genome.fa.s7.2.7.7.80.10.50.1000.115.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  115  of  204  ( 24458 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)
35046694--35046759	23	3.0	21	84	8	78	60	0	16	22	1.35
35046687--35046761	11	6.6	11	76	11	71	58	1	16	24	1.45
35046813--35046881	22	3.1	22	85	6	86	55	1	15	27	1.50
35046813--35046879	11	6.1	11	70	19	59	55	1	16	26	1.50
35046822--35046879	17	3.5	17	73	17	50	56	1	15	25	1.49
35047545--35047619	35	2.1	37	78	14	95	62	1	9	26	1.33
35047553--35047647	35	2.7	34	84	10	113	60	1	10	28	1.37
35047566--35047624	16	3.5	16	73	13	55	61	1	6	30	1.32
35047743--35047817	39	1.9	39	89	5	116	65	0	13	21	1.26
35047770--35047812	16	2.5	18	78	21	56	67	0	11	20	1.22
35047743--35047861	56	2.1	56	86	6	161	63	0	14	21	1.36
35047751--35047856	11	9.5	11	72	17	76	59	0	15	24	1.42
35048149--35048202	10	5.4	10	78	8	56	20	42	14	22	1.88
35050365--35050597	90	2.6	90	83	4	276	57	12	6	23	1.58
35052871--35052951	17	4.8	16	71	17	56	50	1	23	24	1.56
35055459--35055512	27	2.0	27	92	0	90	53	9	1	35	1.44
35059771--35059819	20	2.7	18	77	22	57	51	4	0	44	1.20
35059783--35059843	25	2.4	26	81	10	72	52	4	1	40	1.33
35066233--35066257	12	2.1	12	100	0	50	24	8	16	52	1.70
35070375--35070729	188	1.9	183	92	2	593	42	21	9	27	1.82
35073858--35073888	14	2.2	14	100	0	62	12	6	19	61	1.53
35080564--35080597	17	1.9	18	88	5	52	5	11	2	79	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35087200--35087266	1	67.0	1	75	0	62	88	10	1	0	0.59
35087199--35087266	20	3.3	20	87	8	102	86	11	1	0	0.63
35087202--35087266	29	2.2	30	91	2	105	87	10	1	0	0.61
35087737--35087800	32	1.9	32	84	6	83	70	1	15	12	1.24
35089024--35089275	127	2.0	128	92	0	425	28	21	22	28	1.99
35090889--35092131	127	9.8	127	91	0	1966	29	22	22	26	1.99
35090829--35092050	44	28.9	40	67	13	339	29	22	21	26	1.99
35092815--35092848	17	1.9	18	88	5	52	5	11	2	79	1.02
35095607--35095643	14	2.7	14	87	4	58	40	27	8	24	1.83
35097900--35097971	18	4.0	18	75	10	67	26	2	4	66	1.23
35097900--35097936	17	2.2	17	90	4	58	27	0	0	72	0.84
35097957--35097990	16	2.1	16	89	10	52	41	5	0	52	1.25
35098995--35099035	20	2.0	21	85	9	57	60	0	34	4	1.18
35102275--35102302	6	4.7	6	100	0	56	32	0	0	67	0.91
35103886--35103918	13	2.5	13	95	0	57	45	9	33	12	1.73
35106482--35106519	20	1.9	20	94	0	67	31	26	10	31	1.90
35115631--35115671	11	3.7	11	80	0	55	19	14	9	56	1.66
35115708--35115769	30	2.1	30	90	0	97	30	1	9	58	1.40
35115892--35115922	11	2.8	11	90	0	53	67	0	0	32	0.91
35120227--35120290	20	3.2	21	86	4	71	23	28	15	32	1.95
35120224--35120290	30	2.2	30	80	12	75	22	26	14	35	1.93
35124010--35124058	18	2.6	19	78	18	57	22	2	2	73	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35124001--35124058	22	2.6	22	78	10	73	22	1	3	72	1.09
35127727--35127775	18	2.6	19	78	18	57	22	2	2	73	1.04
35127718--35127775	22	2.6	22	78	10	73	22	1	3	72	1.09
35128707--35128761	4	13.8	4	77	11	51	0	25	0	74	0.82
35128719--35128761	9	4.8	9	86	11	61	0	20	0	79	0.74
35132911--35132962	27	1.9	27	88	7	79	46	11	3	38	1.59
35139593--35139635	14	2.9	14	86	10	50	0	9	13	76	1.01
35140082--35140116	17	2.1	18	89	10	56	71	0	2	25	1.00
35140302--35140344	2	21.5	2	100	0	86	51	0	0	48	1.00
35155399--35155441	22	2.0	22	95	0	77	9	20	27	41	1.83
35155438--35155494	18	3.4	18	67	30	54	24	21	19	35	1.96
35155426--35155501	31	2.5	31	93	0	134	19	22	22	35	1.96
35155605--35155825	43	5.1	45	78	9	160	19	20	30	29	1.97
35155597--35155825	86	2.7	86	86	4	275	19	20	30	30	1.97
35155660--35155847	43	4.4	43	83	1	207	23	22	27	26	2.00
35155833--35156011	43	4.2	43	78	1	135	32	29	17	21	1.96
