genome.fa.s17.2.7.7.80.10.50.1000.124.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  124  of  185  ( 22116 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)
38871588--38871630	23	2.0	20	95	4	59	48	18	0	32	1.48
38871465--38871821	183	2.0	180	84	7	470	44	27	0	27	1.59
38871601--38871864	132	2.0	129	86	8	354	46	26	0	26	1.56
38871393--38871851	80	5.6	80	84	11	553	44	27	0	27	1.58
38871698--38871743	22	2.2	20	88	11	67	45	28	0	26	1.54
38871771--38871813	23	2.0	20	95	4	59	48	20	2	27	1.62
38871741--38871843	52	2.0	52	100	0	206	46	25	0	27	1.59
38871830--38871875	22	2.2	20	88	11	67	45	28	0	26	1.54
38871877--38872094	116	1.9	116	96	0	400	38	8	9	44	1.66
38872070--38872111	17	2.4	18	80	4	50	42	9	2	45	1.49
38875104--38875456	126	2.8	126	89	2	557	32	21	15	29	1.95
38885377--38885420	17	2.5	17	96	3	79	18	6	0	75	1.02
38887819--38888042	45	5.0	45	82	4	267	26	15	24	33	1.95
38892868--38892909	19	2.2	19	86	0	57	38	0	47	14	1.44
38892874--38892919	15	3.0	16	82	17	62	36	0	47	15	1.45
38896198--38896233	18	2.0	18	100	0	72	27	5	27	38	1.79
38897934--38897999	29	2.3	29	100	0	132	37	7	19	34	1.80
38903043--38903130	21	4.2	21	86	0	104	19	34	22	23	1.97
38913181--38913261	25	3.3	25	81	5	85	32	23	22	22	1.98
38913214--38913278	25	2.6	25	85	2	78	35	16	26	21	1.95
38917280--38917322	15	2.9	15	96	0	77	32	25	6	34	1.83
38919375--38919401	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38920205--38920266	26	2.4	27	76	13	67	51	0	3	45	1.17
38920520--38920718	109	1.8	108	80	8	242	38	7	7	47	1.59
38920993--38921027	13	2.7	13	95	0	61	68	0	0	31	0.90
38931471--38931532	31	2.0	31	96	0	115	41	14	9	33	1.79
38937080--38937135	26	2.2	25	93	3	94	0	14	10	75	1.06
38937067--38937096	12	2.5	12	88	0	51	0	13	16	70	1.18
38937648--38937740	31	3.0	31	98	0	177	40	16	10	32	1.82
38942601--38942923	79	4.1	77	87	4	416	40	11	15	31	1.84
38942624--38942923	158	1.9	157	89	3	469	41	11	15	32	1.83
38945186--38945269	44	1.9	43	85	2	114	33	29	15	21	1.94
38955257--38955355	50	2.0	50	97	0	189	18	11	24	46	1.81
38962259--38962295	14	2.6	15	83	12	51	32	5	5	56	1.45
38965751--38965788	18	2.1	19	95	5	69	55	0	23	21	1.44
38970453--38970492	15	2.7	15	96	0	71	22	27	12	37	1.90
38975975--38976098	45	2.8	45	82	2	133	25	20	13	39	1.90
38978973--38979011	20	2.1	18	86	13	53	23	23	15	38	1.92
38982510--38982539	3	10.3	3	92	7	53	70	0	0	30	0.88
38987834--38987947	41	2.8	41	87	1	165	23	28	21	25	1.99
38990073--38990124	11	4.6	11	90	2	77	23	32	1	42	1.65
38990073--38990126	22	2.4	23	90	6	92	24	31	1	42	1.65
38990072--38990148	11	6.9	11	72	26	65	24	31	1	42	1.63
38990108--38990207	51	2.0	51	86	7	141	27	26	3	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38990216--38990242	13	2.1	13	100	0	54	22	0	0	77	0.76
38992013--38992052	18	2.2	18	86	0	53	17	30	7	45	1.76
38992629--38993832	22	55.0	22	80	7	1215	45	27	0	25	1.58
38992629--38993832	65	18.7	66	82	5	1362	45	27	0	25	1.58
38992822--38992847	7	3.7	7	100	0	52	57	30	0	11	1.34
38992649--38993832	108	11.0	106	80	8	891	46	27	0	25	1.57
38993780--38993834	21	2.3	26	67	29	66	49	25	0	25	1.51
38995800--38996476	126	5.5	124	81	9	680	30	22	16	31	1.96
38996946--38996999	28	1.9	28	85	7	74	18	9	3	68	1.32
38997724--38997775	25	2.1	26	92	7	90	67	9	3	19	1.35
38997732--38997788	24	2.4	23	80	8	69	66	10	5	17	1.40
38997735--38997789	25	2.3	23	81	12	65	67	10	5	16	1.39
38999015--38999067	9	5.6	10	80	10	51	66	1	1	30	1.13
38999039--38999068	3	10.0	3	100	0	60	66	0	0	33	0.92
39000859--39001368	44	11.7	45	72	8	297	26	23	20	29	1.99
39000865--39001323	217	2.1	217	83	4	586	26	22	20	29	1.99
