genome.fa.s10.2.7.7.80.10.50.1000.111.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  111  of  202  ( 24201 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)
34147939--34147971	13	2.5	13	95	0	57	21	9	0	69	1.15
34149552--34149589	20	1.9	19	94	5	67	31	15	28	23	1.96
34156449--34156493	19	2.3	20	88	3	65	6	13	2	77	1.05
34158676--34158723	9	4.9	10	82	12	64	12	6	0	81	0.87
34158674--34158723	19	2.5	20	90	6	84	14	8	0	78	0.97
34158705--34158740	14	2.7	14	91	8	58	19	8	0	72	1.10
34159041--34159084	22	2.0	22	95	0	79	34	4	36	25	1.76
34160235--34160293	30	2.0	30	83	6	75	28	15	25	30	1.96
34163027--34163107	12	6.8	12	69	17	53	12	24	1	61	1.38
34163042--34163097	18	3.0	20	68	26	59	10	26	0	62	1.28
34163087--34163124	18	2.1	19	90	5	60	7	23	0	68	1.16
34163137--34163183	15	3.1	15	84	9	60	12	17	0	70	1.17
34163137--34163194	28	2.0	29	83	12	75	12	17	0	70	1.16
34166741--34166790	10	5.0	10	78	9	57	30	14	28	28	1.95
34166744--34166790	20	2.3	20	89	7	69	27	14	29	27	1.96
34170300--34170326	10	2.7	10	100	0	54	18	7	29	44	1.77
34170855--34170978	63	2.0	63	100	0	248	37	23	32	7	1.82
34180472--34180516	13	3.6	13	80	20	60	75	0	8	15	1.03
34180470--34180516	23	2.0	24	95	4	87	72	0	10	17	1.12
34183390--34183421	12	2.7	12	100	0	64	81	6	0	12	0.87
34183463--34183511	12	3.8	12	87	12	71	69	0	10	20	1.17
34183465--34183511	14	3.5	13	88	11	69	72	0	8	19	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34188392--34188433	22	1.9	22	85	0	57	26	28	4	40	1.76
34195860--34195889	13	2.3	13	94	0	51	36	16	13	33	1.88
34197195--34197247	20	2.7	20	88	2	81	54	11	7	26	1.62
34199171--34199346	96	1.8	96	92	0	298	34	15	15	35	1.89
34199611--34199673	21	3.0	21	88	2	90	30	3	33	33	1.74
34205561--34205615	25	2.2	25	83	0	65	45	18	18	18	1.86
34206680--34206720	18	2.2	18	91	8	64	73	0	14	12	1.11
34209369--34209434	26	2.5	26	82	4	80	19	19	24	36	1.95
34209428--34209627	32	6.3	32	85	0	222	22	20	20	37	1.95
34209619--34209683	22	3.0	21	76	13	69	16	18	18	46	1.85
34212543--34212635	19	5.1	19	68	21	72	45	12	9	32	1.75
34212533--34212658	54	2.3	54	93	0	216	42	15	9	33	1.79
34212733--34212772	20	2.0	21	85	5	55	35	15	17	32	1.91
34214126--34214248	57	2.2	55	80	13	128	9	21	1	67	1.28
34214177--34214248	18	3.9	18	78	7	83	5	20	1	72	1.13
34214177--34214245	6	11.3	6	72	9	59	4	20	1	73	1.07
34214177--34214262	37	2.2	39	76	13	88	8	19	1	70	1.18
34219728--34219769	17	2.5	16	82	17	50	11	21	4	61	1.48
34220985--34221039	20	2.8	20	83	10	76	23	21	16	38	1.93
34228093--34228143	25	2.1	24	81	3	57	50	11	15	21	1.76
34237163--34237205	13	3.3	12	81	12	50	2	0	13	83	0.74
34237163--34237214	21	2.5	21	87	6	70	1	1	13	82	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34241173--34241304	50	2.6	51	82	3	167	37	13	14	34	1.86
34243717--34243893	27	6.6	27	86	0	201	43	9	20	26	1.82
34243718--34243893	54	3.3	54	86	0	244	43	9	20	26	1.81
34245283--34245323	20	2.0	21	85	4	57	24	21	17	36	1.94
34247952--34247985	18	1.9	17	88	5	50	23	11	2	61	1.43
34256312--34256740	212	2.0	212	100	0	858	31	19	14	34	1.92
34258448--34258532	25	3.4	25	71	19	70	38	20	12	28	1.89
34258465--34258711	25	9.9	25	80	3	219	38	23	12	26	1.89
34258467--34258677	75	2.8	75	86	1	289	38	22	11	27	1.89
34258467--34258711	75	3.3	74	81	4	276	38	23	11	26	1.89
34270741--34270795	20	2.8	20	83	10	76	23	21	16	38	1.93
34275374--34275420	20	2.4	20	89	10	71	4	17	2	76	1.04
34281889--34281956	20	3.5	19	74	6	64	36	11	27	23	1.90
34284800--34284839	19	2.1	19	85	4	53	12	27	15	45	1.82
34284843--34284882	20	2.0	20	90	0	62	25	25	15	35	1.94
