genome.fa.s11.2.7.7.80.10.50.1000.135.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   207   208   
          209   210   

This is table  135  of  210  ( 25152 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)
41121178--41121370	94	2.1	91	86	7	266	41	4	10	43	1.58
41121027--41121365	145	2.3	145	83	7	357	42	4	9	43	1.58
41122636--41122667	3	10.7	3	100	0	64	68	0	0	31	0.90
41123655--41123712	27	2.1	27	83	0	71	43	18	18	18	1.89
41128628--41128685	23	2.5	23	97	0	107	5	10	32	51	1.58
41130386--41130580	98	2.0	98	92	2	329	18	10	12	57	1.63
41130512--41130544	15	2.2	15	89	10	50	9	6	12	72	1.26
41130650--41130698	24	2.0	24	100	0	98	20	8	8	63	1.48
41132651--41132681	15	2.0	16	93	6	55	67	0	32	0	0.91
41135223--41135261	20	2.0	20	84	0	51	48	5	0	46	1.24
41135255--41135301	24	2.0	23	83	4	58	55	2	2	40	1.24
41137886--41137959	31	2.4	31	81	4	87	45	10	14	28	1.79
41144152--41144261	26	4.2	26	89	0	166	37	20	17	25	1.94
41144148--41144261	52	2.2	52	93	0	192	36	20	17	25	1.94
41149432--41149482	18	2.8	18	85	8	59	21	17	13	47	1.82
41153533--41153610	40	1.9	41	92	2	131	28	28	16	26	1.97
41156015--41156052	19	2.0	20	84	5	51	23	2	0	73	0.95
41168731--41168783	22	2.4	23	78	12	58	50	3	7	37	1.49
41171025--41171057	11	3.1	11	91	4	50	75	0	3	21	0.93
41173496--41173526	14	2.2	14	94	0	53	48	16	19	16	1.81
41178009--41178057	21	2.3	21	79	10	64	26	22	30	20	1.98
41180254--41180292	18	2.1	18	85	4	51	64	0	17	17	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41187809--41187844	14	2.6	15	87	12	51	38	5	19	36	1.75
41189756--41189815	31	1.9	31	93	0	102	40	10	30	20	1.85
41194258--41194509	27	9.4	27	76	7	203	43	18	19	18	1.88
41194258--41194519	54	4.9	54	74	12	234	42	19	19	19	1.89
41194255--41194490	80	2.9	81	81	5	255	42	19	20	17	1.89
41194258--41194518	81	3.2	81	81	6	273	42	19	19	18	1.89
41194860--41194915	28	2.0	28	86	6	78	17	21	28	32	1.96
41198943--41198990	21	2.5	19	77	12	53	16	8	31	43	1.78
41198951--41198995	21	2.1	21	91	0	72	17	8	33	40	1.81
41201714--41201881	27	6.3	27	78	8	164	45	19	19	16	1.86
41201715--41201865	80	1.9	80	84	2	205	45	20	19	15	1.86
41202235--41202292	28	2.1	28	86	0	80	20	20	24	34	1.97
41218106--41218157	25	2.1	25	88	0	77	15	34	32	17	1.91
41219174--41219314	35	4.0	35	84	2	140	40	31	9	17	1.83
41219175--41219334	70	2.3	70	80	1	176	40	31	10	17	1.83
41237972--41238005	12	2.6	13	90	9	52	11	0	38	50	1.39
41238845--41239052	44	4.5	44	70	12	155	26	25	23	25	2.00
41238731--41239115	143	2.7	143	88	0	538	27	23	20	29	1.99
41240774--41240866	1	93.0	1	67	0	51	3	2	10	83	0.84
41240781--41240866	19	4.6	19	81	12	99	2	2	11	83	0.83
41240774--41240870	37	2.7	35	75	19	85	3	3	10	83	0.87
41248935--41248966	12	2.4	14	90	10	50	12	0	37	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41252219--41252247	14	2.1	14	93	6	51	62	3	20	13	1.46
41252449--41252498	26	1.9	26	91	0	82	38	6	20	36	1.77
41253307--41253367	27	2.3	27	82	5	70	37	13	24	24	1.91
41257383--41257424	13	3.0	14	82	6	50	45	7	4	42	1.52
41264193--41264218	12	2.2	12	100	0	52	34	7	15	42	1.75
41264205--41264253	19	2.5	20	93	6	82	36	10	14	38	1.80
41264205--41264259	19	2.9	18	89	10	67	36	9	16	38	1.80
41264549--41264640	3	30.0	3	71	16	55	28	2	4	65	1.23
41264545--41264581	7	5.4	7	93	6	67	27	0	0	72	0.84
41264765--41264866	17	5.9	17	72	15	75	39	8	0	50	1.40
41264833--41264857	2	12.5	2	100	0	50	52	0	0	48	1.00
41264896--41264946	24	2.1	25	82	17	63	33	7	0	58	1.27
41269807--41270199	44	8.9	44	74	7	287	28	16	26	29	1.97
41269791--41270197	132	3.1	132	93	0	679	28	16	26	28	1.97
41270244--41270475	44	5.3	44	63	8	139	26	28	25	19	1.99
