genome.fa.s10.2.7.7.80.10.50.1000.113.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  113  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)
34763672--34763736	20	3.3	19	73	16	51	38	16	21	23	1.93
34766727--34766809	28	2.7	30	82	14	91	34	30	19	15	1.93
34766620--34766989	103	3.6	103	91	2	589	33	29	18	18	1.94
34770699--34770756	18	3.4	17	76	13	57	8	24	1	65	1.30
34770721--34770776	15	3.7	15	73	19	53	16	23	0	60	1.35
34770689--34770771	33	2.5	33	86	1	114	12	24	2	61	1.42
34770685--34770780	15	6.1	15	68	20	52	13	25	2	59	1.45
34775171--34775220	26	1.9	26	100	0	100	50	28	0	22	1.49
34788180--34788209	14	2.1	15	93	6	53	43	30	6	20	1.77
34788391--34788416	13	2.0	13	100	0	52	30	7	15	46	1.74
34789486--34789732	50	4.8	51	79	10	229	29	20	27	23	1.99
34789940--34789982	16	2.7	16	81	0	50	55	6	23	13	1.62
34792047--34792202	35	4.4	35	87	2	222	39	32	11	16	1.85
34792038--34792203	71	2.3	71	85	0	251	40	31	10	16	1.83
34792590--34792631	17	2.5	17	84	7	50	35	19	0	45	1.50
34794102--34794334	50	4.6	50	78	6	202	25	21	29	23	1.99
34794499--34794536	20	1.9	20	84	10	51	52	5	23	18	1.65
34812183--34812257	27	2.9	25	82	7	96	40	18	2	38	1.65
34814193--34814242	27	1.9	27	84	8	68	56	20	0	24	1.43
34814425--34814547	50	2.4	50	79	5	140	37	14	13	34	1.86
34816521--34816575	20	2.7	20	75	10	58	10	21	1	65	1.33
34818639--34818759	50	2.4	52	81	5	149	38	14	14	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34819050--34819108	23	2.6	22	87	10	84	33	5	32	28	1.79
34819054--34819119	23	2.9	22	84	6	78	30	4	31	33	1.78
34822912--34822968	27	2.1	27	96	0	105	36	38	10	14	1.80
34829860--34829909	17	2.9	17	81	0	64	10	26	0	64	1.25
34829860--34829925	35	1.9	34	84	3	87	9	28	0	62	1.26
34830453--34830483	2	15.5	2	100	0	62	48	0	0	51	1.00
34832615--34832823	43	4.9	43	84	5	253	31	28	20	19	1.97
34834171--34834386	112	1.9	112	85	3	301	38	14	15	31	1.88
34841148--34841204	28	2.0	28	89	0	87	22	14	22	40	1.90
34852980--34853047	34	2.0	34	97	0	127	38	19	17	25	1.93
34854778--34854849	20	3.4	22	77	12	62	2	11	9	76	1.12
34854789--34854848	20	2.9	22	83	9	74	0	11	10	78	0.97
34854788--34854847	9	5.8	10	76	23	54	0	11	10	78	0.97
34854775--34854848	12	6.9	11	72	17	50	1	12	9	77	1.07
34855385--34855449	32	2.1	32	97	2	123	47	12	9	30	1.72
34857239--34857275	18	2.1	18	100	0	74	51	5	10	32	1.60
34863389--34863442	23	2.3	23	90	6	83	14	37	7	40	1.74
34867130--34867158	5	5.8	5	100	0	58	20	20	17	41	1.90
34880283--34880320	20	2.0	20	89	5	60	57	10	0	31	1.32
34884925--34884998	10	7.4	10	90	0	94	39	5	18	36	1.74
34884925--34884998	5	14.8	5	79	0	85	39	5	18	36	1.74
34895847--34895885	16	2.5	15	83	8	51	43	0	2	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34896551--34896604	25	2.1	26	82	6	65	31	5	1	61	1.30
34908110--34908163	22	2.3	24	78	15	60	37	3	7	51	1.48
34913522--34913583	33	1.9	32	87	9	90	41	17	17	22	1.90
34913534--34913586	16	3.2	16	72	15	54	39	18	18	22	1.92
34920049--34920100	14	3.6	14	72	23	54	30	5	0	63	1.18
34924463--34924487	13	1.9	13	100	0	50	32	16	16	36	1.90
34929592--34929658	16	4.2	17	71	21	56	29	1	5	62	1.28
34935932--34935956	12	2.1	12	100	0	50	24	36	24	16	1.94
34936118--34936193	9	8.4	9	85	0	107	40	23	11	23	1.88
34943278--34943320	15	2.6	17	89	10	72	37	16	4	41	1.69
34950532--34950600	17	3.8	18	80	16	79	63	1	1	33	1.12
34950523--34950594	36	2.0	36	83	5	92	65	2	2	29	1.21
34950532--34950585	26	2.1	26	86	6	74	64	0	1	33	1.04
34950532--34950602	18	3.9	17	78	10	70	61	1	1	35	1.13
34953683--34953760	35	2.2	35	95	0	138	26	25	21	25	2.00
34963950--34963979	13	2.3	13	94	0	51	56	13	6	23	1.60
