genome.fa.s2.2.7.7.80.10.50.1000.135.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  135  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)
41270619--41270676	26	2.2	26	84	0	71	39	8	15	36	1.78
41271997--41272030	16	2.1	16	100	0	68	17	5	23	52	1.66
41273281--41273312	16	2.0	16	93	0	55	65	12	0	21	1.25
41274645--41274681	9	4.1	9	92	0	65	29	10	13	45	1.77
41277017--41277082	13	5.5	13	72	20	54	45	18	0	36	1.49
41277017--41277083	23	2.9	24	84	6	93	46	17	0	35	1.49
41287078--41287108	4	7.8	4	100	0	62	77	0	0	22	0.77
41290927--41290987	23	2.7	23	89	0	86	44	19	1	34	1.61
41292101--41292146	9	5.1	9	89	0	74	45	10	10	32	1.74
41292981--41293006	5	5.2	5	100	0	52	19	19	19	42	1.90
41301356--41301411	20	2.8	20	94	0	103	50	23	0	26	1.50
41301356--41301409	11	5.3	11	70	17	53	51	24	0	24	1.48
41316204--41316263	30	1.9	32	86	6	88	71	13	3	11	1.26
41318461--41318537	40	2.1	39	86	13	110	12	29	32	24	1.93
41318661--41318705	11	4.1	11	94	0	81	17	33	2	46	1.61
41318647--41318721	22	3.4	21	83	10	80	21	30	1	46	1.59
41320781--41321213	127	3.5	125	90	0	679	29	20	18	31	1.96
41321264--41321293	15	1.9	15	93	6	51	43	33	0	23	1.54
41332315--41332479	83	2.0	84	95	1	296	29	16	8	45	1.77
41333030--41333113	40	2.1	39	80	12	91	38	1	1	59	1.13
41338933--41338984	23	2.3	23	89	0	86	40	25	15	19	1.90
41347669--41348480	406	2.0	405	91	2	1306	30	19	11	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41348882--41348976	40	2.4	41	85	7	124	37	11	27	23	1.89
41349058--41349184	47	2.6	48	78	10	125	23	31	7	37	1.84
41350216--41350244	2	14.5	2	100	0	58	0	0	48	51	1.00
41350469--41350494	12	2.2	12	100	0	52	15	0	7	76	0.99
41353990--41354028	16	2.4	16	95	0	69	28	35	5	30	1.79
41365534--41365574	19	2.1	19	86	4	55	43	21	0	34	1.53
41367785--41367874	39	2.3	40	86	7	130	18	26	27	26	1.98
41369913--41369953	21	2.0	21	85	0	55	29	14	7	48	1.71
41377628--41377664	6	6.2	6	100	0	74	32	32	35	0	1.58
41379364--41379407	23	1.9	23	81	9	54	63	11	2	22	1.38
41382706--41382831	51	2.5	50	83	8	139	46	5	19	27	1.72
41382815--41382855	6	6.5	6	94	5	64	65	0	17	17	1.27
41382817--41382852	7	5.4	7	96	3	58	72	0	13	13	1.13
41382817--41382855	13	3.0	13	89	10	62	69	0	15	15	1.20
41387113--41387179	21	3.2	21	95	0	116	31	20	23	23	1.98
41387242--41387309	5	13.4	5	78	17	61	76	0	1	22	0.87
41387242--41387309	12	6.7	10	77	15	61	76	0	1	22	0.87
41387241--41387310	4	16.2	4	79	16	54	74	0	1	24	0.90
41387416--41387720	115	2.7	110	77	7	308	40	21	11	26	1.87
41387814--41387846	17	1.9	17	88	11	50	78	0	6	15	0.93
41394449--41394669	27	8.2	27	73	15	163	22	15	19	42	1.89
41394449--41394633	81	2.3	81	87	3	266	22	15	19	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41394449--41394669	54	4.1	53	78	9	198	22	15	19	42	1.89
41394449--41394683	81	2.9	81	83	6	255	21	15	20	42	1.88
41396127--41396162	18	2.0	18	100	0	72	38	44	0	16	1.48
41405834--41405874	12	3.7	12	84	12	52	43	0	7	48	1.30
41411134--41411227	36	2.6	35	80	8	91	37	36	11	14	1.83
41420862--41420910	18	2.7	18	81	9	64	44	0	14	40	1.45
41421474--41421516	13	3.5	13	75	18	56	37	0	13	48	1.43
41421467--41421516	23	2.2	23	96	3	93	38	0	12	50	1.40
41422356--41422414	23	2.6	23	81	10	68	23	1	1	72	1.02
41427990--41428145	27	5.8	27	85	0	204	42	21	17	18	1.89
41432531--41432581	23	2.2	23	92	0	84	39	0	9	50	1.35
41432540--41432618	13	6.5	13	73	16	71	37	1	12	48	1.50
41432540--41432617	36	2.2	36	92	0	129	38	1	11	48	1.48
41432640--41432707	34	2.0	34	100	0	136	41	11	17	29	1.85
41433530--41433579	26	1.9	26	84	8	66	22	4	2	72	1.12
