genome.fa.s5.2.7.7.80.10.50.1000.206.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  206  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)
62879003--62879044	2	21.0	2	100	0	84	50	0	0	50	1.00
62880931--62880983	3	17.7	3	100	0	106	66	0	0	33	0.92
62881766--62881830	31	2.1	31	82	5	78	44	10	18	26	1.82
62884396--62884504	54	2.0	54	100	0	218	30	18	9	42	1.81
62886071--62886111	21	2.0	21	90	0	64	51	2	2	43	1.28
62894372--62894510	69	2.0	68	90	1	215	33	15	16	33	1.91
62898205--62898237	10	3.3	10	84	16	50	30	0	0	69	0.88
62898206--62898245	20	2.1	20	86	9	57	30	0	0	70	0.88
62900382--62900503	31	3.9	31	70	17	99	38	16	5	39	1.72
62917190--62917224	18	1.9	18	88	0	52	28	5	42	22	1.76
62929720--62930058	186	1.8	186	96	0	624	31	14	29	25	1.94
62930939--62930970	12	2.6	13	85	14	50	37	0	6	56	1.25
62943067--62943416	172	2.0	172	98	0	673	29	20	17	32	1.96
62946222--62946319	42	2.3	42	87	0	133	19	26	14	39	1.90
62957618--62957662	18	2.5	18	81	0	54	28	37	13	20	1.90
62957825--62957870	18	2.6	17	83	10	56	36	23	8	30	1.85
62957853--62957912	21	2.9	21	82	0	75	36	20	5	38	1.74
62979538--62979570	8	4.0	8	92	7	57	60	0	0	39	0.97
62979665--62979700	9	4.0	9	85	0	54	55	30	2	11	1.49
62983940--62983983	2	22.0	2	95	0	79	52	0	0	47	1.00
62990596--62990645	25	2.0	25	88	7	75	24	32	18	26	1.97
63002471--63002495	13	1.9	13	100	0	50	0	16	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63011599--63011639	12	3.2	12	83	12	55	73	2	0	24	0.96
63013141--63013184	16	2.8	16	83	13	63	56	27	0	15	1.40
63013141--63013190	16	3.1	16	75	16	50	58	24	0	18	1.40
63020080--63020180	44	2.3	44	89	3	150	33	15	10	39	1.83
63036034--63036076	2	21.5	2	100	0	86	48	0	0	51	1.00
63036265--63036300	2	18.0	2	100	0	72	50	0	0	50	1.00
63039570--63039601	11	2.8	12	90	9	57	56	0	0	43	0.99
63050217--63050286	23	3.0	23	78	2	77	27	15	14	42	1.86
63050282--63050343	23	2.7	23	82	2	61	53	22	6	17	1.67
63050339--63050386	24	2.0	23	92	4	78	68	14	0	16	1.21
63052671--63052698	5	5.6	5	100	0	56	60	0	0	39	0.97
63056460--63056510	25	2.0	25	100	0	102	19	19	0	60	1.36
63067216--63067253	12	2.8	13	88	11	51	28	0	23	47	1.52
63071430--63071624	98	2.0	98	85	2	266	25	8	24	41	1.83
63071529--63072192	186	3.6	186	89	1	963	25	14	20	40	1.90
63076497--63076557	31	2.0	31	86	0	86	42	14	11	31	1.81
63078732--63078774	2	21.5	2	100	0	86	51	0	0	48	1.00
63085876--63085951	31	2.5	31	89	4	118	22	7	18	51	1.72
63086057--63086135	31	2.6	30	82	6	95	24	10	16	49	1.76
63089791--63089844	27	2.0	27	100	0	108	48	11	14	25	1.77
63092586--63093183	299	2.0	299	99	0	1187	36	11	16	35	1.85
63099352--63099393	22	1.9	22	100	0	84	38	14	26	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63099703--63099828	67	1.9	67	86	0	180	46	16	10	26	1.79
63111404--63111446	20	2.2	20	83	8	52	39	2	0	58	1.11
63116771--63116805	17	2.0	18	88	5	54	25	37	0	37	1.57
63117847--63117928	42	2.0	42	90	0	128	36	7	25	30	1.83
63118348--63118460	57	2.0	57	96	0	208	30	23	26	20	1.98
63122073--63122108	17	2.1	17	90	10	56	69	2	0	27	1.02
63125772--63125814	18	2.4	19	85	11	56	27	2	11	58	1.46
63125894--63125945	2	26.0	2	100	0	104	50	0	0	50	1.00
63126862--63127822	300	3.2	298	81	5	992	31	22	18	27	1.97
63126910--63127810	401	2.2	400	85	2	1207	30	22	18	27	1.98
63126862--63127823	101	9.6	100	79	6	865	31	22	18	27	1.97
63132257--63132335	31	2.6	31	80	7	74	24	10	18	46	1.80
63144919--63144962	16	2.8	16	85	0	61	18	11	20	50	1.77
63146837--63146866	2	15.0	2	100	0	60	50	0	0	50	1.00
63149929--63149976	19	2.6	18	87	9	69	62	2	0	35	1.07