34966392--34966427	15	2.4	15	100	0	72	47	16	8	27	1.75
34967189--34967333	41	3.6	41	82	0	166	22	27	20	28	1.99
34969865--34969934	6	11.7	6	72	6	61	72	1	20	5	1.12
34970368--34970397	16	1.9	15	93	6	51	20	3	33	43	1.68
34974469--34974500	15	2.1	16	94	5	57	78	3	6	12	1.06
34975429--34975646	43	5.1	42	89	7	323	28	26	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34975429--34975646	86	2.5	86	93	4	361	28	26	18	27	1.98
34975995--34976130	66	2.1	66	92	0	227	13	27	18	40	1.89
34986593--34986633	22	1.9	21	85	14	57	56	24	0	19	1.42
34986657--34986726	16	4.4	16	67	16	56	50	21	1	27	1.57
34986660--34986735	23	3.3	23	73	23	86	48	22	1	27	1.58
34987161--34987360	41	4.9	40	85	3	265	39	28	17	16	1.90
34987136--34987360	82	2.7	80	82	4	247	38	28	18	15	1.90
34994166--34994241	21	3.3	23	76	7	75	25	2	32	39	1.70
34994202--34994264	21	3.0	21	83	2	81	28	3	34	33	1.73
34995397--34995455	30	2.0	30	83	6	75	28	15	25	30	1.96
34998730--34998802	26	2.8	26	78	11	78	34	39	13	12	1.82
35000360--35000433	29	2.6	29	82	0	94	40	18	13	27	1.88
35004552--35004609	25	2.3	26	79	8	66	20	15	22	41	1.90
35006467--35006555	27	3.2	26	73	9	79	35	21	23	19	1.95
35006671--35007108	27	16.2	27	84	4	508	24	15	19	40	1.90
35009252--35009293	12	3.4	13	83	9	52	54	0	7	38	1.28
35015646--35015708	27	2.4	26	82	12	76	47	7	1	42	1.42
35015650--35015721	29	2.8	25	81	12	67	52	6	1	38	1.37
35016704--35016800	21	4.7	21	82	10	119	38	11	10	40	1.75
35016681--35016795	21	5.5	20	84	6	115	39	13	8	39	1.75
35016930--35016958	12	2.3	13	94	5	51	34	10	0	55	1.34
35020722--35020767	19	2.4	18	82	10	56	23	23	13	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35032685--35032751	23	3.0	23	85	8	77	55	7	1	35	1.37
35033741--35033837	21	4.7	21	87	5	144	37	11	10	41	1.75
35033718--35033832	21	5.5	20	85	6	124	38	13	9	39	1.77
35034199--35034370	44	3.9	43	76	8	148	29	22	17	30	1.96
35034187--35034370	89	2.1	88	81	7	212	28	22	17	31	1.97
35034199--35034397	89	2.2	86	79	9	204	30	21	17	31	1.96
35034351--35035281	132	7.1	132	93	0	1551	24	24	20	30	1.98
35034297--35035273	44	22.2	44	65	10	231	25	24	20	30	1.98
35053495--35053547	25	2.1	25	100	0	106	41	18	11	28	1.85
35077434--35077537	52	2.0	52	98	0	199	39	19	4	36	1.73
35080106--35080140	18	2.0	17	88	5	52	54	0	2	42	1.15
35080318--35080368	16	3.2	16	82	0	66	41	3	0	54	1.19
35088203--35088231	14	2.0	15	93	6	51	20	3	0	75	0.94
35090177--35090230	19	2.8	19	94	0	99	37	16	9	37	1.81
35090154--35090230	38	1.9	40	87	10	113	38	16	7	36	1.78
35090876--35090914	20	2.0	20	94	0	69	35	30	15	17	1.91
35092540--35092573	11	3.1	11	87	12	52	44	35	0	20	1.52
35094227--35094332	30	3.5	30	83	2	142	30	13	25	31	1.93
35098428--35098553	32	4.0	32	96	2	229	31	9	15	43	1.78
35098428--35098553	63	2.0	63	95	3	227	31	9	15	43	1.78
35098709--35098763	26	2.1	26	100	0	110	10	23	25	40	1.87
35105820--35105866	25	1.9	24	82	4	58	53	10	17	19	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35106162--35106200	19	2.1	19	85	9	53	17	10	28	43	1.82
35106983--35107057	33	2.2	34	90	2	116	44	12	6	37	1.68
35108009--35108075	23	3.2	23	60	24	56	50	14	11	22	1.76
35107988--35108078	40	2.3	40	98	0	173	49	16	10	23	1.77
35112293--35112339	25	1.9	24	82	4	58	53	10	17	19	1.72
35112636--35112674	19	2.1	19	85	9	53	17	10	28	43	1.82
35118016--35118139	41	3.0	40	83	4	142	20	18	18	42	1.89
35123275--35123340	25	2.6	25	82	0	78	33	18	21	27	1.96
35123426--35123555	13	9.8	13	67	9	57	39	3	18	38	1.69
35129573--35129746	85	2.0	85	95	0	312	29	10	21	38	1.87

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