41270191--41270508	88	3.6	88	93	0	537	27	29	24	17	1.98
41270508--41270717	44	4.8	44	84	3	289	27	18	26	28	1.98
41271826--41271862	7	5.4	7	96	3	67	29	0	0	70	0.88
41271830--41271927	3	32.0	3	74	15	76	30	2	3	64	1.20
41271843--41271927	24	3.9	22	77	13	86	30	2	3	63	1.24
41272235--41272328	28	3.3	29	75	15	81	32	2	4	60	1.28
41272273--41272331	24	2.5	23	78	10	66	32	3	5	59	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41272474--41272516	12	3.7	11	85	14	52	23	0	4	72	1.04
41272467--41272516	26	2.0	25	84	4	64	22	0	8	70	1.13
41285056--41285085	1	30.0	1	93	0	51	0	3	0	96	0.21
41285334--41285371	20	1.9	20	88	0	58	52	0	0	47	1.00
41289943--41290002	21	2.5	24	84	15	81	50	1	3	45	1.28
41291502--41291667	3	56.0	3	68	11	65	60	4	6	28	1.39
41293051--41293315	100	2.7	100	83	1	334	23	20	23	32	1.98
41293057--41293315	50	5.2	49	71	9	182	23	20	22	32	1.98
41300526--41300688	3	55.0	3	67	9	57	60	4	6	28	1.42
41302038--41302328	100	2.9	100	85	0	375	23	19	23	33	1.97
41302064--41302313	50	5.0	50	76	1	241	22	20	23	33	1.97
41302860--41302895	14	2.6	14	100	0	72	13	13	27	44	1.82
41306160--41306200	19	2.2	19	86	8	57	70	0	2	26	0.99
41319112--41319160	19	2.5	19	86	3	71	55	2	12	30	1.48
41320933--41320975	10	4.1	10	82	11	50	34	0	6	58	1.25
41332261--41332416	47	3.3	47	79	2	161	42	18	13	25	1.86
41332384--41332622	22	10.5	22	69	9	111	42	17	13	25	1.87
41332337--41332618	69	4.1	69	88	0	429	43	18	13	24	1.86
41332461--41332507	11	4.3	11	78	10	51	44	21	6	27	1.76
41335631--41335696	27	2.4	27	84	2	78	21	21	24	33	1.97
41340511--41340570	27	2.2	27	80	11	68	41	18	13	26	1.87
41341586--41341610	5	5.0	5	100	0	50	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41344298--41344356	24	2.4	25	82	2	66	16	27	22	33	1.95
41355901--41355959	29	2.0	29	84	12	77	30	28	1	38	1.67
41370332--41370386	14	4.1	13	81	9	65	27	1	5	65	1.25
41370332--41370386	27	2.0	27	86	6	76	27	1	5	65	1.25
41375202--41375267	23	2.8	24	70	9	64	72	9	7	10	1.27
41375171--41375292	52	2.3	50	83	5	145	73	6	11	8	1.24
41375655--41375682	6	4.7	6	100	0	56	71	0	14	14	1.15
41375654--41375691	12	2.7	15	84	15	55	73	0	13	13	1.09
41376927--41378133	86	14.0	86	88	2	1641	29	23	23	23	1.99
41377364--41377753	43	9.1	42	62	22	132	30	24	22	22	1.99
41378178--41378419	129	1.9	129	89	1	378	31	19	19	30	1.96
41378198--41378376	44	4.1	43	69	9	123	30	16	21	31	1.95
41378541--41378626	44	2.0	44	85	0	118	29	19	24	26	1.99
41380172--41380198	2	13.5	2	100	0	54	48	0	0	51	1.00
41381757--41381787	9	3.4	9	90	0	53	25	12	22	38	1.90
41381840--41381876	9	4.1	9	92	0	65	45	13	10	29	1.77
41381928--41381983	29	1.9	29	85	7	78	19	44	0	35	1.51
41382500--41382525	5	5.2	5	100	0	52	23	19	19	38	1.93
41382615--41382645	5	6.2	5	92	0	53	22	16	19	41	1.89
41384683--41384723	2	20.5	2	100	0	82	51	0	0	48	1.00
41389780--41389837	30	1.9	31	89	3	91	39	8	3	48	1.51
41390463--41390495	14	2.4	14	90	5	50	57	0	6	36	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41390768--41390841	31	2.4	31	88	2	105	39	13	10	36	1.80
41396495--41396526	15	2.1	15	94	0	55	21	3	6	68	1.26
41398142--41398214	26	2.7	26	78	18	78	46	4	2	46	1.36
41400412--41400484	26	2.8	26	83	4	85	41	8	19	31	1.81
41417316--41417360	3	15.0	3	100	0	90	33	0	0	66	0.92
41427637--41427671	17	2.1	17	100	0	70	11	11	17	60	1.59
41428378--41428476	43	2.3	43	85	3	146	27	15	17	40	1.89
41429029--41429172	47	3.1	47	68	15	129	45	2	2	50	1.28
41428999--41429204	91	2.3	91	90	5	319	47	3	2	46	1.34
41429072--41429217	47	3.2	45	70	20	122	46	4	2	47	1.33

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   207   208   
          209   210