genome.fa.s4.2.7.7.80.10.50.1000.15.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: Chr7
Parameters: 2 7 7 80 10 50 1000
Length:  55462051

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   

This is table  15  of  163  ( 19464 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)
5148124--5148164	15	2.8	16	82	17	54	51	2	4	41	1.36
5151746--5151780	17	2.1	17	88	0	52	40	2	20	37	1.67
5158127--5158161	17	1.9	19	88	11	56	20	2	11	65	1.37
5158219--5158280	32	1.9	32	83	9	81	35	0	4	59	1.19
5166812--5166838	12	2.2	12	100	0	54	40	0	14	44	1.46
5167303--5167348	24	1.9	24	81	0	56	34	2	13	50	1.53
5167337--5167373	18	2.1	18	89	0	56	56	0	8	35	1.29
5168352--5168424	3	24.3	3	100	0	146	67	0	0	32	0.91
5171307--5171342	6	6.2	6	93	3	56	36	13	0	50	1.43
5172222--5172330	43	2.5	43	92	5	177	30	29	16	23	1.96
5172563--5172720	78	2.0	79	98	1	309	11	29	20	39	1.87
5176787--5177123	41	8.2	41	96	0	611	37	28	18	15	1.92
5177402--5177439	14	2.5	15	83	12	51	28	15	0	55	1.41
5179470--5179939	114	4.3	112	82	6	509	18	29	26	25	1.98
5183100--5183201	18	5.7	18	77	0	96	21	12	32	33	1.91
5185457--5185500	6	7.3	6	94	0	79	47	34	0	18	1.49
5187029--5187059	10	3.0	10	95	4	53	29	9	3	58	1.46
5192791--5193239	224	2.0	225	98	0	873	26	12	22	38	1.89
5197050--5197080	16	2.0	16	93	6	55	3	32	0	64	1.09
5198034--5198146	36	3.1	36	62	12	86	46	11	7	34	1.69
5198017--5198165	73	2.0	73	97	0	280	46	12	6	34	1.67
5206838--5206872	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5207067--5207171	44	2.5	40	76	15	113	31	29	4	34	1.78
5207065--5207174	45	2.6	44	81	8	131	31	29	5	33	1.80
5207153--5207222	16	4.4	16	96	0	113	34	35	0	30	1.58
5210994--5211052	29	2.0	29	83	3	73	49	8	8	33	1.64
5215197--5215525	159	2.1	160	86	3	448	41	12	10	35	1.78
5215743--5215790	18	2.5	19	90	6	71	60	6	6	27	1.45
5225114--5225163	20	2.5	20	77	6	57	42	0	10	48	1.37
5236891--5236946	29	1.9	29	96	0	103	41	12	7	39	1.70
5240965--5241007	22	2.0	21	82	13	52	53	2	4	39	1.34
5243971--5244042	35	2.1	35	100	0	144	44	2	22	30	1.67
5245339--5245501	82	2.0	82	95	0	290	33	13	15	36	1.87
5248276--5248680	69	5.9	69	80	5	336	19	22	23	33	1.97
5248576--5248812	117	2.0	117	82	4	282	22	24	20	33	1.97
5248809--5250713	129	14.9	123	79	10	1153	17	22	20	39	1.92
5248870--5250710	387	4.8	383	79	10	1604	17	22	20	39	1.92
5248865--5250713	258	7.2	257	81	9	1576	17	22	20	39	1.92
5249451--5250710	456	2.8	454	87	4	1749	17	22	21	39	1.92
5250418--5250521	51	2.0	51	86	0	145	15	22	23	39	1.91
5250165--5250650	180	2.6	180	82	7	501	17	22	21	38	1.93
5250640--5250885	123	2.0	123	84	1	323	19	23	21	35	1.96
5250763--5251139	69	5.5	69	79	7	322	17	23	22	36	1.95
5253032--5253071	20	1.9	20	85	10	53	22	5	12	60	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5256944--5257098	79	2.0	79	98	0	301	22	17	22	37	1.94
5258440--5258497	30	1.9	31	96	3	109	27	0	6	65	1.18
5263579--5263612	17	2.0	17	88	0	50	61	8	2	26	1.40
5272467--5272506	21	1.9	21	85	10	55	52	0	2	45	1.14
5282241--5282266	2	13.0	2	100	0	52	50	0	0	50	1.00
5288102--5288181	29	2.7	29	84	9	81	32	7	13	46	1.72
5288123--5288181	29	2.0	30	90	3	93	30	6	15	47	1.71
5288127--5288190	29	2.2	29	83	8	76	32	9	12	45	1.74
5288338--5288407	29	2.3	31	82	4	90	41	14	8	35	1.76
5289096--5289152	22	2.5	23	75	8	55	66	3	5	24	1.28
5293977--5294035	29	2.0	29	100	0	118	49	6	10	33	1.63
5294257--5294290	16	2.1	16	94	0	59	35	8	5	50	1.58
5295626--5295655	15	1.9	16	93	6	53	10	3	46	40	1.54
5296565--5296626	8	7.4	8	78	10	70	54	1	1	41	1.19
