
34909873--34909899	13	2.1	13	100	0	54	55	7	0	37	1.28
34909987--34910219	97	2.4	97	98	0	448	41	15	7	36	1.75
34910257--34910301	23	2.0	23	82	8	56	44	6	2	46	1.42
34913450--34913657	92	2.3	90	83	9	260	46	3	3	46	1.37
34913585--34913632	26	1.9	25	84	16	64	45	0	2	52	1.12
34913711--34913920	66	3.4	64	68	21	192	41	3	6	48	1.47
34913680--34913965	120	2.4	120	92	3	470	42	3	5	48	1.42
34913798--34913849	15	3.6	15	80	12	56	44	0	1	53	1.11
34914060--34914103	18	2.4	19	80	7	54	47	0	2	50	1.13
34913902--34914217	156	2.0	157	93	0	535	47	5	3	43	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34914071--34914106	18	2.1	17	90	10	56	38	0	0	61	0.96
34914340--34914375	16	2.2	16	100	0	72	38	36	0	25	1.56
34915174--34915214	19	2.1	20	86	4	57	70	7	2	19	1.22
34915813--34915842	15	1.9	16	93	6	53	33	23	26	16	1.96
34927287--34927353	33	2.0	33	100	0	134	40	17	17	23	1.91
34934573--34934653	37	2.2	37	95	0	144	39	13	8	38	1.76
34943008--34943064	26	2.2	25	87	3	78	42	17	10	29	1.83
34947217--34947241	12	2.1	12	100	0	50	68	0	8	24	1.16
34948946--34949004	31	1.9	30	86	3	82	61	1	0	37	1.07
34950208--34950241	12	2.9	12	95	4	61	58	0	0	41	0.98
34953784--34953909	60	2.1	58	86	4	171	34	16	8	39	1.80
34954181--34954422	126	1.9	125	85	4	335	40	8	12	38	1.74
34954504--34954552	20	2.5	19	83	6	62	44	0	0	55	0.99
34961576--34961627	24	2.2	24	89	0	77	55	9	1	32	1.43
34963545--34963596	24	2.2	24	89	0	77	55	9	1	32	1.43
34967642--34967721	42	1.9	42	100	0	160	43	8	10	37	1.69
34969552--34969576	5	5.0	5	100	0	50	60	20	0	20	1.37
34975699--34975790	33	2.7	33	77	9	87	27	23	16	32	1.96
34981944--34982009	33	2.0	33	100	0	132	30	15	18	36	1.91
34982462--34982500	19	2.1	19	95	0	69	35	7	0	56	1.28
34991419--34991447	5	5.8	5	100	0	58	79	0	0	20	0.74
35007832--35007857	13	2.0	13	100	0	52	23	23	0	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35023591--35023648	24	2.4	23	80	8	62	15	13	8	62	1.54
35027721--35027770	18	2.7	19	78	9	59	54	8	4	34	1.49
35027825--35027892	22	3.1	22	93	0	109	30	17	26	25	1.97
35034111--35034144	16	2.1	16	94	0	59	14	14	14	55	1.69
35041577--35041663	25	3.5	25	77	12	65	59	4	2	33	1.30
35041611--35041666	22	2.6	21	83	8	76	62	3	0	33	1.12
35044085--35044117	13	2.5	14	90	9	52	30	45	18	6	1.73
35044378--35044403	11	2.4	11	100	0	52	80	0	19	0	0.71
35045095--35045138	3	14.3	3	90	4	70	34	0	2	63	1.07
35045263--35045319	27	2.2	24	81	9	69	36	8	1	52	1.43
35045581--35045618	17	2.2	17	90	0	58	44	7	2	44	1.47
35051283--35051327	14	3.1	14	79	17	56	68	0	15	15	1.21
35051276--35051329	16	3.6	16	80	19	71	68	0	16	14	1.21
35051286--35051327	6	6.0	7	79	20	52	71	0	14	14	1.15
35052674--35053271	100	6.0	100	90	1	894	29	22	24	22	1.99
35052734--35053208	50	9.5	50	70	1	342	30	22	25	21	1.99
35052784--35053259	50	9.5	50	63	14	176	29	22	25	22	1.99
35054715--35054749	3	11.3	3	93	6	61	34	0	0	65	0.93
35054876--35054932	27	2.2	24	81	9	69	36	8	1	52	1.43
35055194--35055229	2	17.0	2	88	11	54	47	5	0	47	1.25
35055194--35055237	23	1.9	23	90	0	70	45	6	2	45	1.42
35057256--35057287	5	6.4	5	100	0	64	59	0	40	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35063848--35063893	18	2.5	18	89	3	65	65	0	15	19	1.28
35070370--35070408	21	1.9	20	94	5	69	30	7	15	46	1.74
35070372--35070423	20	2.5	20	85	14	63	34	9	17	38	1.82
35070948--35070974	13	2.1	13	100	0	54	37	7	7	48	1.59
35085954--35086011	29	2.0	29	96	0	107	56	10	15	17	1.66
35087119--35087147	15	1.9	15	100	0	58	41	24	6	27	1.80
35095048--35095083	12	3.0	12	95	0	63	19	8	0	72	1.10
35110325--35110357	15	2.2	15	100	0	66	24	18	18	39	1.92
35115840--35115882	7	6.1	7	91	8	70	67	0	16	16	1.24
35115840--35115879	20	2.0	21	95	5	73	70	0	15	15	1.18

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