genome.fa.s15.2.7.7.80.10.50.1000.40.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  40  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)
11927235--11927275	21	2.0	21	95	4	75	63	0	0	36	0.95
11927236--11927291	24	2.4	24	85	8	71	66	1	0	32	1.03
11927734--11927808	19	3.8	19	87	6	114	34	18	12	34	1.88
11927727--11927804	40	2.0	38	90	5	120	34	19	11	34	1.88
11937928--11937987	28	2.2	27	84	3	75	48	1	1	48	1.21
11939081--11939114	17	2.0	17	100	0	68	23	11	0	64	1.26
11939326--11939350	13	1.9	13	100	0	50	80	0	4	16	0.87
11948890--11948925	15	2.5	14	86	8	54	44	8	0	47	1.33
11949468--11949494	14	1.9	14	100	0	54	0	11	0	88	0.50
11949466--11949504	14	2.6	14	84	8	51	7	7	0	84	0.77
11950912--11950963	5	10.4	5	76	15	54	75	0	3	21	0.97
11950906--11950963	9	6.6	9	76	20	52	74	0	3	22	0.97
11956235--11956306	28	2.6	28	90	0	108	30	12	26	30	1.93
11964757--11964801	20	2.4	18	88	7	63	55	0	4	40	1.20
11965865--11965907	22	2.0	22	90	0	68	25	13	41	18	1.88
11966350--11966458	45	2.5	43	78	10	121	24	19	23	32	1.98
11966618--11966809	44	4.4	43	70	12	117	27	21	17	32	1.96
11966898--11967244	99	3.5	100	84	3	450	26	19	20	33	1.97
11966898--11967236	50	6.8	50	71	7	244	26	18	21	33	1.96
11968478--11968528	19	2.8	18	75	16	52	7	17	1	72	1.18
11972621--11972671	20	2.7	19	85	8	68	56	0	3	39	1.18
11973740--11973782	22	2.0	22	85	0	59	27	16	37	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11976291--11976346	26	2.3	23	81	12	58	39	3	0	57	1.16
11978387--11978412	13	2.0	13	100	0	52	84	7	7	0	0.77
11978545--11978599	3	18.3	3	100	0	110	67	0	0	32	0.91
11980123--11980677	263	2.1	263	94	0	986	27	25	19	27	1.99
11980665--11981093	45	9.7	43	69	10	265	26	24	18	31	1.97
11980639--11981118	89	5.4	88	84	7	557	26	24	17	31	1.97
11980638--11981119	44	11.0	44	68	13	289	26	24	18	31	1.97
11980639--11981118	178	2.7	175	85	8	627	26	24	17	31	1.97
11982403--11982493	46	2.0	46	86	0	128	12	25	17	45	1.83
11982406--11982504	46	2.1	46	81	1	108	12	26	16	45	1.82
11986767--11986792	13	2.0	13	100	0	52	84	7	7	0	0.77
11986925--11986952	3	9.3	3	100	0	56	67	0	0	32	0.91
11993993--11994074	40	2.0	40	95	0	146	15	24	13	46	1.82
11998890--11998992	46	2.1	48	84	7	129	20	13	29	36	1.91
12016144--12016169	13	2.0	13	100	0	52	84	7	7	0	0.77
12016300--12016342	3	14.3	3	100	0	86	67	0	0	32	0.91
12023921--12024002	40	2.0	40	97	0	155	14	24	14	46	1.82
12024600--12024636	18	2.0	19	89	5	58	27	5	0	67	1.12
12028834--12028936	46	2.1	49	82	8	131	21	13	29	35	1.92
12035736--12035976	50	4.7	52	83	9	262	26	21	28	22	1.99
12054824--12054893	25	2.8	25	86	0	95	28	24	21	25	1.99
12055148--12055202	29	1.9	28	88	3	83	21	23	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12057006--12057215	28	7.5	28	96	0	368	24	11	29	34	1.90
12056981--12057215	84	2.8	84	92	1	373	24	11	28	34	1.90
12065190--12065358	26	6.7	28	77	21	178	24	12	26	36	1.91
12065196--12065337	27	5.6	27	78	19	164	24	11	25	38	1.90
12065314--12065367	24	2.4	22	82	11	72	29	14	22	33	1.94
12073336--12073488	28	5.5	28	96	2	265	26	11	28	33	1.91
12073311--12073488	55	3.2	56	90	3	270	25	11	28	34	1.91
12073336--12073488	83	1.8	83	92	2	263	26	11	28	33	1.91
12075771--12075842	28	2.6	28	90	0	108	30	26	12	30	1.93
12081107--12081164	9	6.6	9	75	23	52	22	3	0	74	0.97
12081107--12081158	5	10.4	5	78	15	54	21	3	0	75	0.97
12083129--12083163	15	2.4	15	90	4	54	48	0	8	42	1.33
12085974--12086043	35	2.0	35	100	0	140	34	11	11	42	1.77
12086919--12086987	33	2.1	33	94	0	120	43	8	5	42	1.59
12087902--12088007	42	2.5	44	84	9	137	18	18	16	46	1.85