5296556--5296626	17	4.2	17	79	12	74	53	2	1	42	1.24
5296554--5296626	9	8.4	9	73	14	64	53	2	1	42	1.23
5296556--5296641	27	3.3	24	80	18	84	54	4	2	38	1.34
5298255--5298395	72	2.0	72	91	0	228	29	12	20	37	1.90
5302053--5302087	6	5.8	6	96	0	52	40	0	8	51	1.33
5302052--5302090	12	3.2	12	88	0	60	46	0	7	46	1.31
5302052--5302090	6	6.5	6	93	0	51	46	0	7	46	1.31
5303679--5303721	19	2.3	18	80	4	50	65	0	2	32	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5314014--5314048	16	2.2	16	89	0	52	88	0	11	0	0.51
5314118--5314552	118	3.5	117	78	15	402	40	13	14	30	1.85
5314126--5314584	254	1.8	249	80	12	558	41	13	16	28	1.85
5316887--5316920	13	2.6	13	82	17	52	67	0	2	29	1.05
5319162--5319218	29	2.0	29	85	0	78	24	15	28	31	1.96
5322968--5323005	18	2.1	19	85	5	51	26	2	0	71	1.00
5326578--5326913	167	2.0	169	98	1	658	37	14	13	34	1.85
5330320--5330348	14	2.1	14	100	0	58	13	0	37	48	1.43
5334001--5334078	8	9.1	8	75	10	66	62	2	1	33	1.17
5334006--5334085	9	9.1	9	76	9	76	65	2	2	30	1.19
5334098--5334294	99	2.0	99	98	1	385	39	15	14	30	1.87
5340218--5340251	13	2.6	13	82	17	52	67	0	2	29	1.05
5343294--5343330	18	2.1	18	89	0	56	56	0	0	43	0.99
5348935--5348963	15	2.0	15	93	6	51	48	3	34	13	1.60
5352398--5352422	4	6.2	4	100	0	50	24	0	0	76	0.80
5355905--5355931	2	13.5	2	100	0	54	51	0	0	48	1.00
5356268--5356348	8	9.4	8	70	15	54	58	1	2	38	1.20
5356271--5356336	9	7.3	9	72	6	62	65	1	1	31	1.11
5356267--5356336	28	2.6	27	80	10	81	61	1	1	35	1.14
5356406--5356469	11	5.5	11	75	21	60	28	6	1	64	1.27
5356399--5356473	37	2.0	37	100	0	150	29	5	2	62	1.31
5360090--5360136	20	2.2	22	85	7	62	34	2	0	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5365895--5365944	12	4.1	12	76	5	55	32	16	6	46	1.71
5370297--5370343	25	2.0	22	84	12	58	42	10	4	42	1.59
5370407--5370440	17	2.0	17	100	0	68	47	0	29	23	1.52
5372726--5372780	27	2.0	27	86	6	76	56	3	5	34	1.40
5379219--5379280	17	3.4	17	70	20	52	25	27	20	25	1.99
5379209--5379292	39	2.1	39	95	2	150	32	28	15	23	1.95
5382587--5382638	10	5.3	10	80	13	54	73	0	5	21	1.04
5382791--5382841	19	2.6	19	87	9	68	21	3	1	72	1.11
5388739--5388773	17	2.1	17	88	0	52	11	2	8	77	1.10
5388866--5388921	28	2.0	27	96	3	103	51	10	3	33	1.54
5395821--5395998	44	4.0	44	100	0	356	41	8	13	35	1.76
5401268--5401309	12	3.5	12	80	9	50	59	0	0	40	0.97
5401258--5401303	24	1.9	24	86	8	67	56	0	2	41	1.11
5402207--5402237	16	1.9	16	93	0	53	35	22	6	35	1.80
5402490--5402757	133	2.0	134	96	2	495	35	5	36	22	1.78
5403513--5403600	29	3.2	29	73	15	87	37	17	5	39	1.73
5403542--5403590	24	2.0	24	88	0	71	32	22	6	38	1.79
5405665--5405719	10	5.5	10	80	0	56	18	1	3	76	1.02
5405778--5405818	9	4.7	9	82	17	50	29	2	0	68	1.03
5405779--5405811	17	1.9	17	88	11	50	30	3	0	66	1.06
5406092--5406128	18	2.1	17	90	5	56	64	5	0	29	1.15
5406081--5406129	18	2.8	17	82	11	55	69	4	2	24	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5406465--5406512	25	1.9	25	82	0	60	60	2	2	35	1.20
5407740--5408130	28	14.3	28	93	5	685	36	10	0	52	1.36
5407796--5407842	19	2.6	18	80	6	58	38	12	0	48	1.41
5408405--5408472	28	2.4	28	85	7	93	48	1	7	42	1.40
5424600--5424647	10	4.9	10	76	2	53	66	2	6	25	1.26
5424671--5424706	15	2.5	14	86	8	54	44	8	0	47	1.33
5425282--5425329	3	16.3	3	78	4	53	31	6	0	62	1.20
5425283--5425353	26	3.1	23	78	11	67	26	5	2	64	1.29
5425379--5425430	20	2.6	20	81	0	59	26	5	11	55	1.58
5437167--5437788	72	8.6	72	85	3	849	28	15	20	35	1.93

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