genome.fa.s2.2.7.7.80.10.50.1000.173.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  173  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)
52779591--52779634	22	2.0	22	86	0	61	43	22	4	29	1.73
52783142--52783171	14	2.2	14	94	5	53	70	6	13	10	1.34
52784734--52785002	132	2.0	132	97	0	511	30	17	15	37	1.91
52789995--52790035	3	13.3	3	84	5	55	34	2	2	60	1.23
52790153--52790208	2	28.0	2	82	13	71	44	0	3	51	1.18
52790215--52790264	26	1.9	26	87	0	73	34	14	0	52	1.42
52790613--52790653	18	2.2	20	82	8	50	31	2	17	48	1.60
52792738--52792805	11	6.2	11	80	11	68	22	35	1	41	1.63
52792810--52792865	30	2.0	28	86	10	78	39	0	3	57	1.16
52793979--52794010	7	4.6	7	100	0	64	28	0	15	56	1.40
52793972--52794010	14	2.8	15	92	7	57	28	0	15	56	1.40
52794651--52794694	18	2.4	18	84	0	52	18	25	11	45	1.82
52795121--52795217	34	2.9	34	98	0	185	43	6	7	43	1.57
52796257--52796672	126	3.3	126	92	0	663	28	21	17	32	1.96
52796711--52797044	96	3.4	95	77	10	336	41	17	2	38	1.63
52799399--52799427	6	4.8	6	100	0	58	13	17	68	0	1.20
52802502--52802559	12	4.7	12	76	16	55	34	1	0	63	1.04
52806102--52806139	4	9.0	4	88	11	58	50	0	0	50	1.00
52810654--52810816	51	3.3	50	88	5	235	34	13	23	28	1.93
52811949--52811977	14	2.1	14	100	0	58	31	13	27	27	1.94
52818524--52818559	18	2.0	18	100	0	72	5	27	44	22	1.75
52819192--52819217	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52819654--52819687	16	2.1	16	88	0	50	73	2	5	17	1.16
52820846--52820877	16	1.9	17	93	6	57	25	15	18	40	1.90
52823738--52823856	48	2.4	48	86	9	150	41	2	3	52	1.31
52823749--52823820	17	4.4	17	73	16	62	43	1	1	54	1.17
52831011--52831095	24	3.6	24	74	25	99	37	10	7	44	1.66
52830933--52831242	159	1.9	160	88	3	464	37	9	16	36	1.81
52832548--52832576	2	14.5	2	100	0	58	51	0	0	48	1.00
52835874--52835907	16	2.2	16	89	5	52	55	11	5	26	1.58
52840519--52840685	43	3.9	43	83	8	216	24	19	25	31	1.98
52840512--52840685	85	2.1	84	91	1	276	25	18	24	31	1.98
52843099--52843144	23	2.0	22	83	4	56	41	13	2	43	1.55
52855068--52855141	33	2.2	33	85	4	96	43	13	25	17	1.86
52856665--52856753	29	3.0	29	81	3	88	35	25	13	24	1.92
52856706--52856776	29	2.4	29	88	9	101	30	23	16	28	1.97
52864691--52864803	25	4.5	25	80	6	104	34	20	21	23	1.97
52872299--52872351	24	2.2	24	80	12	65	33	0	1	64	1.05
52873839--52873880	19	2.2	19	91	0	66	57	2	16	23	1.51
52874343--52874368	12	2.2	12	100	0	52	34	7	0	57	1.27
52875304--52875372	29	2.4	28	84	13	95	30	5	0	63	1.17
52875312--52875384	29	2.5	29	84	8	78	34	5	0	60	1.20
52876528--52876596	21	3.3	21	87	2	95	56	7	24	11	1.60
52876957--52877000	18	2.4	18	100	0	88	27	13	11	47	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52885093--52885199	53	2.0	53	100	0	214	17	16	26	39	1.91
52893988--52894065	25	3.1	25	72	18	81	20	23	21	34	1.97
52893990--52894096	50	2.2	48	86	8	153	19	25	20	34	1.96
52893991--52894120	49	2.6	50	81	10	126	19	25	20	34	1.96
52898123--52898260	50	2.7	50	78	3	152	21	16	30	31	1.95
52901064--52901126	8	7.2	9	72	13	51	31	1	3	63	1.19
52903480--52903588	41	2.7	41	88	2	148	19	21	25	33	1.96
52912584--52912623	20	2.0	20	85	0	53	30	2	20	47	1.63
52914685--52914741	19	2.8	20	76	20	55	42	15	1	40	1.58
52915214--52915283	35	2.0	35	97	0	131	35	25	4	34	1.76
52916194--52916237	23	1.9	22	82	17	54	36	25	0	38	1.56
52916258--52916311	16	3.4	16	76	0	54	37	5	31	25	1.79
52916736--52916776	13	3.2	12	80	12	55	58	0	0	41	0.98
52916646--52916799	18	8.9	18	64	18	76	55	3	0	40	1.21
52916544--52916983	119	3.7	120	97	0	796	52	4	1	41	1.30
52916855--52916895	13	3.2	12	80	12	55	58	0	0	41	0.98
