genome.fa.s3.2.7.7.80.10.50.1000.34.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: Chr8
Parameters: 2 7 7 80 10 50 1000
Length:  70076365

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   

This is table  34  of  210  ( 25174 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)
12022534--12022622	23	3.7	23	74	14	79	44	21	0	33	1.52
12024343--12024375	16	2.0	17	88	5	50	48	12	12	27	1.76
12025304--12025542	101	2.4	101	87	3	356	32	17	21	28	1.96
12025536--12025586	24	2.1	24	92	0	84	43	3	29	23	1.72
12026998--12027127	43	3.0	43	92	4	210	21	18	27	32	1.97
12026998--12027156	86	1.8	86	84	7	216	23	18	27	30	1.97
12027007--12027161	43	3.6	43	79	11	165	23	18	28	29	1.98
12028789--12028842	21	2.7	19	72	10	54	40	9	9	40	1.69
12028798--12028841	21	2.1	21	86	0	61	40	6	9	43	1.63
12030929--12030999	21	3.5	21	72	18	60	64	2	2	29	1.22
12034934--12034967	8	4.2	8	84	0	50	47	0	0	52	1.00
12037394--12037557	43	3.8	43	79	10	183	25	18	25	29	1.98
12039189--12039242	21	2.7	19	72	10	54	40	9	9	40	1.69
12039198--12039241	21	2.1	21	86	0	61	40	6	9	43	1.63
12041329--12041399	21	3.5	21	72	18	60	64	2	2	29	1.22
12045334--12045367	8	4.2	8	84	0	50	47	0	0	52	1.00
12048525--12048612	46	1.9	46	86	2	124	40	1	13	44	1.51
12048670--12048717	24	2.0	24	95	0	87	41	10	29	18	1.84
12048817--12048934	42	2.8	42	83	6	141	17	22	16	42	1.89
12048863--12048925	21	3.0	21	78	0	81	15	22	17	44	1.86
12050669--12050720	27	1.9	27	100	0	104	51	32	0	15	1.43
12054921--12055049	43	3.0	42	75	17	129	30	27	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12064558--12064697	72	1.9	75	81	7	171	32	11	14	41	1.81
12073787--12073869	20	4.3	20	67	14	57	38	1	15	44	1.55
12073792--12073872	18	4.3	18	70	20	58	37	1	14	46	1.53
12079626--12079655	15	1.9	16	93	6	53	33	0	0	66	0.92
12080669--12080718	25	2.0	26	88	11	77	44	2	4	50	1.32
12088030--12088385	180	2.0	180	96	0	658	35	14	17	32	1.90
12093464--12093591	60	2.1	62	81	11	147	44	10	4	39	1.60
12094379--12094413	16	2.1	17	89	5	54	40	22	0	37	1.55
12097278--12097350	26	2.7	27	79	12	78	31	0	0	68	0.90
12100348--12100391	23	1.9	23	90	0	70	61	4	2	31	1.28
12100352--12100394	11	3.8	11	80	17	52	65	2	2	30	1.18
12119178--12119367	100	1.9	103	87	7	289	33	7	3	55	1.43
12132784--12132905	61	2.0	60	88	1	181	46	34	4	14	1.64
12147235--12147279	20	2.2	20	88	7	65	46	0	0	53	1.00
12147210--12147394	92	2.0	93	98	1	363	41	5	3	49	1.42
12147327--12147371	20	2.2	20	88	7	65	46	0	0	53	1.00
12152890--12153063	86	2.0	86	93	2	296	27	11	17	43	1.83
12182533--12182631	42	2.4	42	83	10	114	30	25	19	25	1.98
12183586--12183641	27	2.1	26	80	9	60	53	7	0	39	1.28
12185943--12185968	12	2.2	12	100	0	52	7	7	0	84	0.77
12187619--12187651	13	2.5	13	95	0	57	72	0	27	0	0.85
12191629--12191787	25	6.6	25	81	12	167	18	25	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12191629--12191787	47	3.3	47	81	11	182	18	25	18	38	1.93
12191871--12191929	31	1.9	31	89	0	91	54	3	20	22	1.59
12197562--12197705	71	2.0	72	98	1	281	34	8	9	47	1.67
12202350--12202405	30	1.9	28	82	13	69	41	1	17	39	1.60
12202351--12202549	98	2.0	99	99	0	391	43	2	20	34	1.63
12205479--12205526	5	9.6	5	82	8	62	62	2	0	35	1.07
12209115--12209139	2	12.5	2	100	0	50	48	0	0	52	1.00
12210191--12210230	5	8.0	5	94	0	71	62	0	0	37	0.95
12231602--12231646	3	14.7	3	95	4	81	66	0	31	2	1.04
12232091--12232118	3	9.3	3	100	0	56	67	0	0	32	0.91
12234815--12235123	156	2.0	158	93	1	532	33	23	15	27	1.95
12245972--12246006	6	5.8	6	100	0	70	17	0	0	82	0.66
12246796--12246858	30	2.1	30	96	0	117	23	4	14	57	1.56
12251305--12251367	22	2.7	23	78	9	74	49	3	1	46	1.27
