genome.fa.s8.2.7.7.80.10.50.1000.34.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  34  of  190  ( 22705 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)
9748439--9748719	41	6.9	41	90	1	420	19	22	27	29	1.98
9749382--9749414	14	2.3	15	94	5	59	36	0	27	36	1.57
9749445--9749478	7	4.9	7	85	0	50	17	2	52	26	1.58
9749486--9749517	15	2.1	16	94	5	57	21	0	31	46	1.52
9749576--9749646	33	2.2	33	89	5	108	16	1	43	38	1.57
9749578--9749668	14	6.8	14	68	25	54	18	1	43	36	1.58
9749658--9749705	22	2.2	22	88	7	71	31	0	35	33	1.58
9749649--9749714	29	2.3	29	79	7	71	28	0	37	33	1.58
9751753--9751936	43	4.3	43	90	0	280	21	16	32	30	1.95
9753974--9754020	18	2.6	18	86	0	58	29	19	27	23	1.98
9756378--9756523	73	2.0	73	97	0	274	34	16	8	41	1.78
9762791--9762961	85	2.0	85	93	0	288	36	21	8	33	1.83
9771457--9771489	2	17.0	2	93	6	59	48	0	0	51	1.00
9771588--9771620	3	11.0	3	87	12	50	66	0	0	33	0.92
9772730--9772869	41	3.6	39	76	8	142	33	25	16	24	1.96
9773774--9773932	44	3.7	44	76	12	161	27	22	22	27	1.99
9774020--9774331	44	7.1	44	64	9	161	26	24	18	30	1.98
9774045--9774370	44	7.4	44	64	12	125	26	24	18	30	1.98
9774027--9774529	132	3.8	131	95	0	871	27	23	18	29	1.98
9776707--9776747	20	2.0	20	90	9	66	65	4	14	14	1.42
9778615--9778660	19	2.3	20	85	3	58	45	8	19	26	1.79
9778694--9778719	13	2.0	13	100	0	52	46	15	7	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9783124--9783184	4	13.8	4	74	19	50	3	21	6	68	1.27
9784782--9784847	2	32.5	2	91	8	107	48	3	0	48	1.17
9789149--9789215	30	2.3	30	77	12	84	19	38	0	41	1.51
9791287--9791410	43	2.9	43	86	1	167	26	17	23	32	1.97
9804060--9804102	21	2.0	21	90	0	68	39	27	4	27	1.76
9805715--9805747	6	5.5	6	100	0	66	15	0	48	36	1.45
9805793--9805817	7	3.6	7	100	0	50	0	12	0	88	0.53
9821884--9821916	11	2.9	12	86	13	52	66	0	0	33	0.92
9824463--9824490	11	2.5	11	100	0	56	0	0	7	92	0.37
9832405--9832486	42	2.0	42	87	0	119	48	10	4	35	1.60
9832638--9832673	10	3.5	10	88	3	54	0	27	0	72	0.85
9833827--9833891	30	2.2	30	91	0	103	27	27	3	41	1.71
9833851--9833896	21	2.2	21	84	0	56	30	21	4	43	1.72
9834045--9834092	20	2.5	19	80	6	51	33	2	2	62	1.18
9835122--9835413	150	1.9	150	89	0	449	30	20	19	29	1.97
9836213--9836268	25	2.3	24	79	11	69	44	0	3	51	1.18
9836218--9836265	25	1.9	25	87	8	71	37	0	4	58	1.18
9839315--9839581	124	2.1	124	88	3	394	30	18	16	34	1.93
9839713--9839785	21	3.5	21	66	14	60	47	21	0	30	1.51
9846072--9846202	57	2.3	57	84	2	156	41	4	19	34	1.72
9847123--9847147	2	12.5	2	100	0	50	48	0	0	52	1.00
9847359--9847391	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9847573--9847622	21	2.4	21	75	15	59	40	12	2	46	1.52
9847719--9847827	41	2.7	41	85	2	130	32	22	18	27	1.97
9850784--9850842	19	3.2	17	77	15	55	35	1	3	59	1.24
9850838--9850903	18	3.6	18	73	10	53	31	3	1	63	1.19
9850964--9851037	30	2.5	29	84	6	103	52	14	5	27	1.63
9856252--9856280	2	15.0	2	92	7	51	48	0	0	51	1.00
9864017--9864051	16	2.1	17	89	5	54	31	0	8	60	1.27
9867844--9867880	5	7.2	5	93	6	65	18	2	0	78	0.87
9867847--9867877	16	1.9	16	100	0	62	19	3	0	77	0.90
9868969--9869008	15	2.7	15	84	0	53	37	5	2	55	1.35
9870179--9870237	30	2.0	30	100	0	118	22	27	16	33	1.95
9874172--9874251	1	80.0	1	69	0	52	85	0	12	2	0.71
9874173--9874251	6	13.8	6	80	12	87	84	0	12	2	0.71
9874172--9874251	11	6.9	11	78	8	79	85	0	12	2	0.71
9874171--9874256	31	2.9	29	81	16	113	82	0	12	4	0.81
9874173--9874256	34	2.5	35	84	9	111	83	0	13	3	0.77
