genome.fa.s2.2.7.7.80.10.50.1000.157.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  157  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)
47523369--47523402	11	3.1	11	100	0	68	64	0	35	0	0.94
47523369--47523414	22	2.1	22	87	0	65	58	2	39	0	1.10
47524761--47524979	82	2.7	81	82	7	241	22	18	28	30	1.97
47524761--47524994	41	5.7	41	78	8	205	23	18	28	29	1.98
47525183--47525231	14	3.5	14	82	0	62	18	0	34	46	1.49
47529861--47530143	43	6.6	43	80	4	322	22	15	28	33	1.94
47529860--47530143	85	3.3	84	80	5	311	22	15	28	33	1.94
47529861--47530143	128	2.2	129	85	6	396	22	15	28	33	1.94
47530855--47530890	14	2.6	14	86	0	54	38	19	2	38	1.66
47531688--47531796	33	3.4	33	76	5	87	15	41	13	29	1.86
47532098--47532412	48	6.6	48	91	2	463	50	9	9	30	1.66
47536194--47536219	6	4.3	6	100	0	52	80	0	0	19	0.71
47536356--47536422	27	2.5	27	87	0	89	23	34	25	16	1.95
47547496--47547528	8	4.1	8	88	11	50	36	0	3	60	1.12
47551949--47552113	55	3.0	55	85	3	206	31	15	24	29	1.95
47555214--47555453	47	5.1	47	86	6	328	52	2	6	39	1.39
47555296--47555325	13	2.2	14	94	5	53	63	0	3	33	1.11
47555214--47555445	93	2.5	94	91	6	382	51	2	6	40	1.40
47559218--47559260	21	2.0	22	86	4	61	62	2	4	30	1.28
47559709--47559938	109	2.1	107	91	1	370	33	15	17	33	1.91
47560409--47560531	40	3.1	40	83	2	160	37	18	18	25	1.94
47560585--47560696	56	2.0	55	87	1	161	17	23	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47560641--47560796	41	3.8	41	84	3	188	22	21	26	29	1.99
47560641--47560795	82	1.9	82	85	2	213	21	21	26	29	1.99
47561308--47561344	15	2.5	15	95	0	65	16	10	18	54	1.71
47563350--47563555	43	4.8	43	82	4	218	23	17	30	28	1.97
47566592--47566628	19	1.9	19	88	0	56	40	0	2	56	1.13
47566840--47566868	2	14.5	2	100	0	58	48	0	0	51	1.00
47567460--47567503	21	2.1	21	91	0	70	61	0	6	31	1.22
47568351--47568402	19	2.8	18	76	5	50	65	3	0	30	1.10
47568420--47568469	19	2.7	20	81	12	61	64	2	2	32	1.16
47586371--47586565	98	2.0	98	92	0	327	35	23	11	29	1.90
47589179--47589311	19	6.8	19	89	5	212	36	15	10	37	1.81
47589179--47589311	40	3.4	40	93	5	220	36	15	10	37	1.81
47589172--47589310	59	2.4	60	90	5	216	37	14	10	38	1.80
47589728--47589752	7	3.6	7	100	0	50	44	0	0	56	0.99
47591322--47591381	23	2.6	23	78	5	68	40	25	16	18	1.91
47593070--47593103	17	2.1	17	88	5	52	61	11	5	20	1.50
47603604--47603670	33	2.0	33	94	0	116	41	19	11	26	1.86
47608124--47608162	3	13.0	3	94	0	69	64	0	0	35	0.94
47610543--47610571	12	2.5	12	94	5	51	89	6	3	0	0.57
47610699--47610806	18	6.1	17	76	16	80	64	0	34	0	1.00
47610701--47610804	10	9.1	10	69	24	55	67	0	31	0	0.97
47610719--47610806	37	2.4	37	87	10	121	65	0	32	1	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47610923--47610961	14	2.7	15	84	8	53	61	5	5	28	1.39
47610935--47610963	14	2.1	14	100	0	58	55	0	6	37	1.27
47611929--47611965	17	2.2	17	100	0	74	45	8	16	29	1.76
47614940--47615084	38	4.1	33	82	12	87	0	33	0	66	0.97
47614989--47615086	10	10.2	10	69	16	73	1	33	0	65	1.00
47614996--47615106	18	6.1	18	73	15	86	0	32	0	65	1.05
47615027--47615106	34	2.8	28	73	24	76	0	32	1	66	1.00
47614985--47615075	38	2.4	38	94	0	164	1	35	0	63	1.02
47615029--47615110	28	2.7	30	73	19	80	0	32	1	65	1.00
47615158--47615238	27	3.0	27	83	0	117	9	43	20	25	1.83
47615306--47615375	28	2.5	29	93	4	117	50	1	10	38	1.45
47616137--47616166	3	10.0	3	100	0	60	33	0	0	66	0.92
47617830--47617879	22	2.3	22	86	6	66	50	2	2	46	1.24
47620134--47620171	20	1.9	20	94	0	67	42	2	47	7	1.46
47620129--47620168	13	3.0	13	85	3	53	40	2	52	5	1.37
47620130--47620171	7	6.1	7	83	5	50	40	2	50	7	1.43