12094204--12094256	18	2.8	18	75	16	54	58	0	1	39	1.09
12101087--12101179	18	5.2	18	86	0	123	31	12	24	31	1.93
12101087--12101179	36	2.6	36	91	0	150	31	12	24	31	1.93
12104661--12104713	19	2.8	19	91	2	81	66	0	1	32	1.03
12104702--12104726	7	3.6	7	100	0	50	88	0	0	12	0.53
12115814--12115859	24	1.9	24	86	0	65	45	17	26	10	1.81
12123683--12124014	89	3.8	88	73	9	286	28	20	24	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12123725--12124094	172	2.2	172	91	2	591	27	20	23	28	1.98
12123899--12124307	216	1.9	216	94	0	728	27	19	23	29	1.98
12123725--12124195	172	2.7	172	83	8	582	28	19	23	28	1.98
12123683--12124190	44	11.7	44	69	13	186	28	19	23	27	1.98
12125659--12125700	19	2.2	20	82	4	50	28	7	14	50	1.69
12127876--12127913	21	1.9	21	89	10	62	50	0	0	50	1.00
12127881--12127935	28	2.0	28	85	0	74	47	1	1	49	1.23
12129909--12129946	19	2.0	19	94	0	67	42	18	15	23	1.89
12131986--12132037	13	4.0	13	73	9	52	34	26	7	30	1.85
12133145--12133191	20	2.3	20	96	0	85	61	2	6	29	1.32
12133146--12133204	20	2.7	22	76	15	68	66	1	3	28	1.18
12134931--12135123	98	2.0	98	94	0	341	35	24	11	28	1.90
12136182--12136233	25	2.1	25	100	0	104	26	19	11	42	1.85
12136629--12136700	19	3.8	19	83	3	101	36	15	11	37	1.83
12140312--12140367	20	2.8	19	77	15	60	41	1	1	55	1.21
12149166--12149231	32	2.0	34	88	5	100	57	0	3	39	1.14
12151127--12151164	21	1.9	21	89	10	62	50	0	0	50	1.00
12151132--12151186	28	2.0	28	85	0	74	47	1	1	49	1.23
12153163--12153200	19	2.0	19	94	0	67	42	18	15	23	1.89
12155300--12155365	13	5.1	13	81	7	89	37	25	6	30	1.80
12156018--12156051	17	1.9	18	88	5	52	73	2	2	20	1.09
12156454--12156492	20	2.0	20	90	5	62	61	5	5	28	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12158047--12158071	13	1.9	13	100	0	50	64	0	0	36	0.94
12162702--12162735	17	2.0	17	94	0	59	44	50	0	5	1.26
12167341--12167374	17	2.0	17	94	0	59	44	50	0	5	1.26
12189605--12189828	75	3.0	76	97	1	423	30	27	13	28	1.94
12190582--12190638	22	2.6	22	74	0	60	57	14	14	14	1.65
12197475--12197519	6	8.0	6	83	11	51	73	8	0	17	1.08
12197475--12197537	16	3.8	16	81	8	72	77	6	1	14	1.03
12197477--12197535	11	5.4	11	78	13	50	79	5	1	13	0.97
12197477--12197542	6	11.5	6	81	13	50	80	4	1	13	0.94
12197475--12197542	28	2.4	27	79	13	66	77	5	1	14	1.02
12197517--12197582	28	2.3	28	78	2	69	75	7	9	7	1.18
12197957--12197997	13	3.2	12	83	10	55	78	0	12	9	0.98
12198071--12198619	87	6.3	87	86	2	746	29	20	23	26	1.98
12198624--12198835	43	4.9	43	83	2	264	32	19	24	24	1.98
12204797--12204830	3	11.3	3	100	0	68	32	0	0	67	0.91
12206970--12207012	21	2.1	21	87	12	63	23	2	0	74	0.93
12212096--12212167	28	2.6	28	90	0	108	30	26	12	30	1.93
12217454--12217521	5	13.4	5	77	14	68	22	2	0	75	0.94
12217454--12217535	31	2.6	30	81	14	103	23	3	0	73	0.99
12218716--12218977	102	2.6	102	93	0	463	24	14	27	32	1.94
12219028--12219062	12	2.8	13	86	8	54	85	2	5	5	0.81
12219618--12219652	15	2.4	15	90	4	54	48	0	8	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12221281--12221315	14	2.5	14	95	0	61	57	8	5	28	1.52
12230027--12230069	21	2.0	21	86	0	59	44	2	6	46	1.43
12231855--12231888	17	1.9	18	88	5	52	73	2	2	20	1.09
12233046--12233079	15	2.3	15	90	5	52	44	47	8	0	1.34
12234192--12234252	3	20.0	3	83	3	68	34	4	1	59	1.29
12247054--12248330	394	3.3	390	85	4	1598	33	24	20	21	1.97
12247116--12248259	49	23.4	50	66	11	313	33	24	20	21	1.97
12247054--12248323	96	13.0	97	87	4	1506	33	24	20	21	1.97
12248725--12248760	14	2.5	15	90	4	56	44	44	11	0	1.39
12249871--12249928	3	19.0	3	82	3	62	34	5	1	58	1.30

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