genome.fa.s15.2.7.7.80.10.50.1000.127.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   

This is table  127  of  222  ( 26535 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)
41170043--41170183	44	3.1	44	71	16	153	46	3	5	44	1.44
41169972--41170201	47	5.0	45	68	18	170	45	3	5	46	1.41
41170177--41170234	25	2.3	24	82	8	62	46	0	3	50	1.18
41169964--41170255	91	3.2	91	93	1	482	46	3	4	45	1.41
41170275--41170687	120	3.4	120	98	0	781	43	2	5	49	1.37
41170396--41170430	18	2.0	17	88	5	52	45	0	0	54	0.99
41170516--41170550	18	2.0	17	88	5	52	45	0	0	54	0.99
41170649--41170697	16	3.1	16	80	11	57	46	0	2	51	1.12
41170835--41170925	45	2.0	44	87	6	130	34	27	5	32	1.80
41170902--41170966	16	4.1	16	87	0	103	21	29	4	44	1.72
41174927--41174954	6	4.7	6	100	0	56	28	0	17	53	1.44
41174979--41175185	91	2.3	91	93	0	360	47	4	3	44	1.39
41175010--41175153	47	3.1	46	67	16	118	45	3	2	47	1.34
41175106--41175158	28	2.0	28	85	7	74	49	3	3	43	1.38
41175190--41175495	117	2.6	118	87	7	431	42	2	4	50	1.36
41175332--41175378	16	3.0	16	78	12	53	46	0	2	51	1.13
41175201--41175495	120	2.5	117	90	3	448	42	2	4	49	1.37
41177478--41177559	26	3.2	26	66	13	62	62	2	35	0	1.09
41177509--41177628	20	6.0	21	70	19	94	65	0	33	0	0.98
41177552--41177640	15	5.8	16	68	22	66	68	0	31	0	0.90
41177550--41177607	26	2.3	26	84	3	73	68	0	31	0	0.89
41177495--41177642	80	1.9	80	89	2	235	66	1	31	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41177585--41177665	29	2.8	28	77	19	76	67	0	32	0	0.91
41177478--41177669	80	2.3	82	75	12	203	66	1	32	0	0.99
41183401--41183437	18	2.1	18	94	0	65	10	40	5	43	1.63
41183404--41183445	18	2.3	18	87	0	57	16	47	2	33	1.60
41184441--41184480	11	3.7	11	86	6	64	0	30	0	70	0.88
41184443--41184481	21	1.9	20	94	5	69	0	30	0	69	0.89
41184570--41184629	27	2.2	27	90	0	93	16	31	26	25	1.96
41184570--41184638	27	2.6	27	83	4	86	14	30	27	27	1.95
41184797--41184840	22	2.0	22	86	0	61	11	13	2	72	1.21
41186946--41186970	12	2.1	12	100	0	50	24	36	24	16	1.94
41187132--41187189	9	6.4	9	89	0	80	44	24	6	24	1.77
41187132--41187181	18	2.8	18	96	0	91	44	24	8	24	1.80
41187301--41187325	13	1.9	13	100	0	50	12	0	48	40	1.40
41187296--41187330	18	1.9	18	94	0	61	11	0	48	40	1.39
41187297--41187344	23	2.1	23	84	0	60	12	2	43	41	1.54
41188667--41188737	22	3.2	22	69	15	74	33	5	4	56	1.42
41188688--41188756	3	22.3	3	74	14	52	33	2	2	60	1.26
41188661--41188750	44	2.0	44	100	0	180	34	4	4	56	1.39
41188667--41188740	25	3.2	25	67	21	79	33	5	4	56	1.41
41193500--41193533	12	2.8	13	86	13	54	50	0	0	50	1.00
41193499--41193569	34	2.1	35	84	12	94	47	0	2	49	1.16
41193532--41193668	61	2.3	57	82	6	157	43	0	2	52	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41193631--41193682	26	2.0	26	88	3	79	50	3	0	46	1.20
41194513--41194590	27	2.9	27	82	3	95	19	21	34	24	1.96
41199502--41199545	16	2.8	15	83	10	61	59	2	2	36	1.23
41199655--41199776	60	2.0	60	85	3	165	54	13	0	30	1.45
41199764--41200026	21	12.2	21	72	19	154	55	14	0	30	1.45
41199838--41200027	19	9.4	19	77	17	163	55	13	0	30	1.43
41199838--41200062	120	1.8	122	88	5	348	55	14	0	29	1.46
41200163--41200204	17	2.4	18	84	11	52	0	35	0	64	0.94
41200312--41200381	27	2.6	27	90	0	113	21	32	18	27	1.97
41202211--41202364	58	2.6	60	78	12	163	49	6	4	39	1.49
41202383--41202414	16	2.0	16	93	0	55	53	0	0	46	1.00
41205848--41205975	42	3.0	42	77	17	138	21	18	31	28	1.97
41214027--41214119	44	2.1	46	85	4	127	38	23	4	33	1.75
41214101--41214171	16	4.4	16	92	0	115	28	29	5	36	1.80
41220767--41220845	25	3.3	25	63	10	65	32	5	29	32	1.79
41220751--41221364	47	13.1	47	93	0	1032	31	8	30	28	1.88
