genome.fa.s1.2.7.7.80.10.50.1000.127.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  127  of  187  ( 22383 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)
38536946--38536995	26	1.9	26	100	0	100	36	16	24	24	1.94
38537170--38537230	27	2.3	27	85	0	77	24	9	22	42	1.84
38537184--38537300	27	4.1	27	81	9	128	21	16	18	43	1.88
38537184--38537300	54	2.1	56	85	10	159	21	16	18	43	1.88
38549334--38549372	6	6.7	6	91	5	62	69	0	2	28	1.02
38549829--38549886	31	1.9	31	92	3	100	41	6	12	39	1.69
38550276--38550377	41	2.6	39	78	15	111	47	0	7	44	1.39
38550583--38550619	7	5.0	7	87	12	56	56	0	0	43	0.99
38550578--38550612	16	2.2	16	100	0	70	54	0	0	45	0.99
38551679--38551728	21	2.4	21	82	0	55	36	34	2	28	1.69
38554900--38554953	19	2.8	20	77	8	67	62	0	1	35	1.06
38555230--38555292	18	3.4	19	80	10	67	28	4	0	66	1.12
38555236--38555274	19	2.0	19	95	5	69	25	5	0	69	1.09
38555281--38555311	16	1.9	16	93	0	53	35	0	0	64	0.94
38555398--38555588	90	2.1	91	81	1	233	35	7	18	38	1.80
38555749--38555797	21	2.3	21	86	6	64	69	2	0	28	1.00
38562623--38562702	27	3.0	27	84	10	78	40	11	13	35	1.81
38562633--38562702	27	2.6	26	90	2	86	37	11	15	35	1.84
38562643--38562806	27	6.4	27	69	17	116	34	12	15	36	1.86
38562692--38562720	9	3.2	9	100	0	58	24	10	10	55	1.65
38574188--38574260	33	2.2	33	85	2	92	28	24	23	23	1.99
38574360--38574440	26	3.1	26	82	7	110	32	24	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38574360--38574466	52	2.1	52	83	3	135	32	24	22	20	1.98
38575581--38575636	21	2.7	21	88	0	85	25	10	35	28	1.89
38577088--38577122	14	2.4	15	85	4	54	37	8	0	54	1.31
38579372--38579406	4	9.0	4	93	6	63	74	0	0	25	0.82
38579710--38579805	31	3.1	31	95	3	174	45	13	9	31	1.75
38585645--38585683	4	10.0	4	94	5	71	74	0	0	25	0.82
38585987--38586082	31	3.1	31	95	3	174	45	13	9	31	1.75
38587478--38587592	50	2.3	49	86	1	158	26	23	20	30	1.98
38587478--38587592	25	4.6	25	77	14	112	26	23	20	30	1.98
38589157--38589198	21	2.0	21	100	0	84	33	14	23	28	1.94
38589247--38589338	30	2.9	32	78	15	93	26	21	25	27	2.00
38589448--38589517	26	2.7	26	84	0	86	42	22	17	17	1.88
38592816--38593146	87	3.8	87	88	0	493	24	23	23	29	1.99
38618751--38618793	22	2.0	22	86	9	61	74	9	6	9	1.22
38620609--38620655	24	2.0	24	83	8	60	17	34	0	48	1.47
38622678--38622778	49	2.1	49	81	3	114	30	26	14	27	1.95
38623663--38623715	27	1.9	28	84	3	72	28	26	20	24	1.99
38623730--38624032	51	6.0	51	79	7	339	29	26	18	25	1.98
38623738--38624024	102	2.8	101	91	1	459	30	26	18	24	1.98
38624258--38624316	30	2.0	29	83	12	75	30	16	13	38	1.88
38630090--38630318	61	3.8	61	83	0	278	27	26	15	31	1.96
38630537--38630572	18	1.9	19	88	5	56	13	5	19	61	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38631389--38631461	20	3.7	20	72	7	67	36	23	21	17	1.94
38635793--38635835	22	2.0	22	85	0	59	11	18	25	44	1.84
38635921--38636163	43	5.7	43	85	4	312	30	27	15	26	1.96
38635913--38636188	86	3.2	87	83	5	321	32	27	14	25	1.95
38635911--38636183	129	2.1	129	81	5	320	32	27	15	24	1.95
38637351--38637381	16	1.9	16	100	0	62	38	12	12	35	1.82
38640526--38640811	41	7.0	42	78	10	279	33	28	16	20	1.95
38640526--38640818	82	3.6	82	82	2	356	33	29	16	20	1.95
38640526--38640818	123	2.4	123	82	7	371	33	29	16	20	1.95
38640842--38640867	13	2.0	13	100	0	52	15	15	23	46	1.83
38643823--38643938	30	3.9	28	81	11	124	24	22	26	26	2.00
38644038--38644111	26	2.9	25	75	4	76	33	22	22	20	1.97
38644341--38644736	27	14.7	27	84	4	426	20	17	21	40	1.92
38647037--38647109	34	2.1	35	84	2	94	10	23	12	53	1.69
38647739--38647936	27	7.3	27	84	4	256	42	19	20	17	1.89
