genome.fa.s2.2.7.7.80.10.50.1000.61.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  61  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)
17269370--17269401	2	16.0	2	100	0	64	50	0	0	50	1.00
17279113--17280587	367	4.0	367	91	1	2382	39	13	10	36	1.79
17286751--17286820	31	2.3	31	82	5	88	42	11	4	41	1.60
17291315--17291339	5	5.0	5	100	0	50	20	0	0	80	0.72
17300149--17300239	42	2.2	42	82	4	103	16	25	19	38	1.92
17300157--17300233	21	3.7	21	69	10	59	18	28	16	36	1.93
17300182--17300240	21	2.8	21	72	10	66	16	30	18	33	1.94
17300182--17300269	42	2.1	42	80	4	97	18	27	18	36	1.94
17303454--17303493	17	2.4	17	88	12	57	45	7	5	42	1.54
17307916--17307952	18	2.0	20	84	10	51	51	5	16	27	1.66
17312440--17312497	17	3.4	17	69	21	57	46	20	6	25	1.75
17312430--17312500	35	2.0	35	100	0	142	49	19	5	25	1.70
17322896--17322964	30	2.3	30	87	2	95	59	0	2	37	1.12
17332554--17332610	11	5.2	11	78	0	60	28	10	1	59	1.40
17336989--17337103	41	2.7	42	86	8	151	14	20	19	46	1.84
17337999--17338116	45	2.7	45	93	5	197	11	22	23	42	1.85
17338147--17338474	164	2.0	164	95	0	584	31	17	12	38	1.87
17348347--17348372	3	8.7	3	100	0	52	65	0	34	0	0.93
17351984--17352080	51	1.9	51	85	4	133	38	15	25	20	1.92
17352249--17352334	33	2.7	32	82	8	97	52	10	16	20	1.73
17354737--17354854	62	1.9	59	88	5	173	40	3	4	51	1.38
17356861--17356988	35	3.6	35	89	1	184	42	28	9	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17360555--17360824	124	2.2	125	90	0	416	32	18	20	28	1.96
17364029--17364340	49	6.4	49	93	2	513	46	8	3	41	1.50
17364029--17364340	97	3.2	97	92	3	520	46	8	3	41	1.50
17364466--17364523	21	2.8	21	79	12	57	6	17	46	29	1.74
17366637--17366682	11	4.2	11	76	20	51	45	0	30	23	1.53
17366634--17366679	22	2.1	22	84	8	58	45	0	30	23	1.53
17370665--17370702	20	1.9	20	84	10	51	57	2	0	39	1.12
17374115--17374168	3	18.0	3	96	0	99	33	1	0	64	1.04
17374387--17374475	40	2.3	39	84	2	106	32	7	6	52	1.56
17380764--17380874	46	2.4	46	93	1	188	28	21	17	32	1.96
17380837--17380983	37	4.0	37	96	0	258	27	19	13	39	1.89
17389048--17389930	44	20.6	44	74	12	578	30	19	22	28	1.98
17389087--17389879	170	4.7	170	93	1	1317	29	19	22	28	1.98
17390785--17390826	19	2.2	19	86	0	57	16	7	0	76	1.00
17391569--17391622	3	18.0	3	96	0	99	33	1	0	64	1.04
17402251--17402332	25	3.2	25	71	19	71	57	6	3	32	1.41
17403431--17403458	2	14.0	2	100	0	56	50	0	0	50	1.00
17403731--17403769	18	2.0	20	85	9	55	61	0	5	33	1.18
17404725--17404784	31	1.9	30	83	6	75	30	15	15	40	1.87
17404884--17405045	60	2.7	59	77	5	153	24	14	19	41	1.88
17404823--17405053	62	3.8	60	77	6	198	23	15	18	43	1.87
17414525--17414583	18	3.4	18	72	13	70	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17414527--17414591	33	2.0	33	100	0	130	63	0	0	36	0.95
17414536--17414594	25	2.4	26	72	18	63	64	0	0	35	0.94
17414574--17414653	38	2.1	37	86	2	106	53	0	3	42	1.18
17414785--17414876	46	2.0	44	85	8	123	38	22	5	33	1.77
17414855--17414921	16	4.2	16	84	0	89	28	26	4	40	1.75
17418165--17418260	44	2.1	46	84	7	126	37	23	3	35	1.71
17418242--17418292	16	3.2	16	88	0	75	29	23	1	45	1.64
17418670--17418707	13	2.7	15	84	15	55	63	2	5	28	1.30
17423529--17423879	123	2.8	126	89	3	550	30	15	22	32	1.95
17426983--17427007	10	2.5	10	100	0	50	48	0	8	44	1.32
17427051--17427077	10	2.7	10	100	0	54	51	0	7	40	1.30
17427099--17427224	55	2.3	55	97	0	234	44	5	12	37	1.66
17427232--17427273	18	2.3	18	95	0	75	28	0	23	47	1.52
17427219--17427579	47	7.2	47	79	15	391	27	0	26	44	1.60
17427250--17427364	29	3.9	30	91	3	180	26	0	26	46	1.53
17427222--17427579	106	3.5	103	88	6	500	27	0	27	44	1.60