9875177--9875281	44	2.4	45	80	6	115	29	20	20	29	1.98
9875206--9875443	44	5.2	44	68	14	108	33	16	21	28	1.95
9875320--9876123	44	17.8	43	72	12	390	32	19	20	27	1.97
9875320--9876272	318	3.0	316	85	5	1221	32	19	20	27	1.97
9875909--9876258	132	2.6	136	80	8	365	30	20	22	26	1.98
9876193--9876290	44	2.3	43	90	1	151	30	26	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9876193--9876305	44	2.6	44	85	2	138	30	23	23	22	1.99
9878068--9878176	41	2.7	41	84	2	139	26	26	19	27	1.99
9880481--9880526	22	2.0	24	83	8	60	32	6	4	56	1.45
9886395--9886420	4	6.5	4	100	0	52	73	0	0	26	0.84
9896740--9896815	29	2.5	31	76	4	84	23	13	13	50	1.76
9898550--9899035	164	3.0	163	89	4	723	25	17	17	38	1.92
9898548--9899035	161	3.0	163	88	5	718	25	17	17	38	1.92
9909853--9909939	43	2.0	43	86	0	120	34	11	10	43	1.75
9910024--9910089	34	1.9	34	84	9	89	40	3	1	54	1.25
9910024--9910092	35	2.0	35	83	11	88	40	2	1	55	1.24
9910205--9910301	43	2.3	43	94	0	167	24	18	30	25	1.98
9911182--9911249	26	2.6	26	92	2	109	60	4	1	33	1.26
9912149--9912224	40	1.9	40	86	0	107	59	2	5	32	1.34
9919953--9919977	12	2.1	12	100	0	50	24	36	24	16	1.94
9920138--9920241	9	11.4	9	88	6	147	39	27	10	22	1.87
9920930--9921125	50	3.8	50	80	6	171	29	19	27	23	1.98
9920985--9921116	50	2.6	50	86	0	174	28	22	29	19	1.98
9920984--9921169	50	3.8	49	81	9	164	28	22	27	21	1.99
9922090--9922431	123	2.8	123	95	0	587	28	14	22	34	1.94
9925377--9925522	19	7.8	19	74	22	141	50	3	7	39	1.48
9925369--9925533	37	4.5	37	97	0	303	50	3	6	39	1.46
9925532--9925704	29	6.0	29	86	4	242	24	0	30	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9925535--9925704	58	2.9	58	91	3	272	24	0	30	45	1.54
9925529--9925712	87	2.1	87	87	4	273	25	0	29	45	1.54
9926908--9926948	18	2.3	18	86	0	64	41	4	31	21	1.74
9928798--9928845	22	2.2	22	96	0	87	43	0	31	25	1.55
9928759--9928925	73	2.3	73	93	1	282	43	1	28	26	1.62
9928868--9928923	22	2.5	22	85	2	76	39	1	32	26	1.67
9928908--9928940	10	3.0	11	86	13	50	45	0	36	18	1.49
9953771--9953811	20	2.0	22	85	9	59	41	2	2	53	1.27
9954130--9954160	15	2.1	15	93	0	53	35	6	0	58	1.24
9954200--9954263	3	21.7	3	93	3	112	67	1	0	31	1.00
9956858--9956936	28	2.8	29	74	14	83	62	0	3	34	1.14
9956864--9956936	30	2.5	30	78	6	89	58	0	4	36	1.17
9962370--9962394	2	12.5	2	100	0	50	52	0	0	48	1.00
9969222--9969325	52	2.0	52	86	0	145	29	25	11	32	1.91
9973879--9973922	13	3.3	13	81	12	54	4	15	4	75	1.14
9973879--9973929	6	8.0	6	77	18	50	3	17	3	74	1.12
9973900--9973940	18	2.4	16	84	11	55	4	17	0	78	0.93
9983066--9983132	28	2.4	28	75	12	66	55	4	1	38	1.29
9984072--9984127	18	3.2	17	82	14	69	32	0	0	67	0.91
9985772--9985822	13	3.9	13	94	0	93	23	9	27	39	1.86
9986440--9986487	12	4.0	12	80	0	60	22	39	10	27	1.87
9987850--9988019	72	2.4	72	86	4	229	55	14	4	25	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9988447--9988494	18	2.7	18	76	0	60	37	16	10	35	1.83
9989201--9989243	20	2.2	20	100	0	86	48	9	4	37	1.56
9990630--9990678	20	2.5	19	80	6	62	67	6	10	16	1.39
9991595--9991634	20	2.0	20	95	0	71	25	7	0	67	1.16
9992990--9993113	41	3.0	41	92	0	176	23	26	22	27	2.00
9993672--9993696	2	12.5	2	100	0	50	52	0	0	48	1.00
9995738--9995768	9	3.4	9	90	0	53	25	12	22	38	1.90
9996933--9997030	51	1.9	51	83	4	126	44	3	24	27	1.68
9996992--9997068	11	6.9	11	73	24	72	44	1	28	25	1.62
9996992--9997068	22	3.5	22	83	16	97	44	1	28	25	1.62

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