genome.fa.s17.2.7.7.80.10.50.1000.42.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  42  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)
11767623--11767811	95	2.0	95	92	1	317	32	15	21	30	1.94
11774097--11774190	25	3.5	27	89	5	129	40	9	0	50	1.35
11774183--11774217	18	1.9	18	88	0	52	80	8	0	11	0.92
11774230--11774304	27	2.8	27	83	4	89	29	24	26	20	1.99
11774239--11774315	27	2.9	27	84	5	95	27	23	28	20	1.99
11774383--11774452	19	3.7	19	80	3	88	37	11	0	51	1.38
11774388--11774458	37	1.9	37	97	0	133	39	12	0	47	1.42
11774768--11774808	19	2.1	19	86	4	55	53	0	9	36	1.34
11775021--11775078	19	3.1	19	80	5	82	48	0	12	39	1.40
11775015--11775074	18	3.3	18	81	4	75	50	0	11	38	1.39
11775162--11775265	53	2.0	53	86	7	149	19	29	24	26	1.98
11775162--11775265	26	3.9	26	88	5	147	19	29	24	26	1.98
11775314--11775408	26	3.5	28	87	9	135	49	0	10	40	1.37
11775314--11775408	27	3.5	27	88	7	131	49	0	10	40	1.37
11781009--11781048	18	2.3	17	91	4	62	37	2	2	57	1.26
11780930--11781060	17	7.9	17	69	19	80	38	0	3	57	1.22
11781218--11781315	49	2.0	51	91	4	164	36	30	3	29	1.73
11781297--11781366	16	4.4	16	87	0	95	27	31	1	40	1.65
11781709--11781777	17	4.4	15	73	23	54	69	1	1	27	1.05
11781720--11781775	17	3.3	17	80	11	62	66	1	1	30	1.12
11781746--11781844	19	5.2	19	76	11	87	63	1	4	31	1.19
11781742--11781815	10	7.8	10	78	13	52	64	0	2	32	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11781746--11781935	68	2.8	65	74	7	155	61	1	5	31	1.29
11781800--11781937	38	3.6	37	75	14	91	59	2	7	31	1.36
11781961--11781993	16	2.0	17	88	5	50	21	6	0	72	1.05
11782094--11782210	9	12.4	9	71	15	76	34	2	0	62	1.15
11787886--11787929	22	2.2	19	88	12	61	50	18	0	31	1.47
11788476--11788513	20	1.9	20	94	0	67	47	18	26	7	1.76
11788445--11788564	60	2.0	60	83	0	150	43	17	24	15	1.87
11789433--11789560	64	2.0	64	100	0	256	50	18	14	17	1.79
11797651--11797725	32	2.3	32	95	0	132	46	2	28	22	1.65
11797735--11797823	39	2.3	39	98	0	169	38	14	17	29	1.90
11806941--11806965	13	1.9	13	100	0	50	68	0	16	16	1.22
11809801--11812520	480	5.4	506	84	6	3396	39	13	17	30	1.88
11812241--11812288	24	2.0	24	95	0	87	50	6	8	35	1.58
11811725--11813341	889	1.8	862	84	5	2179	40	12	15	31	1.85
11813681--11813745	27	2.4	27	92	0	103	29	24	30	15	1.96
11814032--11814201	19	8.4	19	74	19	132	29	1	13	55	1.45
11814014--11814196	101	1.8	100	91	5	305	28	1	14	55	1.46
11814147--11814252	27	4.0	27	80	13	123	29	0	13	56	1.43
11814134--11814198	22	3.0	22	91	4	107	27	1	13	56	1.46
11814133--11814252	56	2.0	63	77	16	125	30	0	13	55	1.44
11814163--11814251	27	3.1	29	83	8	128	31	1	12	55	1.44
11814245--11814363	60	2.0	60	88	3	177	32	0	13	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11816142--11816175	6	5.7	6	92	0	59	32	32	32	2	1.73
11816144--11816181	12	3.2	12	88	0	58	31	26	34	7	1.85
11817917--11817970	21	2.5	23	74	20	62	3	25	1	68	1.16
11817987--11818061	27	2.8	27	83	4	98	22	34	22	20	1.96
11822919--11822956	3	12.3	3	94	5	67	31	2	0	65	1.06
11824025--11824067	23	1.9	23	90	4	70	55	6	11	25	1.60
11827472--11827532	32	1.9	32	83	12	81	50	0	4	44	1.23
11827491--11827532	20	2.1	20	86	0	57	47	0	7	45	1.30
11829576--11829609	15	2.2	16	89	5	52	38	0	14	47	1.45
11835503--11835558	21	2.7	21	81	13	53	71	5	12	10	1.29
11838370--11838456	34	2.5	34	90	1	129	40	14	26	18	1.89
11839440--11839481	20	2.1	20	86	0	57	47	0	7	45	1.30
11841033--11841105	32	2.3	33	88	7	114	36	21	8	32	1.83
11855519--11855611	40	2.3	40	84	0	141	30	26	20	22	1.98
11855536--11855637	40	2.5	40	88	3	141	23	25	28	22	1.99
11856380--11856697	96	3.3	97	91	1	482	38	17	1	41	1.61
