genome.fa.s2.2.7.7.80.10.50.1000.71.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  71  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)
20067539--20067591	22	2.5	22	78	9	65	49	1	3	45	1.31
20072819--20072862	10	4.3	10	83	11	54	61	4	0	34	1.16
20072854--20072933	29	2.9	27	72	15	65	56	2	1	40	1.21
20075304--20075333	13	2.4	13	94	5	53	50	0	0	50	1.00
20075418--20075474	15	3.5	15	71	17	51	52	1	0	45	1.11
20078130--20078179	21	2.5	20	80	3	55	46	14	10	30	1.77
20078633--20078672	2	20.5	2	94	5	73	50	0	0	50	1.00
20081150--20081203	20	2.7	20	88	5	74	27	5	14	51	1.64
20081150--20081219	20	3.5	19	77	14	63	27	7	17	48	1.72
20087287--20087336	20	2.5	20	83	0	55	42	24	6	28	1.78
20088106--20088176	31	2.3	31	90	0	106	50	1	5	42	1.34
20089624--20089670	20	2.3	20	88	0	67	55	2	4	38	1.31
20091950--20092422	217	2.2	219	88	4	699	27	23	20	28	1.99
20092176--20092460	87	3.3	87	73	9	283	29	22	20	28	1.98
20091907--20092548	174	3.7	174	81	6	707	27	22	20	30	1.98
20092117--20092854	44	16.8	46	71	12	274	26	23	20	29	1.99
20092251--20092584	87	3.8	87	72	7	302	26	23	20	29	1.99
20092301--20092939	218	2.9	218	93	0	1075	26	22	21	29	1.99
20091907--20092807	174	5.2	172	78	7	526	27	22	20	29	1.98
20091995--20092812	392	2.1	388	93	2	1397	27	22	20	29	1.99
20092694--20092952	131	2.0	132	83	6	328	26	22	21	30	1.98
20092000--20092941	392	2.4	388	88	3	1282	27	22	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20094216--20094253	7	5.6	7	87	6	60	15	15	0	68	1.22
20094211--20094252	13	3.1	13	86	6	57	14	19	0	66	1.25
20095269--20095301	6	5.5	6	96	0	57	15	3	15	66	1.37
20102573--20102624	24	2.2	24	82	6	61	36	3	5	53	1.43
20109302--20109351	20	2.7	19	80	20	61	54	2	2	42	1.23
20130008--20130083	40	1.9	40	83	5	100	27	23	0	48	1.51
20131224--20131249	7	3.7	7	100	0	52	26	0	15	57	1.38
20132194--20132234	21	2.0	21	85	0	55	29	46	21	2	1.64
20132488--20132879	21	18.6	21	91	3	617	42	31	0	24	1.60
20132919--20132953	18	1.9	18	88	0	52	48	34	0	17	1.47
20133099--20133144	22	2.1	22	84	4	58	47	36	0	15	1.45
20135769--20135850	43	1.9	43	81	18	100	20	20	28	30	1.98
20144282--20144325	18	2.5	18	92	3	72	50	0	2	47	1.13
20145050--20145102	23	2.3	23	80	6	63	43	7	0	49	1.31
20145185--20145224	18	2.2	19	90	4	64	52	2	0	45	1.14
20145185--20145245	19	3.2	19	83	4	70	54	1	1	42	1.20
20145770--20145803	15	2.4	14	86	13	52	32	0	0	67	0.91
20152090--20152114	11	2.3	11	100	0	50	0	8	0	92	0.40
20152369--20152430	25	2.5	25	81	2	63	72	4	6	16	1.23
20153179--20153285	50	2.2	50	83	6	130	57	0	0	41	1.05
20154284--20154544	22	11.0	23	65	25	109	39	16	10	32	1.83
20154284--20154541	47	5.4	45	85	8	300	39	16	10	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20154312--20154544	98	2.4	94	90	5	385	38	16	10	33	1.84
20154779--20154827	15	3.2	15	85	8	55	48	20	0	30	1.50
20155474--20155597	43	2.9	43	82	13	148	31	29	20	18	1.96
20159358--20159448	32	2.8	32	78	17	116	34	7	14	43	1.74
20160084--20160108	12	2.1	12	100	0	50	68	8	24	0	1.16
20166631--20166662	14	2.3	14	100	0	64	43	6	0	50	1.27
20166737--20166805	27	2.5	27	86	6	95	40	10	1	47	1.46
20166806--20166839	9	3.8	9	96	0	59	88	8	0	2	0.62
20166808--20166848	17	2.4	16	88	8	55	87	7	2	2	0.70
20166883--20166959	27	2.9	27	88	0	100	28	22	40	9	1.84
20167008--20167139	56	2.4	56	84	5	160	65	0	30	3	1.10
20167028--20167146	10	12.5	10	66	19	58	64	0	31	4	1.12
20167056--20167210	38	4.3	35	75	18	124	67	0	30	2	1.04
20167035--20167125	28	3.2	28	72	17	82	64	0	31	3	1.09
20167011--20167206	18	10.4	18	71	14	121	66	0	31	2	1.05