47621787--47621820	11	2.8	13	91	8	54	44	11	8	35	1.72
47625330--47625355	6	4.3	6	100	0	52	50	0	0	50	1.00
47628472--47628500	3	9.7	3	100	0	58	31	0	0	68	0.89
47628617--47628646	16	1.9	15	93	6	51	80	13	6	0	0.91
47629370--47629734	76	4.9	76	76	17	361	21	19	26	32	1.97
47629376--47629578	103	2.0	103	92	1	336	20	19	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47629506--47629697	43	4.7	43	77	16	201	21	17	25	35	1.95
47629481--47629697	119	1.8	119	89	2	346	20	17	26	35	1.95
47637700--47637757	12	4.4	13	73	23	50	25	41	22	10	1.85
47640903--47640949	25	1.9	25	86	4	69	14	25	21	38	1.92
47647984--47648053	10	6.6	10	78	16	61	60	5	1	32	1.29
47647993--47648060	23	3.0	23	89	6	95	57	7	2	32	1.41
47652212--47652251	20	2.0	20	90	0	62	27	10	12	50	1.72
47652242--47652329	33	2.7	32	75	15	90	26	10	19	44	1.82
47656635--47656775	62	2.3	63	81	5	169	38	4	14	43	1.65
47658009--47658041	15	2.3	15	89	5	50	48	0	9	42	1.35
47662539--47662754	55	3.9	55	80	8	226	23	13	6	56	1.61
47662541--47662754	28	7.7	27	77	10	182	22	13	7	56	1.61
47662538--47662772	83	2.8	83	78	7	253	23	15	6	54	1.64
47663278--47663497	43	4.9	43	68	17	108	27	24	15	33	1.95
47663239--47663544	138	2.2	138	85	2	434	26	25	15	33	1.95
47663481--47663588	45	2.4	45	78	3	119	23	20	19	37	1.95
47665776--47665823	18	2.5	20	86	6	64	37	0	4	58	1.18
47668073--47668146	25	3.0	23	70	14	60	22	27	18	31	1.98
47670966--47671058	36	2.6	38	81	10	106	33	20	15	31	1.93
47676317--47676355	20	2.0	20	94	0	69	46	0	0	53	1.00
47676548--47676580	17	2.0	17	94	5	59	57	0	42	0	0.98
47677000--47677035	3	12.0	3	100	0	72	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47677695--47677781	21	4.1	21	79	7	95	16	20	25	37	1.93
47678078--47678115	18	2.1	18	85	9	51	50	0	13	36	1.42
47686186--47686239	26	2.0	26	85	10	72	33	0	1	64	1.04
47686725--47686794	33	2.2	32	82	10	81	54	8	7	30	1.58
47699337--47699371	18	1.9	18	88	11	54	8	2	34	54	1.46
47700019--47700057	20	1.9	20	84	5	51	25	23	20	30	1.98
47700547--47700617	27	2.6	27	81	0	79	25	19	32	22	1.98
47700568--47700627	27	2.2	27	87	0	84	23	15	35	26	1.94
47709501--47709538	15	2.6	15	84	16	53	65	0	21	13	1.26
47710785--47711293	44	11.7	43	71	15	329	29	21	22	27	1.99
47710955--47711282	173	1.9	173	81	9	402	29	21	21	27	1.99
47710766--47711289	217	2.4	217	94	0	897	29	20	22	26	1.99
47726097--47726234	59	2.4	58	86	4	188	23	17	19	39	1.92
47727446--47727481	18	2.1	17	90	10	56	38	0	0	61	0.96
47727469--47727518	26	2.0	25	88	4	73	42	0	6	52	1.26
47727398--47727619	120	1.9	114	89	5	345	43	0	4	50	1.27
47727553--47727599	18	2.6	18	93	6	78	44	0	0	55	0.99
47727767--47727852	46	1.9	44	88	4	127	38	27	8	25	1.84
47727840--47727900	16	3.8	16	95	0	104	21	32	4	40	1.74
47727832--47727900	32	2.2	32	92	5	113	21	31	5	40	1.77
47738368--47738466	47	2.1	47	96	0	180	57	8	14	20	1.62
47742843--47742873	6	5.2	6	100	0	62	35	48	0	16	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47747981--47748116	42	3.2	42	79	4	123	44	18	19	16	1.86
47748030--47748147	21	5.7	21	73	6	96	44	18	18	17	1.87
47751161--47751357	98	2.0	98	97	0	376	37	24	10	27	1.88
47751708--47751777	23	3.2	23	61	19	58	57	8	11	22	1.61
47751707--47751796	43	2.1	43	100	0	180	58	8	8	23	1.56
47753600--47753886	44	6.6	44	73	16	215	27	22	20	28	1.99
47753548--47753970	217	2.0	216	92	0	702	27	22	20	29	1.99
47753600--47753925	44	7.6	42	72	14	165	27	22	21	28	1.99
47762952--47763033	40	2.0	40	100	0	164	14	32	9	42	1.79
47765396--47765592	98	2.0	98	97	0	376	37	24	9	27	1.87

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