38648298--38648372	28	2.7	28	82	0	96	22	25	24	28	2.00
38654570--38654652	35	2.4	35	83	4	105	7	32	10	49	1.65
38655280--38655533	27	9.4	27	80	5	280	42	20	18	18	1.89
38655720--38655782	26	2.4	26	72	0	63	19	19	20	41	1.91
38666208--38666249	21	2.0	21	85	0	57	47	11	2	38	1.53
38672302--38672361	21	2.7	23	82	12	72	31	3	11	53	1.53
38672303--38672361	23	2.6	22	78	10	66	32	3	11	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38675880--38675926	25	1.9	24	86	4	67	51	10	19	19	1.75
38685641--38685717	33	2.3	33	82	8	93	28	16	27	27	1.97
38685607--38685866	101	2.6	102	84	4	323	30	14	26	29	1.95
38687595--38687624	13	2.3	13	94	0	51	43	10	23	23	1.83
38690430--38690472	20	2.3	18	85	14	61	20	4	4	69	1.25
38690421--38690496	25	3.0	26	74	18	70	21	5	3	69	1.24
38698765--38698905	43	3.4	41	81	8	142	21	16	24	37	1.93
38706282--38706315	17	1.9	18	88	5	52	44	2	17	35	1.64
38710848--38710873	9	2.9	9	100	0	52	57	30	11	0	1.34
38711883--38711941	3	19.7	3	89	0	91	30	1	0	67	1.00
38712887--38712936	25	1.9	25	84	8	64	34	8	4	54	1.49
38718804--38718881	24	2.9	29	77	18	112	33	16	17	32	1.93
38725703--38725755	16	3.3	16	82	10	72	33	7	33	24	1.84
38725969--38726010	15	2.7	16	82	14	52	52	2	0	45	1.13
38725978--38726019	15	2.9	15	82	10	52	52	0	0	47	1.00
38726293--38726333	21	2.0	21	100	0	82	56	9	0	34	1.32
38734334--38734376	11	3.9	11	96	0	68	69	6	4	18	1.29
38734335--38734376	22	1.9	22	95	0	75	69	7	4	19	1.31
38735254--38735296	21	2.0	21	90	0	68	76	0	18	4	0.95
38735249--38735296	15	3.3	14	82	5	60	77	0	18	4	0.93
38735301--38735403	41	2.5	41	84	3	136	53	7	19	19	1.69
38746194--38746227	16	2.1	16	94	0	59	32	11	8	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38752117--38752181	33	2.0	33	93	0	112	27	18	27	26	1.98
38752299--38752373	26	2.8	26	79	2	78	34	22	21	21	1.97
38752587--38752810	27	8.3	27	89	0	304	20	16	20	43	1.88
38752561--38752810	54	4.6	53	88	4	299	20	16	19	42	1.89
38752588--38752800	81	2.6	81	92	0	336	20	16	20	42	1.89
38752559--38752871	27	11.6	26	78	8	211	21	15	19	42	1.88
38753099--38753158	20	3.2	19	81	11	54	21	41	21	15	1.89
38758325--38758361	17	2.1	17	90	5	56	51	0	10	37	1.37
38762501--38762547	18	2.4	20	79	17	62	29	6	2	61	1.32
38762505--38762542	18	2.1	18	95	0	67	34	5	2	57	1.35
38762985--38763017	14	2.4	14	90	5	50	27	12	18	42	1.85
38764663--38764709	24	2.0	24	91	0	76	27	17	17	38	1.91
38776743--38776781	6	6.3	6	90	3	60	64	2	17	15	1.41
38777392--38777434	6	7.0	6	91	2	68	62	0	20	16	1.32
38782828--38782934	36	3.0	36	86	2	135	41	28	13	16	1.86
38792955--38792995	21	2.0	21	85	4	57	43	2	4	48	1.37
38797529--38797585	27	2.1	27	93	0	96	33	15	19	31	1.93
38800228--38800276	20	2.5	20	81	15	66	12	24	6	57	1.58
38800528--38800720	50	3.7	50	77	4	188	24	27	21	25	1.99
38811843--38811939	48	2.0	48	100	0	194	38	26	8	26	1.85
38817612--38817939	164	2.0	164	98	0	638	35	21	11	32	1.89
38823251--38823309	20	3.0	20	75	9	66	37	22	30	10	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38827168--38827225	29	2.0	29	100	0	116	13	27	3	55	1.55
38829242--38829679	50	8.6	50	82	1	471	22	28	20	28	1.99
38831944--38831987	23	1.9	23	95	0	79	38	11	25	25	1.89
38837387--38837678	50	5.9	50	85	0	325	27	20	29	22	1.98
38840170--38840563	50	7.9	50	90	0	554	21	31	21	26	1.98
38851262--38851363	53	1.9	53	84	4	134	33	11	23	31	1.91
38851491--38851612	29	4.3	28	78	12	124	29	18	24	27	1.98
38851491--38851641	28	5.4	28	76	12	112	30	17	25	27	1.97
38851491--38851629	29	5.0	27	76	10	95	31	17	25	25	1.97
38860351--38860547	48	4.1	48	80	2	234	21	28	21	28	1.99

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