20167008--20167158	56	2.7	56	81	10	157	65	0	31	3	1.09
20167893--20167944	19	2.7	19	87	0	68	25	0	7	67	1.17
20167951--20167976	13	2.0	13	100	0	52	76	0	0	23	0.78
20167985--20168051	28	2.3	29	92	7	111	40	8	0	50	1.34
20169394--20169430	17	2.2	17	100	0	74	29	16	8	45	1.76
20170313--20170341	14	2.1	14	100	0	58	37	6	0	55	1.27
20170481--20170524	20	2.2	20	95	0	79	2	36	0	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20170496--20170550	15	3.9	14	75	15	60	0	34	0	65	0.93
20170522--20170560	18	2.2	17	86	13	53	0	33	0	66	0.92
20170516--20170558	22	1.9	23	85	4	61	0	30	0	69	0.88
20170607--20170660	27	2.0	27	96	0	99	11	46	20	22	1.82
20170715--20170761	23	2.0	23	100	0	94	57	0	8	34	1.29
20171655--20171729	35	2.1	35	87	0	105	57	6	18	17	1.61
20174438--20174495	19	3.0	19	75	5	62	27	25	25	20	1.99
20174426--20174900	243	2.0	243	87	1	693	34	23	14	27	1.94
20175834--20175873	20	2.0	20	90	0	62	37	12	0	50	1.41
20182424--20182660	40	6.0	40	82	8	274	30	21	16	31	1.95
20182424--20182639	79	2.7	79	86	2	308	31	22	16	30	1.95
20184579--20184636	24	2.4	24	94	0	98	29	15	8	46	1.75
20187547--20187611	29	2.2	28	77	17	69	44	1	3	50	1.26
20189189--20189232	19	2.4	18	81	7	54	52	0	0	47	1.00
20190062--20190107	24	1.9	24	100	0	92	13	30	0	56	1.37
20200166--20200199	17	1.9	18	88	5	52	50	0	0	50	1.00
20200404--20200463	21	2.9	21	76	16	63	28	1	26	43	1.65
20203247--20203299	3	17.7	3	100	0	106	33	0	0	66	0.92
20205897--20205948	20	2.8	18	73	21	54	51	3	3	40	1.38
20209396--20209436	2	20.5	2	89	0	64	46	0	2	51	1.14
20209694--20209833	75	1.9	75	80	5	167	31	3	18	46	1.66
20209920--20210083	41	4.0	41	85	6	172	25	22	28	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20211906--20211932	9	3.0	9	100	0	54	44	0	0	55	0.99
20214122--20214165	21	2.1	21	100	0	88	54	0	18	27	1.44
20231420--20231501	6	13.7	6	98	0	155	69	15	0	14	1.19
20231432--20231554	41	3.0	41	82	5	124	69	11	7	12	1.37
20231420--20231572	54	2.8	53	81	5	148	69	10	8	11	1.36
20232517--20232634	42	2.8	41	83	5	137	32	11	27	29	1.91
20233781--20233918	44	3.2	44	63	13	113	24	22	26	26	2.00
20233726--20234341	88	7.0	88	89	3	784	27	24	26	22	2.00
20240186--20240291	52	2.0	53	98	1	205	24	7	16	50	1.71
20244757--20244862	52	2.0	53	98	1	205	24	7	16	50	1.71
20245748--20245825	40	2.0	40	87	10	115	21	12	25	39	1.89
20245804--20245975	70	2.5	70	77	1	184	25	21	22	30	1.99
20246347--20246384	12	3.2	12	92	0	58	39	5	10	44	1.61
20247646--20247672	12	2.2	12	100	0	54	33	0	40	25	1.56
20263032--20263106	34	2.2	33	79	13	82	49	4	0	46	1.20
20264049--20264115	31	2.2	31	83	0	80	16	22	50	10	1.75
20266310--20266337	14	2.0	14	100	0	56	35	21	7	35	1.81
20267519--20267752	62	3.7	62	90	2	333	48	8	6	35	1.61
20281233--20281290	21	2.8	21	89	0	80	31	36	10	22	1.88
20281386--20281473	45	2.0	45	88	4	133	31	20	19	28	1.97
20281480--20281667	51	3.7	50	83	6	236	31	28	17	22	1.96
20281482--20281666	101	1.8	101	89	3	291	31	27	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20283235--20283530	62	4.7	62	92	1	448	35	6	9	48	1.61
20284090--20284158	18	3.8	17	90	3	84	1	27	36	34	1.66
20284102--20284161	6	10.0	6	88	0	93	0	30	35	35	1.58
20284802--20284836	14	2.5	14	95	0	61	40	5	20	34	1.76
20287043--20287078	14	2.6	14	95	0	63	30	36	0	33	1.58
20287730--20287782	24	2.2	24	80	6	63	49	9	3	37	1.53
20287769--20287802	14	2.4	14	90	0	59	50	5	0	44	1.26
20288435--20288464	12	2.5	12	94	0	51	20	26	0	53	1.46
20294706--20294757	24	2.2	24	89	6	79	21	3	21	53	1.61
20298370--20298429	28	2.1	29	87	3	86	45	18	0	36	1.50

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