genome.fa.s6.2.7.7.80.10.50.1000.141.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  141  of  168  ( 20060 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)
41487986--41488099	57	2.0	59	91	3	187	37	3	24	34	1.73
41487960--41488106	30	5.0	30	82	6	185	38	4	23	34	1.74
41488305--41489038	76	9.6	76	89	4	784	36	20	16	26	1.94
41488392--41489063	227	2.9	228	85	6	848	37	20	15	25	1.93
41489919--41489971	13	4.3	13	78	21	53	1	5	9	83	0.89
41489918--41489972	25	2.2	24	84	9	67	3	5	9	81	0.95
41495960--41496179	36	6.2	34	75	15	135	43	10	13	33	1.78
41495960--41496178	72	3.1	69	77	7	215	43	10	13	32	1.78
41495997--41496178	18	10.3	17	76	11	170	42	10	14	32	1.79
41496283--41496325	22	2.0	21	86	4	59	41	9	11	37	1.74
41496522--41496556	16	2.3	15	90	9	54	74	5	0	20	1.02
41496726--41496841	58	2.0	60	93	3	200	38	2	24	34	1.69
41496701--41496848	30	5.0	30	85	4	203	38	3	23	34	1.72
41496859--41496889	2	15.5	2	100	0	62	48	0	0	51	1.00
41505425--41505467	22	2.0	22	90	0	68	30	0	0	69	0.88
41505424--41505466	13	3.2	13	81	18	52	27	0	0	72	0.85
41507788--41507876	39	2.2	40	88	2	126	53	4	2	39	1.33
41509977--41510028	24	2.1	25	89	10	81	53	3	0	42	1.19
41511231--41511535	99	3.1	99	93	3	544	35	15	14	35	1.87
41511231--41511533	97	3.1	97	94	2	536	34	15	14	35	1.87
41516054--41516107	22	2.4	24	78	12	60	62	5	1	29	1.28
41516179--41516226	21	2.3	21	74	0	51	52	0	2	45	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41516497--41516528	16	2.1	16	94	5	57	28	0	0	71	0.86
41520232--41520264	7	4.7	7	100	0	66	42	12	0	45	1.41
41537384--41537421	19	2.1	19	90	5	60	34	0	7	57	1.28
41537389--41537440	19	2.7	20	82	14	56	30	0	11	57	1.34
41540650--41540749	22	4.3	23	84	7	114	43	17	21	19	1.89
41543462--41543535	37	1.9	39	86	10	109	60	1	2	35	1.19
41543465--41543578	46	2.5	44	81	8	129	59	2	5	32	1.33
41543811--41543874	19	3.4	18	76	21	60	39	0	0	60	0.97
41543843--41543877	18	2.1	16	89	10	52	37	0	0	62	0.95
41553606--41553677	27	2.6	27	88	2	99	26	12	19	41	1.87
41553611--41553677	9	7.4	9	81	6	82	26	11	19	41	1.86
41559474--41559521	18	2.7	18	76	0	60	27	0	0	72	0.84
41559470--41559518	20	2.6	19	78	18	57	28	0	0	71	0.86
41571664--41571707	22	2.0	22	82	8	54	68	2	29	0	1.02
41572114--41572154	19	2.1	20	86	4	57	56	0	9	34	1.32
41573589--41573621	3	11.0	3	100	0	66	66	0	0	33	0.92
41575905--41575929	10	2.5	10	100	0	50	20	28	8	44	1.79
41577835--41577866	13	2.5	13	94	0	55	56	0	3	40	1.15
41577938--41578090	22	7.0	22	90	0	225	26	26	14	32	1.94
41582762--41582807	24	1.9	24	86	8	67	26	21	21	30	1.99
41605651--41605709	28	2.1	28	84	6	75	64	1	3	30	1.20
41617360--41617407	11	4.3	12	72	17	50	68	2	2	27	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41617783--41617842	20	3.1	18	75	20	50	26	1	10	61	1.37
41617885--41617917	17	1.9	17	93	0	57	27	0	3	69	1.03
41618371--41618411	14	2.6	16	77	22	50	36	2	0	60	1.10
41621684--41621742	28	2.1	28	84	6	75	64	1	3	30	1.20
41630886--41630929	18	2.6	16	82	10	52	29	0	9	61	1.27
41631033--41631069	15	2.3	17	81	9	51	59	0	0	40	0.97
41634193--41634226	11	2.8	13	91	8	54	44	11	8	35	1.72
41653474--41653519	25	2.0	25	83	12	62	17	26	10	45	1.81
41665847--41665893	22	2.2	21	85	11	60	40	6	2	51	1.39
41690759--41690902	25	5.7	25	70	9	80	36	21	22	20	1.96
41690816--41690902	26	3.4	26	76	14	85	37	21	22	17	1.93
41707771--41707803	2	16.5	2	100	0	66	48	0	0	51	1.00
41708091--41708147	2	29.0	2	96	3	107	50	0	0	49	1.00
41709242--41709286	19	2.4	19	100	0	90	55	0	15	28	1.41
41711521--41711551	14	2.2	14	94	0	53	41	0	9	48	1.36
41716142--41716180	20	1.9	21	89	5	62	48	10	0	41	1.37