41438930--41439015	43	2.0	43	95	0	154	41	13	13	30	1.84
41442086--41442129	7	6.3	7	84	10	63	38	0	15	45	1.47
41442074--41442129	29	2.0	28	89	3	85	33	3	17	44	1.66
41442087--41442130	22	2.0	22	91	8	72	36	0	18	45	1.49
41442354--41442424	5	14.2	5	84	0	88	36	1	19	42	1.60
41446930--41446973	23	1.9	23	90	0	70	43	4	9	43	1.56
41448361--41448411	23	2.2	23	92	0	84	21	19	21	37	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41450336--41450396	32	1.9	32	83	12	81	49	1	4	44	1.33
41450355--41450396	20	2.1	20	86	0	57	47	0	7	45	1.30
41455429--41455489	32	1.9	32	83	12	81	49	1	4	44	1.33
41455448--41455489	20	2.1	20	86	0	57	47	0	7	45	1.30
41458269--41458349	34	2.3	35	78	14	96	24	6	30	38	1.80
41458644--41458675	17	1.9	16	93	6	55	46	0	0	53	1.00
41458634--41458701	26	2.8	23	78	20	68	44	2	0	52	1.16
41458643--41458706	20	3.0	20	70	18	58	42	3	0	54	1.16
41460440--41460476	18	2.0	19	89	5	58	5	8	64	21	1.40
41461709--41461740	3	10.7	3	100	0	64	0	0	31	68	0.90
41462361--41462739	185	2.0	185	96	0	704	21	19	12	46	1.82
41467574--41467600	2	13.5	2	100	0	54	51	0	0	48	1.00
41468311--41468365	21	2.6	20	74	20	58	50	1	3	43	1.30
41468697--41468818	51	2.4	51	93	4	201	27	30	0	41	1.56
41468819--41468884	10	6.5	10	75	3	60	34	0	0	65	0.93
41468820--41468884	31	2.1	31	100	0	130	33	0	0	66	0.92
41469965--41469989	7	3.6	7	100	0	50	28	0	12	60	1.32
41470641--41470675	18	1.9	18	88	0	52	25	34	8	31	1.86
41471079--41471260	25	7.6	24	65	22	89	36	3	14	45	1.62
41471077--41471332	71	3.6	71	96	0	458	35	3	15	45	1.63
41471338--41471580	29	8.3	29	90	6	391	42	26	0	29	1.61
41471338--41471580	59	4.1	58	89	7	391	42	26	0	29	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41471338--41471580	89	2.8	88	95	2	443	42	26	0	29	1.61
41471575--41471755	55	3.3	55	98	0	353	38	11	4	45	1.62
41471739--41471763	10	2.5	10	100	0	50	44	8	0	48	1.32
41473364--41473397	18	1.9	18	88	5	52	29	0	5	64	1.17
41482219--41482347	60	2.1	61	88	4	190	40	5	7	46	1.56
41482986--41483106	60	2.0	60	100	0	242	30	4	24	39	1.77
41483489--41483521	11	2.8	12	86	4	50	33	3	12	51	1.54
41484699--41484797	26	4.0	25	84	10	123	41	1	2	55	1.18
41487293--41487340	17	2.7	18	81	15	55	50	0	12	37	1.41
41493592--41493687	48	2.0	48	100	0	192	20	22	10	45	1.81
41501338--41501363	2	13.0	2	100	0	52	50	0	0	50	1.00
41501851--41501879	15	1.9	15	100	0	58	34	17	6	41	1.76
41506247--41506294	22	2.2	21	85	3	60	29	6	6	58	1.47
41506554--41506648	29	3.4	27	75	13	86	31	11	1	55	1.42
41511797--41511845	24	2.0	24	100	0	98	44	20	8	26	1.79
41512392--41512455	7	9.0	7	86	13	87	70	0	14	15	1.17
41512392--41512455	28	2.2	28	88	2	101	70	0	14	15	1.17
41513693--41514287	50	11.9	49	70	4	375	32	23	19	24	1.97
41513693--41514287	100	5.9	100	91	0	866	32	23	19	24	1.97
41521411--41521440	15	2.0	15	93	0	51	63	6	0	30	1.20
41522547--41522599	28	1.9	27	88	3	79	20	0	5	73	1.03
41522636--41522714	29	2.8	28	74	12	72	34	12	1	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41522636--41522705	28	2.5	28	77	11	72	34	14	1	50	1.52
41532968--41533022	27	2.0	27	100	0	110	45	7	10	36	1.67
41543022--41543228	103	2.0	103	98	0	396	32	29	17	20	1.95
41544795--41544824	15	1.9	16	93	6	53	53	26	0	20	1.46
41560636--41560663	14	2.0	14	100	0	56	42	28	7	21	1.79
41561177--41561240	26	2.5	26	81	0	83	29	23	23	23	1.99
41562426--41562587	45	3.6	45	81	5	166	43	12	21	22	1.86
41562659--41562759	27	3.7	27	78	0	112	37	14	25	21	1.92
41594085--41594135	25	2.0	26	88	3	77	41	7	25	25	1.82
41596243--41596280	20	1.9	20	84	10	51	39	0	13	47	1.42

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