35155815--35156011	86	2.3	86	81	6	229	30	29	17	22	1.97
35155871--35156018	43	3.4	43	80	0	170	34	28	16	20	1.94
35155872--35156043	86	2.0	86	82	0	209	31	27	16	23	1.96
35156369--35156481	21	5.4	21	74	10	79	7	40	15	37	1.74
35156452--35156617	66	2.5	66	85	3	210	12	28	18	39	1.88
35165905--35165941	10	3.7	10	92	0	65	43	13	0	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35168406--35168645	41	5.8	43	75	8	221	38	23	22	15	1.92
35168386--35168645	82	3.2	82	90	2	389	39	23	22	14	1.91
35187616--35187868	128	2.0	128	92	0	425	30	26	11	31	1.92
35188346--35188417	31	2.3	31	90	4	110	37	9	13	38	1.78
35207998--35208102	42	2.5	42	84	1	129	27	19	21	31	1.97
35207951--35208115	43	3.9	42	76	13	158	24	18	26	30	1.98
35212871--35212971	52	1.9	52	91	0	166	27	17	21	32	1.96
35213597--35213701	49	2.1	48	81	6	113	61	8	2	26	1.39
35217413--35217596	51	3.6	51	81	5	214	30	12	24	32	1.92
35217413--35217495	26	3.2	26	65	27	68	30	12	25	32	1.92
35218615--35218665	2	25.5	2	100	0	102	49	0	0	50	1.00
35220321--35220351	5	6.2	5	100	0	62	38	19	19	22	1.93
35221010--35221046	9	4.1	9	92	0	65	29	10	13	45	1.77
35222147--35222308	82	2.0	82	93	0	279	17	16	21	44	1.87
35227334--35227386	25	2.1	25	96	0	97	26	13	37	22	1.91
35227756--35227791	3	12.0	3	100	0	72	33	33	0	33	1.58
35232626--35232722	24	3.9	25	71	18	69	18	27	19	34	1.95
35232727--35232794	25	2.7	25	81	6	66	20	19	25	35	1.96
35234545--35234608	30	2.1	30	82	5	76	35	6	23	34	1.80
35234947--35235087	50	2.8	50	85	0	174	25	20	29	24	1.99
35234952--35235137	50	3.7	50	80	2	169	26	20	26	25	1.99
35236661--35236689	3	9.7	3	100	0	58	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35245356--35245597	25	9.8	24	69	15	84	35	19	23	21	1.96
35253683--35253752	3	23.7	3	85	8	99	1	28	0	70	0.96
35260373--35260413	20	2.0	20	85	0	55	41	9	2	46	1.50
35262123--35262182	22	2.7	22	85	12	70	76	5	8	10	1.14
35272919--35272962	21	2.1	21	100	0	88	38	11	13	36	1.81
35273490--35273543	27	2.0	27	100	0	108	25	14	18	40	1.89
35285588--35285624	16	2.3	16	95	0	65	59	18	5	16	1.55
35291716--35291770	29	2.0	27	82	13	67	60	10	14	14	1.60
35293704--35293776	21	3.5	21	76	16	62	8	20	1	69	1.21
35295764--35295818	29	2.0	27	82	13	67	60	10	14	14	1.60
35299690--35299904	45	4.8	44	77	6	143	25	20	12	42	1.86
35299693--35299897	89	2.3	89	81	7	229	25	20	12	41	1.86
35300115--35300148	17	2.0	17	88	0	50	52	14	0	32	1.42
35306826--35307585	315	2.5	302	84	6	919	41	10	13	34	1.78
35307802--35307838	17	2.1	18	85	14	51	40	5	0	54	1.24
35309998--35310128	40	3.3	40	82	5	169	15	28	17	38	1.90
35310025--35310126	20	5.2	19	69	5	78	14	29	17	38	1.90
35312388--35312456	22	3.0	22	71	8	66	36	17	10	36	1.84
35312388--35312469	22	3.6	22	72	6	65	36	18	10	34	1.86
35319421--35319448	2	14.0	2	100	0	56	50	50	0	0	1.00
35327769--35327805	7	5.3	7	96	0	56	21	0	0	78	0.75
35327751--35327802	15	3.5	15	79	12	54	26	1	0	71	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35327763--35327805	7	6.1	7	91	0	50	20	2	0	76	0.89
35327751--35327812	28	2.1	30	82	8	74	29	1	0	69	0.98
35329083--35329160	27	2.9	27	80	3	95	19	21	34	24	1.96
35329225--35329261	16	2.4	16	90	4	58	59	5	2	32	1.34
35329485--35330019	19	27.2	19	68	23	210	55	14	0	30	1.39
35329523--35329769	8	32.0	8	68	24	113	53	14	0	31	1.41
35329499--35329784	27	11.2	27	87	7	379	53	15	0	31	1.42
35329499--35329784	77	3.7	77	92	5	472	53	15	0	31	1.42
35329485--35329796	100	3.2	99	90	8	457	53	15	0	31	1.42
35329523--35329827	100	3.0	98	87	8	355	54	15	0	30	1.41

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