12251346--12251488	68	2.1	67	93	2	252	41	4	9	44	1.57
12251430--12251457	9	3.1	9	100	0	56	32	0	10	57	1.33
12251554--12251598	24	1.9	24	86	4	65	64	2	0	33	1.06
12252037--12252082	19	2.3	21	88	7	69	17	2	4	76	1.06
12252329--12252361	12	2.5	13	90	9	50	21	6	0	72	1.05
12252779--12252830	26	2.0	26	100	0	104	42	11	11	34	1.77
12255964--12256221	95	2.7	95	96	1	466	35	4	6	54	1.45
12256194--12256303	47	2.4	47	79	1	123	43	1	6	48	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12259329--12259724	126	3.2	126	88	0	551	28	16	18	36	1.93
12259792--12259881	34	2.6	34	84	6	94	42	17	2	37	1.62
12259817--12259889	34	2.2	34	82	2	94	49	19	2	28	1.62
12262347--12262387	2	20.5	2	100	0	82	51	0	0	48	1.00
12264036--12264070	2	17.5	2	100	0	70	0	0	48	51	1.00
12264185--12264279	37	2.6	37	86	0	118	27	15	17	38	1.91
12264304--12264378	37	2.0	37	94	0	132	34	17	20	28	1.95
12270714--12270852	70	2.0	70	98	0	269	29	12	16	41	1.86
12272449--12272488	19	2.0	20	85	4	55	25	20	7	47	1.75
12275385--12275433	7	7.0	7	82	15	57	71	0	14	14	1.15
12275385--12275433	21	2.3	21	86	6	64	71	0	14	14	1.15
12276565--12277284	132	5.5	132	90	0	1118	28	17	23	29	1.97
12279003--12279042	2	20.0	2	100	0	80	50	0	0	50	1.00
12284751--12284780	6	5.0	6	100	0	60	0	0	33	66	0.92
12285482--12285514	15	2.3	15	90	10	52	0	9	3	87	0.63
12291377--12291435	11	5.3	11	79	2	55	22	23	1	52	1.56
12293228--12293270	18	2.4	18	84	0	59	20	25	6	46	1.76
12293694--12293851	49	3.2	49	93	0	262	43	3	5	48	1.43
12297030--12297444	125	3.3	124	91	1	650	28	19	19	33	1.96
12308255--12308316	17	3.5	17	79	16	63	50	0	27	22	1.50
12308681--12308865	89	2.1	89	95	3	336	42	17	11	28	1.84
12311899--12312338	125	3.5	125	86	2	580	30	17	22	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12315440--12315483	22	2.0	22	86	4	63	27	0	27	45	1.54
12315494--12315532	14	2.8	14	80	0	51	28	0	28	43	1.55
12315545--12315602	22	2.6	22	88	0	98	22	0	31	46	1.52
12315453--12315622	92	1.8	92	81	7	211	24	0	29	46	1.53
12315553--12315730	57	3.1	56	83	3	230	23	1	30	44	1.60
12315667--12315720	22	2.5	22	85	8	67	27	0	31	40	1.57
12315679--12315723	22	2.1	22	91	4	74	28	0	24	46	1.53
12315958--12316004	21	2.2	21	85	7	60	4	27	40	27	1.75
12317785--12317839	22	2.5	22	80	19	69	43	1	30	23	1.64
12317785--12317838	11	4.8	12	80	15	62	42	1	31	24	1.65
12321300--12321343	6	7.3	6	100	0	88	68	0	0	31	0.90
12321407--12321450	6	7.3	6	100	0	88	68	0	0	31	0.90
12321288--12321503	107	2.0	108	99	0	425	43	12	16	27	1.84
12332465--12332499	17	2.1	17	89	5	54	51	2	0	45	1.16
12334406--12334461	29	1.9	29	82	7	69	30	16	8	44	1.78
12338567--12338676	21	5.2	21	73	4	105	43	18	23	14	1.87
12338567--12338677	42	2.6	42	84	2	143	44	18	23	14	1.86
12339346--12339394	23	2.2	23	85	3	64	55	14	0	30	1.40
12341406--12341443	18	2.1	18	95	0	67	63	0	0	36	0.95
12368125--12368253	61	2.1	59	76	10	136	47	10	5	37	1.60
12376493--12376556	30	2.1	30	82	5	76	35	6	9	48	1.61
12377955--12378025	19	3.7	20	77	19	71	32	1	7	59	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12377983--12378026	21	2.2	20	88	8	63	29	2	4	63	1.26
12377923--12378026	19	5.2	19	70	21	70	36	0	4	57	1.26
12377983--12378027	20	2.2	21	88	4	65	28	2	4	64	1.25
12377923--12378038	19	5.8	19	71	22	69	34	0	6	58	1.28
12382573--12382606	17	2.0	17	94	0	59	55	5	26	11	1.58
12384495--12384549	27	2.0	27	100	0	110	36	10	21	30	1.88
12384628--12384677	22	2.2	22	89	3	73	66	2	16	16	1.35
12384827--12384929	51	2.0	51	92	0	170	34	7	18	38	1.80
12386559--12386694	42	3.2	42	81	0	146	16	23	18	41	1.89
12386559--12386665	21	5.1	21	68	4	81	17	24	16	41	1.90

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