41221483--41221561	37	2.1	37	88	0	113	24	17	31	26	1.97
41241316--41241759	167	2.7	167	93	0	746	35	18	13	32	1.89
41250122--41250195	29	2.6	29	89	4	107	22	14	18	43	1.87
41253423--41253661	48	5.0	48	86	0	307	27	20	27	25	1.99
41255366--41255661	50	5.8	50	78	9	235	20	27	23	28	1.99
41261724--41261749	12	2.2	12	100	0	52	38	7	7	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41263009--41263044	16	2.2	16	90	0	54	25	8	0	66	1.19
41264285--41264348	25	2.6	25	78	9	76	26	17	23	32	1.96
41277296--41277345	19	2.5	20	87	3	66	26	8	4	62	1.41
41288048--41288103	21	2.6	21	83	8	60	33	17	21	26	1.96
41302684--41302723	15	2.5	16	92	8	64	32	0	0	67	0.91
41303599--41303633	4	8.5	4	93	6	61	45	0	0	54	0.99
41303599--41303634	13	2.8	13	95	4	65	44	0	0	55	0.99
41303599--41303633	17	2.1	17	94	5	63	45	0	0	54	0.99
41303626--41303664	17	2.2	18	86	13	55	38	10	0	51	1.36
41304347--41304389	19	2.3	19	88	8	61	58	9	9	23	1.58
41306516--41306547	12	2.6	13	85	14	50	37	0	6	56	1.25
41308598--41308658	26	2.4	25	81	8	68	44	13	8	34	1.73
41315153--41315504	36	9.9	35	68	9	169	34	20	20	23	1.96
41315181--41315495	71	4.4	70	81	5	330	34	20	21	23	1.96
41315216--41315507	35	8.3	35	68	8	135	33	19	22	23	1.97
41315216--41315507	142	2.1	141	84	3	372	33	19	22	23	1.97
41316136--41316169	15	2.3	15	90	10	52	23	2	0	73	0.97
41316325--41316417	48	1.9	48	100	0	186	47	17	9	25	1.78
41324959--41324989	16	1.9	16	93	0	53	35	12	9	41	1.76
41333802--41333870	21	3.3	21	84	8	86	39	18	26	15	1.91
41333787--41333870	42	2.0	41	86	2	114	42	19	22	15	1.88
41340716--41340815	42	2.4	42	80	5	114	19	33	24	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41341874--41341915	9	4.7	9	90	0	66	30	11	21	35	1.90
41342208--41342267	30	2.0	31	86	3	86	20	40	0	40	1.52
41342906--41342931	5	5.2	5	100	0	52	23	19	19	38	1.93
41346942--41347384	127	3.5	124	86	2	593	29	16	24	29	1.97
41350394--41350767	114	3.3	114	98	0	703	41	7	9	41	1.66
41350770--41351045	43	6.5	42	81	6	313	24	0	30	44	1.57
41350767--41351045	21	13.0	22	82	4	331	24	0	30	44	1.57
41351586--41351628	18	2.4	18	84	0	59	46	9	27	16	1.77
41352276--41352301	7	3.7	7	100	0	52	57	15	0	26	1.38
41352470--41352507	20	1.9	20	84	10	51	55	7	2	34	1.43
41353400--41353428	13	2.3	13	94	5	51	62	0	0	37	0.96
41353454--41353490	11	3.2	12	85	11	51	48	5	18	27	1.70
41353470--41353494	11	2.3	11	100	0	50	48	8	28	16	1.74
41353446--41353545	51	2.0	50	86	7	139	45	4	25	26	1.71
41353513--41353557	11	3.9	12	77	16	51	42	2	31	24	1.67
41354441--41354516	31	2.5	31	91	0	125	27	15	11	44	1.82
41355718--41355797	31	2.6	31	82	3	92	42	16	17	23	1.88
41355886--41355962	38	2.1	37	80	7	84	31	2	6	59	1.36
41356154--41356230	31	2.5	31	81	10	88	45	15	10	28	1.79
41361116--41361160	22	2.0	22	91	0	72	20	46	15	17	1.84
41362163--41362194	15	2.1	15	94	0	55	28	15	21	34	1.94
41364588--41364983	194	2.0	193	96	0	729	24	12	15	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41375512--41375581	21	3.3	21	70	7	70	17	15	41	25	1.89
41375495--41375624	42	3.1	42	89	2	181	20	16	37	24	1.93
41380806--41380937	39	3.4	38	92	3	201	32	8	9	50	1.64
41381862--41381916	29	2.0	27	86	13	76	60	9	14	16	1.59
41388605--41388659	29	2.0	27	82	13	67	60	10	14	14	1.60
41396849--41397075	41	5.5	41	80	0	202	22	27	14	35	1.93
41396849--41397075	82	2.8	82	80	0	256	22	27	14	35	1.93
41396852--41397075	123	1.8	123	80	3	272	22	26	15	35	1.94
41404879--41404903	5	5.0	5	100	0	50	80	0	0	20	0.72
41405864--41405893	14	2.1	14	93	0	51	40	0	43	16	1.48

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   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222