63150841--63150871	16	1.9	16	93	0	53	35	6	9	48	1.62
63155003--63155055	27	2.0	27	82	14	65	9	26	1	62	1.36
63156854--63156880	2	13.5	2	100	0	54	48	0	0	51	1.00
63158395--63158432	2	19.0	2	100	0	76	50	0	0	50	1.00
63161315--63161373	31	1.9	30	82	3	73	22	11	20	45	1.83
63162270--63162299	2	15.0	2	100	0	60	50	0	50	0	1.00
63162400--63162430	6	5.2	6	100	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63163224--63163279	24	2.4	23	82	11	69	48	8	25	17	1.76
63165899--63165948	25	2.0	25	84	4	64	22	2	14	62	1.42
63172636--63172707	38	1.9	38	88	2	110	37	1	0	61	1.05
63173069--63173116	22	2.2	22	88	7	71	66	10	12	10	1.44
63175659--63176320	194	3.4	195	87	1	941	25	13	19	41	1.88
63176718--63176742	6	4.2	6	100	0	50	16	0	0	84	0.63
63190886--63190957	30	2.4	31	81	9	78	25	8	12	54	1.65
63194801--63194831	2	15.5	2	100	0	62	51	0	0	48	1.00
63195460--63195490	16	1.9	16	93	0	53	51	12	6	29	1.65
63195517--63195552	16	2.2	16	90	0	54	47	16	0	36	1.47
63197196--63197535	168	2.0	168	89	2	479	40	11	4	42	1.61
63202815--63202860	19	2.4	19	82	7	58	32	0	4	63	1.14
63208901--63209100	66	3.0	66	93	0	319	32	9	14	43	1.78
63211237--63211911	350	1.9	352	90	3	1076	25	14	20	40	1.90
63217158--63217203	20	2.4	19	85	10	58	23	2	6	67	1.25
63224022--63224078	18	3.1	18	70	9	51	36	5	15	42	1.70
63225323--63225624	75	4.0	75	91	1	453	14	20	29	35	1.93
63231971--63232019	19	2.6	19	75	18	57	36	2	0	61	1.08
63244910--63244942	17	2.0	17	88	5	50	9	15	0	75	1.03
63247052--63247076	6	4.2	6	100	0	50	32	0	16	52	1.44
63253245--63253380	67	2.0	67	97	0	254	30	13	19	36	1.90
63260415--63260440	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63260455--63260566	37	3.0	37	92	0	179	26	21	14	37	1.92
63270276--63270418	55	2.5	57	83	6	184	20	20	19	39	1.93
63275304--63275346	22	1.9	23	85	4	61	34	6	11	46	1.67
63283128--63283170	18	2.4	18	84	0	59	25	32	9	32	1.88
63283164--63283647	249	2.0	243	90	4	769	28	24	18	28	1.98
63292510--63292550	21	2.0	21	90	4	66	34	2	2	60	1.23
63298887--63298920	14	2.5	14	95	4	61	50	35	0	14	1.44
63299876--63299907	9	3.4	10	83	16	50	37	0	0	62	0.95
63299868--63299912	18	2.5	17	82	10	63	35	0	0	64	0.94
63302672--63302697	2	13.0	2	100	0	52	50	0	0	50	1.00
63303250--63303301	26	2.0	25	81	3	59	38	26	5	28	1.79
63309621--63309663	20	2.1	20	86	4	59	23	6	9	60	1.51
63338790--63338942	22	7.0	22	90	0	225	26	26	14	32	1.94
63339612--63339666	3	18.3	3	82	14	69	30	0	3	65	1.10
63339612--63339677	6	9.4	7	81	18	52	30	1	3	65	1.17
63342056--63342090	2	17.5	2	93	0	61	45	0	0	54	0.99
63344904--63344970	35	1.9	35	100	0	134	35	20	13	29	1.91
63345066--63345154	41	2.1	42	91	2	144	53	13	2	30	1.52
63345183--63345223	19	2.2	19	100	0	82	43	14	4	36	1.67
63346070--63346207	22	6.3	22	89	0	195	26	25	14	33	1.94
63359713--63359777	2	34.0	2	84	9	91	49	0	1	49	1.10
63362426--63362493	34	2.0	34	91	0	109	29	19	8	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63366882--63366949	27	2.7	26	86	9	95	23	25	22	29	1.99
63370285--63370324	19	2.1	19	90	0	62	25	30	27	17	1.97
63371387--63371416	15	2.1	15	93	6	53	50	13	0	36	1.42
63388116--63388145	16	1.9	16	93	6	53	30	3	0	66	1.07
63409573--63409647	28	2.7	26	82	10	78	30	2	4	62	1.27
63409626--63409655	7	4.1	7	91	8	51	13	0	3	83	0.77
63413900--63413957	30	2.0	27	83	9	71	53	3	0	43	1.17
63424050--63424080	12	2.6	12	100	0	62	9	61	22	6	1.50
63426797--63426843	21	2.2	22	85	11	62	34	8	0	57	1.29
63427227--63427263	19	1.9	19	88	0	56	70	2	0	27	1.01

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