41719362--41719394	10	3.3	10	88	12	50	27	0	0	72	0.85
41721150--41721214	24	2.6	24	80	7	67	32	16	26	24	1.96
41727032--41727073	10	4.3	10	80	17	52	64	4	0	30	1.14
41727032--41727090	29	2.0	30	87	9	86	61	6	0	32	1.22
41727100--41727161	32	1.9	32	87	6	90	61	1	0	37	1.06
41727100--41727174	32	2.3	31	82	13	89	61	2	0	36	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41727121--41727214	10	9.5	10	74	15	54	60	4	0	35	1.16
41727032--41727212	9	18.6	9	69	17	62	60	4	1	34	1.24
41727030--41727221	19	9.8	19	66	15	70	60	4	1	33	1.24
41730463--41730556	10	9.3	10	73	12	68	28	3	2	65	1.19
41734694--41734965	136	2.0	135	98	0	526	36	15	14	34	1.88
41746332--41746404	34	2.2	33	97	2	137	27	23	24	24	2.00
41754867--41755006	70	2.0	71	94	1	246	38	7	10	43	1.67
41756889--41756943	21	2.6	21	94	0	92	34	36	5	23	1.78
41762166--41762588	209	2.0	210	90	1	670	34	19	13	32	1.91
41762930--41763000	9	7.4	9	71	16	54	67	0	4	28	1.09
41762935--41763000	29	2.3	29	84	5	89	66	0	4	28	1.11
41766629--41766885	129	2.0	129	93	0	442	21	17	26	33	1.96
41770658--41770789	39	3.4	39	87	0	183	17	19	21	41	1.90
41776367--41776404	20	1.9	20	94	0	67	34	28	10	26	1.90
41776436--41776496	30	2.0	31	84	6	81	22	3	13	60	1.47
41777514--41777543	2	15.0	2	100	0	60	50	0	0	50	1.00
41784545--41784600	23	2.5	21	78	21	53	51	7	14	26	1.67
41788975--41789020	22	2.1	22	84	11	60	26	4	10	58	1.50
41794271--41794328	22	2.6	23	83	8	75	48	1	1	48	1.22
41794305--41794344	16	2.5	16	88	8	55	50	2	7	40	1.44
41794335--41794477	68	2.1	67	93	2	252	41	4	9	44	1.57
41794419--41794446	9	3.1	9	100	0	56	32	0	10	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41794543--41794586	24	1.9	24	90	9	74	61	2	0	36	1.09
41800673--41800698	6	4.3	6	100	0	52	84	0	0	15	0.62
41802842--41802873	10	3.2	10	95	0	55	50	9	12	28	1.71
41803116--41803251	42	3.2	42	83	2	157	44	19	20	15	1.86
41803122--41803286	21	7.9	21	71	1	89	44	18	20	16	1.87
41805030--41805086	17	3.4	16	81	13	62	70	0	10	19	1.16
41805174--41805244	28	2.5	29	82	11	94	49	5	12	32	1.64
41809267--41809301	17	2.0	18	88	5	54	42	2	0	54	1.15
41814380--41814427	13	3.5	15	75	18	50	45	0	2	52	1.12
41816660--41816752	37	2.4	39	77	15	104	41	3	3	51	1.34
41817809--41818085	106	2.6	106	81	6	310	32	21	18	27	1.97
41818928--41818980	20	2.7	20	79	8	63	50	1	7	39	1.41
41819771--41819812	2	22.0	2	85	9	52	45	4	0	50	1.23
41823558--41824001	180	2.5	180	91	3	682	35	6	14	44	1.70
41823585--41824001	179	2.3	181	92	2	676	35	6	15	43	1.71
41827115--41827159	24	2.0	22	82	8	54	44	4	2	48	1.35
41832737--41832923	101	1.8	102	84	1	259	22	19	19	37	1.94
41833335--41833457	62	2.0	62	98	0	237	26	8	18	47	1.76
41836791--41836824	17	2.0	17	100	0	68	58	0	0	41	0.98
41836857--41836896	20	2.0	21	85	5	55	60	5	0	35	1.19
41836864--41836943	28	2.8	28	81	11	92	56	1	0	42	1.07
41836875--41836976	44	2.3	41	75	16	98	50	4	0	44	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41836771--41837030	117	2.3	113	87	10	358	50	3	1	43	1.31
41836986--41837049	32	2.0	32	81	0	74	48	3	0	48	1.17
41839567--41839626	30	2.0	30	100	0	120	16	23	10	50	1.75
41840433--41840485	15	3.5	15	81	0	52	11	39	11	37	1.77
41844525--41844551	7	3.9	7	100	0	54	40	0	0	59	0.98
41853011--41853037	2	13.5	2	100	0	54	51	0	0	48	1.00
41866890--41867131	66	3.7	65	71	6	200	13	28	16	40	1.87
41866949--41867533	66	8.9	66	70	9	314	14	25	20	38	1.91
41866914--41867320	132	3.1	130	81	3	447	14	26	19	39	1.91
41867088--41867533	198	2.3	198	93	0	757	15	24	21	39	1.92

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