genome.fa.s2.2.7.7.80.10.50.1000.105.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  105  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)
31077262--31077574	120	2.6	119	88	4	475	45	5	10	38	1.62
31077439--31077465	10	2.7	10	100	0	54	51	0	7	40	1.30
31077475--31077519	18	2.4	18	92	3	72	53	2	8	35	1.45
31077636--31077677	18	2.3	18	95	0	75	28	0	23	47	1.52
31077654--31077770	29	3.8	29	87	12	180	27	0	28	44	1.55
31077654--31077831	64	2.6	68	88	10	247	26	0	28	44	1.54
31077623--31077837	111	1.9	111	97	0	403	27	0	28	44	1.55
31077719--31077817	47	2.1	47	96	0	180	29	0	24	46	1.53
31077747--31077788	18	2.3	18	91	0	75	28	0	23	47	1.52
31077766--31077831	29	2.3	29	91	0	114	25	0	28	45	1.54
31077816--31077843	6	4.7	6	100	0	56	14	0	50	35	1.43
31077654--31077755	35	3.1	35	91	8	162	25	0	30	44	1.55
31077900--31077934	18	1.9	18	100	0	70	51	2	11	34	1.53
31077422--31078204	415	1.9	403	90	6	1237	36	2	19	41	1.64
31077862--31078043	55	3.3	55	90	5	262	46	4	11	36	1.62
31078051--31078211	18	9.7	18	70	17	134	29	0	22	48	1.51
31078075--31078204	47	2.8	47	98	0	251	29	0	23	47	1.52
31078207--31078270	25	2.5	26	84	2	94	35	12	1	50	1.50
31078229--31078375	71	2.1	71	97	0	276	38	11	6	42	1.68
31079436--31079460	7	3.6	7	100	0	50	60	12	0	28	1.32
31080540--31080603	30	2.1	31	94	2	112	64	0	0	35	0.94
31080628--31080711	29	3.1	29	62	22	74	41	0	28	29	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31080605--31080719	51	2.3	51	96	0	212	41	0	30	27	1.56
31080928--31080988	29	2.2	28	82	5	70	45	16	13	24	1.83
31088338--31088391	24	2.2	25	90	3	83	16	25	22	35	1.95
31088338--31088441	25	4.2	24	76	10	93	21	25	20	33	1.97
31112840--31112971	20	6.6	20	66	11	74	39	18	28	14	1.89
31112830--31112957	40	3.2	40	90	0	193	37	17	29	14	1.90
31112841--31112971	40	3.3	40	90	2	192	38	18	28	14	1.90
31129864--31129945	25	3.3	24	72	13	69	35	13	21	29	1.92
31129848--31129945	49	2.0	50	86	6	137	34	17	19	28	1.94
31148503--31148567	20	3.3	20	67	4	60	13	36	20	29	1.91
31148436--31148691	19	13.2	20	66	14	126	16	33	17	32	1.92
31148426--31148691	116	2.3	118	86	3	360	16	33	17	31	1.93
31148603--31148702	19	5.2	19	74	13	96	13	32	20	35	1.90
31148426--31148704	39	7.2	39	86	2	364	16	33	17	31	1.93
31157422--31157848	222	1.9	222	85	1	579	34	22	19	23	1.96
31165371--31165400	14	2.2	14	94	5	53	43	6	0	50	1.28
31175675--31175730	25	2.2	27	78	12	64	53	5	1	39	1.34
31184135--31184310	45	4.0	45	83	1	221	27	15	24	32	1.95
31190776--31191636	457	1.9	457	98	0	1668	36	11	17	35	1.86
31203927--31204165	50	4.7	50	80	4	221	28	20	28	23	1.98
31204927--31205782	439	1.9	439	99	0	1703	36	10	16	36	1.83
31210310--31210502	50	3.7	50	79	5	145	27	18	29	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31212189--31212248	26	2.2	28	82	5	70	33	28	1	36	1.67
31212568--31212665	20	4.9	20	75	0	79	39	19	27	13	1.89
31214415--31214445	14	2.2	14	100	0	62	45	19	0	35	1.51
31216712--31216775	16	3.7	17	82	17	87	21	28	0	50	1.49
31227806--31227866	28	2.2	28	96	0	113	22	24	22	29	1.99
31227801--31227885	28	2.8	31	76	20	97	23	22	23	30	1.99
31233476--31233526	20	2.5	20	87	0	66	7	29	23	39	1.83
31234527--31234581	28	2.0	28	92	0	92	47	25	3	23	1.68
31235631--31235669	20	1.9	19	85	10	51	43	15	0	41	1.46
31244266--31244309	17	2.5	17	82	14	54	54	4	0	40	1.21
31249730--31249767	18	2.1	18	90	0	58	34	26	2	36	1.71
31251236--31251281	22	2.1	22	88	8	67	41	13	4	41	1.63
31254779--31254834	29	1.9	29	88	0	85	46	1	0	51	1.11
31256047--31256115	32	2.2	32	79	10	79	27	4	11	56	1.53
31260531--31260578	24	2.1	22	88	7	69	56	0	4	39	1.19