17427343--17427382	18	2.2	18	90	0	62	25	0	25	50	1.50
17427356--17427467	29	3.8	29	92	1	170	26	0	29	43	1.55
17427447--17427586	18	7.6	18	70	25	96	27	2	25	45	1.65
17427582--17427645	25	2.5	26	84	2	94	35	12	1	50	1.50
17428745--17428769	7	3.6	7	100	0	50	60	12	0	28	1.32
17429886--17430046	51	3.2	51	98	0	304	41	0	29	29	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17430021--17430093	22	3.3	22	94	0	128	42	0	30	27	1.56
17430550--17430587	19	1.9	19	89	5	58	44	2	5	47	1.39
17431634--17432015	191	2.0	191	91	2	624	31	19	17	31	1.95
17433295--17433436	71	2.0	71	94	0	248	38	16	16	27	1.91
17433675--17433786	57	1.9	57	82	12	140	45	8	18	27	1.77
17433776--17433812	19	1.9	19	88	0	56	78	0	5	16	0.93
17438311--17438406	31	3.1	31	95	3	174	31	9	13	45	1.75
17438711--17438741	4	8.0	4	92	7	55	25	0	0	74	0.82
17439552--17439592	16	2.5	17	84	4	57	60	4	0	34	1.18
17440707--17440830	40	3.0	41	84	5	153	55	0	3	41	1.16
17440749--17440839	31	3.1	29	87	7	112	58	0	2	39	1.10
17440764--17440876	40	2.9	38	84	10	131	63	0	3	32	1.11
17441890--17441951	30	2.1	30	93	0	106	58	9	3	29	1.46
17449261--17449326	33	2.0	33	100	0	132	39	27	12	21	1.88
17451992--17452084	44	2.1	44	92	4	152	49	10	10	29	1.71
17461425--17461706	154	1.8	154	85	1	395	29	16	26	27	1.97
17466197--17466280	38	2.2	37	77	10	89	36	15	19	28	1.92
17470717--17470771	26	2.1	26	89	0	83	25	30	9	34	1.87
17480019--17480073	21	2.6	21	82	8	67	32	21	20	25	1.97
17483937--17483969	15	2.2	15	94	0	57	57	6	0	36	1.23
17488284--17488341	30	1.9	30	89	0	89	41	3	24	31	1.71
17488553--17488584	13	2.5	13	94	0	55	31	0	12	56	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17488679--17488931	50	4.8	50	85	7	308	26	22	28	21	1.99
17491394--17491428	15	2.3	15	95	0	61	20	17	37	25	1.94
17494125--17494194	22	3.0	22	80	14	70	30	5	0	64	1.17
17494145--17494190	14	3.4	14	76	8	51	32	2	0	65	1.05
17494139--17494193	26	2.1	27	86	10	78	29	5	0	65	1.15
17494148--17494201	26	2.1	25	86	3	72	35	3	0	61	1.14
17494158--17494215	26	2.2	26	81	6	64	39	5	1	53	1.33
17494845--17494890	24	1.9	24	86	0	65	52	2	0	45	1.13
17499035--17499297	131	2.0	131	96	0	490	30	9	30	29	1.89
17501342--17501394	17	3.1	17	68	10	54	13	3	9	73	1.21
17501342--17501422	34	2.4	34	91	2	126	14	4	9	70	1.31
17502462--17502496	6	6.0	6	96	3	63	51	0	48	0	1.00
17502941--17502973	16	2.2	15	89	10	50	36	0	21	42	1.53
17502945--17502984	16	2.5	16	91	0	62	42	2	25	30	1.68
17507494--17507785	43	6.8	43	89	2	428	29	31	18	20	1.96
17507492--17507785	128	2.3	127	87	4	430	29	31	18	20	1.96
17507492--17507818	43	7.7	42	86	5	243	31	30	17	20	1.96
17508982--17509012	16	1.9	16	100	0	62	38	12	12	35	1.82
17511026--17511060	17	2.1	17	100	0	70	48	11	5	34	1.63
17512839--17512970	40	3.3	40	82	3	142	26	18	19	34	1.95
17514403--17514443	15	2.9	15	89	7	59	24	12	0	63	1.28
17522157--17523110	475	2.0	475	94	0	1692	28	17	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17526518--17526544	12	2.2	12	100	0	54	11	7	51	29	1.64
17527668--17527767	33	3.2	33	64	23	88	25	6	12	57	1.57
17527641--17527743	28	3.5	28	66	21	75	26	3	9	60	1.46
17527641--17527767	61	2.1	61	100	0	254	25	4	11	58	1.52
17528915--17528960	21	2.2	21	84	0	56	36	32	0	30	1.58
17531164--17531210	16	3.1	16	88	11	73	68	12	0	19	1.21
17531885--17531919	13	2.7	13	87	12	54	74	2	22	0	0.95
17535067--17535146	27	3.2	26	66	20	71	33	7	8	50	1.62
17535000--17535333	62	5.9	62	72	18	303	34	5	8	50	1.57
17535086--17535162	21	3.2	24	64	20	61	33	3	9	53	1.51

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