11868416--11868465	26	1.9	26	84	15	68	56	6	4	34	1.43
11870100--11870142	17	2.5	17	77	11	52	37	6	0	55	1.27
11871966--11872024	30	1.9	31	83	10	77	11	15	11	61	1.58
11872371--11872401	16	1.9	16	93	0	53	9	6	9	74	1.23
11880147--11880268	37	3.1	39	74	12	124	32	22	19	25	1.97
11881259--11881283	7	3.6	7	100	0	50	56	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11883183--11883258	39	1.9	38	86	5	107	31	18	23	26	1.97
11883202--11883277	39	1.9	39	82	10	93	35	21	22	21	1.96
11884461--11884516	21	2.7	21	97	0	103	17	3	48	30	1.65
11884461--11884518	7	8.3	7	82	0	71	17	3	50	29	1.62
11887346--11887528	37	5.0	37	93	1	307	25	21	15	37	1.93
11887346--11887575	111	2.0	114	86	9	326	26	21	15	37	1.92
11887492--11887859	46	7.6	46	84	10	448	28	22	14	34	1.93
11887535--11887853	52	6.3	52	86	5	392	28	22	14	35	1.93
11887504--11887859	98	3.6	96	84	9	477	28	21	14	34	1.93
11891907--11892148	43	5.7	43	84	3	301	26	19	27	26	1.99
11891921--11892148	85	2.7	86	89	2	343	27	19	27	25	1.99
11891901--11892148	128	1.9	128	84	3	329	27	19	27	25	1.99
11892794--11892868	35	2.1	35	85	0	96	34	14	21	29	1.93
11897434--11897459	13	2.0	13	100	0	52	30	7	15	46	1.74
11897489--11897530	19	2.2	19	83	8	50	28	21	9	40	1.84
11899414--11899453	19	2.1	19	90	9	64	15	12	5	67	1.38
11901709--11902480	132	5.7	132	91	5	1208	27	19	24	28	1.98
11901933--11901964	15	2.1	15	100	0	64	25	31	6	37	1.81
11905949--11905989	2	20.5	2	100	0	82	48	51	0	0	1.00
11907142--11907203	34	1.9	33	81	12	76	48	1	1	48	1.21
11907168--11907268	39	2.5	40	79	17	97	50	1	0	46	1.19
11917493--11917588	39	2.5	39	84	6	140	30	17	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11921950--11922045	39	2.5	39	94	0	174	28	18	15	37	1.92
11922058--11922110	16	3.3	16	72	27	58	18	32	3	45	1.68
11927999--11928466	37	12.6	37	81	10	487	24	22	15	36	1.93
11927999--11928459	72	6.2	74	82	9	523	24	23	15	36	1.93
11930582--11930620	12	3.2	12	100	0	78	23	35	0	41	1.55
11933650--11933740	44	2.1	44	97	0	173	27	12	13	47	1.78
11935919--11936187	115	2.3	115	86	6	352	49	7	4	39	1.49
11936310--11936356	20	2.3	20	82	10	60	6	14	42	36	1.72
11936693--11936756	30	2.1	30	85	0	83	4	12	48	34	1.62
11941594--11941648	21	2.5	22	82	11	60	74	10	14	0	1.07
11941590--11941645	23	2.3	24	79	14	62	75	10	14	0	1.06
11942452--11942489	3	12.7	3	100	0	76	34	0	0	65	0.93
11942718--11942761	22	2.0	23	86	4	63	38	6	2	52	1.41
11951212--11951283	31	2.3	31	92	0	117	34	25	11	29	1.90
11951208--11951675	233	2.0	233	96	0	864	40	23	9	26	1.85
11951445--11951516	31	2.3	31	82	0	90	36	22	9	31	1.87
11953762--11953806	19	2.3	20	80	3	56	60	4	11	24	1.49
11965723--11965769	23	2.0	23	100	0	94	48	21	21	8	1.76
11972401--11972446	16	2.8	17	76	6	58	32	2	0	65	1.05
11974442--11974482	21	2.0	21	90	0	64	24	39	17	19	1.92
11974945--11975045	39	2.5	40	77	7	107	21	9	30	37	1.86
11979650--11979725	22	3.4	22	72	16	84	34	17	3	44	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11979638--11979728	45	2.0	45	97	0	173	36	18	4	40	1.71
11983326--11983435	48	2.3	48	80	0	121	36	18	20	25	1.94
11998644--11998830	95	2.0	95	89	0	284	31	35	1	31	1.68
12003871--12003908	20	1.9	20	88	0	58	26	7	31	34	1.85
12005851--12006003	48	3.2	48	62	22	113	30	35	2	32	1.72
12005803--12006084	95	3.0	95	96	0	519	31	35	2	30	1.70
12019799--12019835	19	2.0	18	89	5	56	67	5	0	27	1.12
12025832--12025875	23	1.9	23	90	0	70	54	4	9	31	1.52
12026022--12026071	26	1.9	26	84	8	66	50	6	16	28	1.68
12027906--12028006	44	2.3	44	84	3	123	29	31	13	24	1.94

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