31264060--31264085	4	6.5	4	100	0	52	76	0	0	23	0.78
31266277--31266329	19	2.7	20	77	14	56	56	3	7	32	1.45
31267335--31267566	109	2.1	109	97	0	437	53	10	11	24	1.68
31267958--31268032	25	3.0	25	78	18	84	57	0	0	42	0.98
31268031--31268056	11	2.4	11	100	0	52	53	0	7	38	1.30
31271873--31271897	5	5.0	5	100	0	50	40	0	20	40	1.52
31272409--31272473	27	2.5	27	78	7	64	21	27	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31274262--31274296	15	2.2	16	90	5	54	37	8	14	40	1.76
31286634--31286728	48	2.0	48	93	0	163	43	8	28	20	1.80
31287884--31287945	14	4.2	14	76	15	54	20	6	0	72	1.06
31287903--31287941	3	12.7	3	89	5	60	30	2	0	66	1.05
31292353--31292610	45	5.7	46	81	9	277	40	17	22	20	1.91
31292350--31292610	135	1.9	135	83	9	336	40	17	21	19	1.91
31296796--31296834	2	19.5	2	100	0	78	48	0	0	51	1.00
31301635--31301660	11	2.4	11	100	0	52	61	0	0	38	0.96
31301675--31301726	8	6.1	8	78	12	59	71	0	0	28	0.87
31301625--31301722	26	3.5	26	87	8	124	66	0	0	33	0.92
31301646--31301687	18	2.3	18	100	0	84	64	0	0	35	0.94
31302158--31302198	2	20.5	2	100	0	82	51	0	0	48	1.00
31303253--31303407	10	15.3	10	72	17	90	68	0	30	0	0.99
31303252--31303439	41	4.7	40	82	11	176	67	0	30	1	1.02
31303770--31304212	161	2.8	151	76	13	437	51	7	9	31	1.62
31304240--31304282	21	2.0	21	95	0	77	51	2	4	41	1.35
31304378--31304424	13	3.8	12	86	5	60	63	2	2	31	1.18
31307123--31307190	5	14.2	5	79	14	81	38	0	0	61	0.96
31307124--31307192	24	3.0	24	74	21	76	40	0	0	59	0.97
31312604--31312640	10	3.6	10	88	3	56	0	29	0	70	0.88
31313060--31313148	46	2.0	45	84	10	119	46	2	4	47	1.35
31313150--31313214	23	2.7	25	72	18	66	32	1	7	58	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31314042--31314075	9	3.8	9	100	0	68	76	0	0	23	0.79
31315964--31315995	15	2.0	17	88	11	50	71	0	0	28	0.86
31316099--31316127	8	3.6	8	100	0	58	65	0	0	34	0.93
31316096--31316141	16	3.0	15	81	12	58	69	0	2	28	1.00
31316788--31316843	18	3.1	18	76	5	58	33	7	0	58	1.25
31316795--31316836	19	2.1	21	86	8	61	28	9	0	61	1.27
31319762--31319787	4	6.5	4	100	0	52	73	0	0	26	0.84
31322944--31323069	35	3.6	35	85	2	164	15	7	32	44	1.74
31327525--31327585	20	3.0	20	78	7	70	62	0	0	37	0.96
31330779--31330819	20	2.0	20	85	0	55	39	2	7	51	1.43
31332366--31332394	12	2.4	12	100	0	58	31	0	13	55	1.39
31335275--31335631	176	2.0	176	97	0	678	35	16	25	22	1.94
31338349--31338435	43	2.0	43	90	0	138	27	20	1	50	1.55
31347221--31347439	37	5.9	37	86	3	262	28	15	15	40	1.88
31349480--31349561	38	2.1	38	82	10	96	37	1	0	60	1.04
31349510--31349539	11	2.6	11	94	5	51	36	3	0	60	1.14
31352379--31352592	100	2.1	101	85	4	288	36	11	20	31	1.89
31358053--31358222	56	3.0	57	87	5	240	45	11	12	31	1.77
31359731--31359757	14	1.9	14	100	0	54	14	25	22	37	1.93
31364511--31364624	56	2.0	56	86	0	156	44	10	13	31	1.77
31364567--31364913	84	4.0	87	84	5	349	43	12	9	34	1.74
31364567--31364881	171	1.9	167	82	8	404	43	11	9	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31364916--31365121	79	2.6	79	88	0	295	40	13	15	31	1.85
31367337--31367393	25	2.2	27	82	17	68	26	3	5	64	1.30
31367439--31367506	27	2.5	27	80	2	82	35	0	2	61	1.11
31367439--31367524	18	4.8	18	73	11	61	37	1	2	59	1.18
31367439--31367527	46	2.0	45	84	6	117	39	1	2	57	1.19
31368791--31368878	25	3.6	25	76	10	76	21	23	19	35	1.96
31370664--31370732	16	4.2	16	96	3	129	24	0	37	37	1.56
31370664--31370732	33	2.1	32	97	2	129	24	0	37	37	1.56
31370713--31370803	45	2.0	45	85	2	121	27	6	28	37	1.82
31370948--31371002	15	3.4	16	80	16	53	54	1	0	43	1.10

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