52918358--52918461	49	2.1	49	92	0	172	50	10	7	30	1.65
52920813--52920846	16	2.1	16	100	0	68	76	0	0	23	0.79
52921422--52921459	15	2.5	15	95	0	67	42	31	10	15	1.81
52921996--52922043	21	2.3	20	93	6	87	56	20	6	16	1.62
52922998--52923038	17	2.3	18	87	8	57	63	7	24	4	1.40
52923413--52923606	50	3.9	49	79	6	201	31	28	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52923420--52923603	100	1.8	100	89	3	289	32	28	16	22	1.96
52929752--52929828	14	5.0	15	71	20	52	42	15	9	32	1.78
52929768--52929807	20	2.0	20	90	0	62	50	12	10	27	1.72
52929756--52929822	34	1.9	35	90	3	109	46	13	8	31	1.74
52929791--52929830	14	2.9	14	84	0	53	42	17	7	32	1.77
52933323--52933464	75	1.9	75	79	5	162	33	21	24	21	1.97
52940996--52941066	25	2.8	25	84	0	88	35	18	29	16	1.93
52947310--52947481	43	4.0	43	95	0	299	25	28	18	28	1.98
52947805--52947875	21	3.4	21	86	0	97	4	42	16	36	1.68
52953705--52953779	24	3.3	24	71	17	88	32	0	22	45	1.53
52955458--52955510	6	8.3	6	84	15	63	67	13	3	15	1.35
52955457--52955514	13	4.5	13	82	8	82	68	12	3	15	1.32
52958224--52958299	23	3.3	22	73	23	75	48	21	2	27	1.63
52958600--52958649	24	2.2	21	80	13	55	60	2	4	34	1.27
52958690--52958974	41	6.9	41	87	5	387	35	27	20	16	1.94
52958690--52958974	83	3.4	83	87	5	391	35	27	20	16	1.94
52978348--52978407	19	3.1	19	69	11	50	33	8	13	45	1.73
52983345--52983423	3	26.0	3	75	7	61	59	2	37	0	1.11
52983463--52983500	20	1.9	20	94	0	67	21	0	2	76	0.91
52983624--52983710	45	1.9	45	100	0	174	55	6	4	33	1.47
52983828--52984248	162	2.6	163	91	4	703	54	8	8	29	1.59
52989525--52989666	76	1.9	76	88	2	214	51	12	5	30	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52989982--52990035	20	2.8	20	91	2	83	0	33	0	66	0.92
52990345--52990413	6	10.5	6	77	16	66	30	2	0	66	1.06
52990345--52990413	13	5.2	13	75	15	61	30	2	0	66	1.06
52990345--52990413	20	3.5	20	76	11	65	30	2	0	66	1.06
52991442--52991501	25	2.3	26	80	8	68	40	16	1	41	1.58
52991442--52991502	13	4.7	13	76	13	54	39	18	1	40	1.60
52991503--52991584	26	3.1	26	80	5	94	26	24	4	43	1.74
52991525--52991571	13	3.6	13	85	5	60	29	25	6	38	1.81
52996187--52996262	9	8.2	9	76	11	64	53	1	1	43	1.17
52996191--52996240	19	2.7	19	90	3	75	64	0	2	34	1.05
52996872--52997015	61	2.3	60	80	9	148	45	6	13	34	1.70
52999387--53006546	372	19.0	369	74	11	4548	50	15	17	16	1.79
53002051--53002248	96	2.1	96	86	3	274	46	21	12	20	1.82
53004172--53004211	17	2.4	16	84	15	55	75	5	17	2	1.10
53004545--53004577	16	2.2	15	89	10	50	75	9	15	0	1.03
53004958--53004991	17	2.1	15	89	10	50	73	5	17	2	1.16
53004952--53005002	21	2.4	21	84	15	70	72	3	17	5	1.20
53005321--53006546	354	3.4	353	82	6	1249	50	13	18	16	1.78
53006057--53006089	16	2.2	15	89	10	50	78	6	12	3	1.04
52999388--53006546	726	9.5	732	74	12	4743	50	15	17	16	1.79
53008831--53008870	18	2.2	18	90	0	62	40	0	25	35	1.56
53019605--53019831	112	2.0	112	91	0	364	33	19	17	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53025990--53026053	29	2.2	30	86	8	89	37	3	3	56	1.31
53029878--53029937	25	2.4	25	78	13	77	20	21	18	40	1.92
53033134--53033293	42	3.8	40	78	10	124	26	26	20	26	1.99
53033163--53033295	42	3.2	42	84	3	171	28	27	18	26	1.98
53034877--53034906	15	1.9	16	93	6	53	60	10	6	23	1.52
53039728--53039761	17	2.1	16	88	5	50	8	17	0	73	1.08
53041075--53041139	30	2.2	30	83	5	78	23	21	33	21	1.97
53044456--53044480	13	1.9	13	100	0	50	24	0	16	60	1.36
53052328--53052623	50	5.8	50	81	4	283	21	28	22	27	1.99
53055180--53055240	28	2.2	28	82	2	79	22	22	24	29	1.99

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