34287151--34287240	30	2.9	30	78	18	94	75	3	16	4	1.10
34287164--34287294	6	21.0	6	71	10	93	72	3	18	6	1.18
34287867--34287976	34	3.2	33	92	6	184	37	10	11	40	1.75
34297930--34298002	30	2.4	30	100	0	146	34	10	15	39	1.82
34299743--34299794	18	2.9	18	88	5	70	73	0	19	7	1.07
34299741--34299823	24	3.5	24	75	14	73	68	2	19	9	1.28
34299762--34299826	30	2.2	30	85	0	85	69	3	18	9	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34299744--34299842	48	2.1	48	82	0	117	68	2	20	9	1.27
34299762--34299799	6	6.3	6	87	0	58	78	0	15	5	0.91
34301684--34301759	34	2.2	34	95	0	134	35	6	14	43	1.71
34305518--34305564	25	1.9	24	86	4	67	55	10	14	19	1.68
34310751--34310797	25	1.9	24	82	4	58	53	10	17	19	1.72
34316012--34316053	10	4.2	10	78	9	50	40	14	23	21	1.90
34316018--34316073	20	2.8	19	87	12	78	33	14	26	25	1.94
34316016--34316082	20	3.4	19	78	13	73	35	13	26	23	1.92
34329882--34329938	11	4.8	12	81	14	57	15	7	7	70	1.32
34329881--34329926	12	3.6	14	77	16	55	15	6	6	71	1.27
34329891--34329936	11	4.0	11	83	10	65	17	4	8	69	1.31
34331153--34331245	47	2.0	45	82	12	109	46	7	13	32	1.72
34333869--34333900	16	2.0	16	93	0	55	25	15	0	59	1.36
34334128--34334318	51	3.8	51	78	8	228	30	27	16	25	1.97
34334124--34334310	101	1.8	102	86	3	243	31	26	17	25	1.97
34337075--34337167	47	2.0	47	84	2	123	32	27	16	23	1.96
34341401--34341432	16	2.0	16	93	0	55	25	15	0	59	1.36
34341650--34341845	51	3.9	51	76	7	193	30	27	17	25	1.97
34357853--34358134	72	3.9	72	89	1	413	55	16	6	21	1.63
34360777--34360857	22	3.7	22	86	0	117	30	13	25	29	1.94
34365171--34365271	52	1.9	52	93	0	175	26	17	21	33	1.96
34376237--34376285	20	2.4	21	80	10	57	24	18	32	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34378141--34378180	15	2.6	15	84	15	55	7	25	0	67	1.16
34378176--34378234	18	3.3	18	85	0	82	5	15	6	72	1.23
34378146--34378238	6	15.3	6	69	5	62	5	18	4	72	1.21
34380906--34380954	20	2.4	21	80	10	57	24	18	32	24	1.97
34382794--34382833	15	2.6	15	84	15	55	7	25	0	67	1.16
34382829--34382921	18	5.3	18	75	8	84	7	18	4	69	1.29
34382799--34382891	6	15.3	6	69	5	62	5	18	4	72	1.21
34385501--34385549	20	2.4	21	80	10	57	24	18	32	24	1.97
34388062--34388162	52	1.9	52	91	0	166	27	17	20	33	1.96
34392623--34392665	21	2.0	21	86	0	59	41	2	18	37	1.63
34395531--34395597	34	1.9	35	93	3	118	47	13	2	35	1.58
34396538--34396571	17	2.0	17	94	0	59	61	2	11	23	1.43
34396975--34397113	3	46.3	3	86	0	170	0	24	0	74	0.86
34399589--34399648	24	2.6	22	79	10	68	33	30	5	31	1.79
34406937--34406981	19	2.5	17	80	13	54	13	8	2	75	1.13
34406947--34407005	10	5.7	10	80	11	57	11	6	3	77	1.07
34406947--34407006	11	5.6	11	79	15	72	11	6	3	78	1.06
34408211--34408283	29	2.5	29	95	0	128	45	13	9	31	1.76
34422714--34422746	3	11.0	3	100	0	66	33	33	0	33	1.58
34424135--34424379	72	3.4	73	83	3	291	54	14	6	24	1.63
34434440--34434482	21	2.0	21	86	0	59	41	2	18	37	1.63
34437407--34437453	20	2.3	20	85	7	60	25	17	29	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34438861--34438927	34	1.9	35	93	3	118	47	13	2	35	1.58
34439868--34439901	17	2.0	17	94	0	59	61	2	11	23	1.43
34440307--34440410	18	5.7	18	93	3	165	0	26	0	72	0.91
34440307--34440407	3	33.7	3	88	0	148	0	26	0	72	0.91
34461620--34461653	16	2.0	18	88	11	54	47	11	11	29	1.76
34475221--34475300	27	3.0	27	69	7	72	22	28	13	35	1.92
34478121--34478168	24	2.0	24	83	0	60	12	10	16	60	1.58
34478590--34478654	22	2.9	22	79	2	67	36	4	32	26	1.77
34484918--34485012	25	3.8	25	84	0	109	31	20	25	23	1.98
34492034--34492093	25	2.4	25	80	0	66	55	18	18	8	1.67

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