39001123--39001368	89	2.8	89	87	4	338	28	24	18	28	1.98
39002216--39002265	26	1.9	26	91	0	82	60	16	10	14	1.59
39018605--39018645	6	6.8	6	100	0	82	65	0	0	34	0.93
39021126--39021162	19	1.9	19	94	0	65	54	21	0	24	1.45
39021657--39021711	24	2.2	25	87	3	76	36	18	23	21	1.95
39025550--39025598	2	24.5	2	100	0	98	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39028145--39028177	16	2.2	16	89	10	52	51	0	9	39	1.34
39028736--39028778	13	3.5	12	84	12	52	32	2	0	65	1.06
39030107--39030186	41	1.9	42	87	5	117	16	38	25	20	1.92
39030222--39030319	42	2.3	42	91	0	160	17	37	22	22	1.94
39030111--39030435	147	2.2	146	83	0	407	22	32	21	24	1.98
39030264--39030491	105	2.2	105	83	5	275	23	31	19	25	1.98
39032950--39032985	18	1.9	19	94	5	65	33	0	0	66	0.92
39034934--39034975	20	2.2	19	87	12	59	16	16	4	61	1.50
39038515--39038547	13	2.4	14	90	5	50	27	3	0	69	1.03
39042033--39042135	25	4.1	25	76	9	93	28	18	22	31	1.97
39049352--39049442	25	3.6	25	76	8	87	25	18	26	29	1.98
39053502--39053538	15	2.5	15	95	0	65	35	24	10	29	1.89
39057375--39057403	15	1.9	15	100	0	58	75	0	0	24	0.80
39062708--39062926	45	4.9	46	78	10	222	30	23	17	27	1.97
39062761--39062910	43	3.4	43	79	11	178	30	25	16	27	1.97
39062708--39062931	89	2.5	89	88	2	317	29	23	18	28	1.97
39067637--39067663	8	3.4	8	100	0	54	77	0	0	22	0.76
39070165--39070195	16	2.0	16	93	6	55	41	25	6	25	1.79
39070980--39071022	22	2.0	22	95	0	77	9	20	27	41	1.83
39072422--39072473	21	2.5	20	79	11	52	61	1	0	36	1.07
39072678--39072716	19	2.0	21	85	10	55	69	5	10	15	1.34
39072923--39072996	21	3.6	21	87	7	116	37	10	10	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39072934--39072997	19	3.3	19	93	4	101	37	14	9	39	1.78
39073527--39075153	132	12.3	132	91	0	2527	26	23	18	31	1.98
39073615--39074189	44	13.1	44	61	15	132	26	23	17	32	1.97
39074523--39075103	44	13.2	44	64	12	145	25	24	19	31	1.98
39076375--39076421	9	4.9	10	80	15	55	2	17	0	80	0.80
39076369--39076418	15	2.9	17	80	20	59	2	20	0	78	0.86
39076382--39076417	18	1.9	19	94	5	65	0	19	0	80	0.71
39080789--39080901	51	2.2	52	81	6	133	55	6	6	31	1.49
39081639--39081685	23	2.0	24	87	4	69	38	12	6	42	1.69
39081662--39081737	21	3.7	21	87	7	120	36	11	10	40	1.76
39081675--39081738	19	3.3	19	93	4	101	37	14	9	39	1.78
39081833--39082207	43	8.7	42	79	8	258	28	28	18	25	1.98
39081825--39082207	86	4.4	85	79	8	330	28	27	18	25	1.98
39082545--39082615	21	3.4	21	84	0	79	5	39	16	38	1.73
39086986--39087254	9	31.0	9	71	16	194	31	2	19	46	1.62
39086975--39087232	25	10.1	25	75	11	170	32	2	18	46	1.62
39086990--39087232	34	7.4	32	73	17	157	32	2	19	46	1.63
39087094--39087132	19	2.1	19	85	9	53	30	0	17	51	1.46
39087017--39087205	43	4.4	43	78	7	170	32	2	19	46	1.62
39087335--39087389	16	3.7	16	69	18	55	34	1	18	45	1.60
39087593--39087757	13	12.5	13	70	7	109	44	3	11	40	1.58
39087611--39087701	23	3.7	23	70	18	65	46	5	9	38	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39087584--39087733	53	2.8	53	91	0	246	43	3	12	41	1.58
39087851--39087875	13	1.9	13	100	0	50	56	0	0	44	0.99
39087896--39087944	18	2.5	19	80	12	55	59	0	8	32	1.27
39090288--39090648	83	4.3	81	75	8	248	33	19	16	30	1.94
39091345--39091388	14	3.1	14	80	0	52	38	40	0	20	1.53
39092064--39092446	41	9.4	41	84	2	423	30	25	21	23	1.99
39092105--39092425	122	2.6	123	88	1	457	30	25	21	23	1.99
39092102--39092446	163	2.1	162	82	5	435	30	24	20	23	1.99
39093680--39093802	43	2.9	43	83	11	146	21	20	26	31	1.98
39096788--39096821	16	2.1	17	88	5	52	44	0	11	44	1.40

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