genome.fa.s4.2.7.7.80.10.50.1000.105.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  105  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)
33876102--33876199	53	1.9	53	85	6	139	46	8	17	27	1.76
33876444--33876495	19	2.7	18	80	14	50	61	0	5	32	1.20
33881141--33881202	27	2.3	27	85	0	97	29	20	32	17	1.96
33881557--33881643	22	3.7	22	89	10	129	32	0	13	54	1.40
33881562--33881690	47	2.7	48	83	10	165	31	0	13	53	1.46
33881739--33881776	19	2.0	19	89	0	58	36	5	7	50	1.54
33881997--33882262	27	9.9	27	97	0	480	18	39	25	15	1.90
33883470--33883678	111	1.9	115	85	4	300	31	20	15	32	1.94
33883936--33883974	16	2.4	16	91	0	60	48	2	12	35	1.55
33883912--33883976	34	1.9	34	83	0	85	46	4	15	33	1.66
33884200--33884225	13	2.0	13	100	0	52	61	7	0	30	1.24
33884489--33884515	5	5.4	5	100	0	54	81	0	0	18	0.69
33886282--33886484	41	4.8	41	73	7	172	27	21	21	29	1.99
33886191--33886571	129	3.0	125	83	7	460	27	21	20	30	1.98
33886192--33887530	44	30.8	44	69	11	333	27	22	19	30	1.98
33886501--33887748	46	28.6	45	70	10	445	28	22	18	30	1.97
33886416--33886792	173	2.2	171	86	3	506	26	23	20	29	1.99
33886500--33887229	216	3.4	218	83	5	899	26	23	20	29	1.99
33886416--33887530	391	2.8	387	80	6	1215	27	23	19	29	1.98
33886977--33887896	175	5.3	175	90	0	1437	29	22	17	30	1.97
33886977--33887898	349	2.6	349	92	0	1504	29	22	17	31	1.96
33889127--33889152	13	2.0	13	100	0	52	15	15	0	69	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33889857--33889896	6	6.7	6	91	0	62	15	5	12	67	1.38
33889819--33889866	19	2.5	19	75	0	51	6	12	2	79	1.01
33889856--33889902	18	2.6	18	75	3	58	12	6	10	70	1.33
33889771--33889915	62	2.3	61	77	19	142	9	13	5	71	1.28
33894374--33894427	19	2.8	19	71	0	54	44	11	11	33	1.75
33909509--33909610	49	2.2	46	81	10	109	54	3	26	14	1.57
33919258--33919284	1	27.0	1	100	0	54	0	100	0	0	0.00
33923223--33923558	181	1.9	179	87	3	503	36	16	16	30	1.91
33926932--33926967	19	1.9	19	88	5	56	55	2	0	41	1.14
33934255--33934299	19	2.2	20	92	7	74	26	20	22	31	1.98
33937085--33937132	22	2.2	22	81	7	53	45	10	25	18	1.81
33943444--33943599	45	3.5	45	78	5	172	38	15	17	28	1.91
33943439--33943654	90	2.4	90	81	1	245	39	16	17	25	1.91
33943444--33943660	45	4.8	45	75	8	165	39	17	17	25	1.91
33956450--33956519	11	6.6	11	71	14	58	61	0	4	34	1.16
33956455--33956528	30	2.4	31	88	4	123	63	0	4	32	1.13
33956470--33956508	19	2.1	19	85	0	51	58	0	5	35	1.20
33956592--33956675	42	2.0	42	97	0	159	17	28	13	40	1.87
33957397--33957443	23	2.1	22	84	7	60	59	2	0	38	1.09
33958201--33958379	28	6.4	28	79	3	146	51	6	18	22	1.69
33958201--33958379	83	2.1	84	78	3	200	51	6	18	22	1.69
33963487--33963539	13	4.1	13	76	9	63	35	26	5	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33970167--33970227	32	1.9	32	86	0	86	34	9	21	34	1.86
33970410--33970670	45	5.9	45	85	2	321	22	19	18	39	1.92
33970650--33970678	6	4.8	6	100	0	58	17	17	17	48	1.82
33970693--33970720	11	2.5	11	100	0	56	17	10	25	46	1.80
33980547--33980613	29	2.2	32	84	10	88	56	0	1	41	1.08
33983822--33983862	18	2.2	19	91	4	66	63	12	0	24	1.28
33983837--33983885	20	2.4	21	80	16	59	67	8	4	20	1.34
33985538--33985595	24	2.4	23	80	8	62	67	6	6	18	1.37
33985638--33985702	12	5.2	12	75	12	60	70	3	4	21	1.19
33985676--33985705	16	1.9	15	93	6	51	80	0	0	20	0.72
33985638--33985703	14	5.2	13	73	10	57	71	3	4	21	1.18
33990743--33990803	2	30.5	2	100	0	122	50	49	0	0	1.00
33992638--33992678	19	2.2	19	86	0	55	43	14	0	41	1.45
33996041--33996118	38	2.1	37	97	2	147	44	20	2	32	1.65
34001312--34001433	51	2.4	51	92	1	199	28	29	0	41	1.56
34001447--34001471	11	2.3	11	100	0	50	16	0	0	84	0.63
34001447--34001499	10	5.1	10	79	6	52	28	0	0	71	0.86
34001435--34001499	32	2.1	32	94	2	114	32	0	0	67	0.91
34002536--34002566	15	2.1	15	100	0	62	19	6	38	35	1.77
34003425--34003606	25	7.6	25	66	22	104	38	3	13	45	1.60
34003423--34003717	71	4.2	71	97	0	518	36	3	13	45	1.61
34003595--34003709	36	3.2	36	64	11	101	35	3	14	46	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34005058--34005101	14	3.0	15	76	6	54	52	4	0	43	1.22
34006362--34006436	29	2.5	29	82	4	87	48	16	12	24	1.79
34006810--34006850	17	2.3	18	80	16	50	51	4	0	43	1.23
34006899--34006925	2	13.5	2	100	0	54	51	0	0	48	1.00
34013817--34014218	201	2.0	199	96	1	734	20	14	25	40	1.90
34015570--34015623	18	2.9	18	86	2	72	40	46	1	11	1.50
34015664--34015706	6	7.0	6	86	5	50	67	11	2	18	1.32
34015722--34015756	9	3.9	9	92	0	61	22	11	28	37	1.89
34015722--34015759	18	2.1	18	100	0	76	23	10	26	39	1.87
34016826--34016968	24	5.8	24	76	12	112	33	23	25	17	1.96
34016826--34016976	48	3.1	48	72	12	128	34	22	25	17	1.96
34016841--34016968	25	5.2	25	76	16	108	32	23	25	17	1.97
34024004--34024045	16	2.6	16	92	0	66	42	7	2	47	1.43
34024317--34024395	19	4.2	19	74	9	72	27	3	2	65	1.22
34024338--34024380	17	2.5	16	85	11	50	25	2	2	69	1.12
34031812--34031851	21	1.9	21	89	0	62	30	35	10	25	1.88
34038309--34038516	86	2.4	86	79	7	226	28	27	18	25	1.98
34038309--34038506	44	4.6	44	81	6	226	28	27	19	24	1.98
34041185--34041271	25	3.5	25	75	6	77	34	20	24	20	1.97
34041258--34041329	25	2.9	24	82	12	74	36	20	26	16	1.94
34057707--34057737	9	3.4	9	90	0	53	25	12	22	38	1.90
34058400--34058425	5	5.2	5	100	0	52	19	19	19	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34058619--34058659	9	4.6	9	81	0	55	68	4	0	26	1.10
34058619--34058659	18	2.3	18	91	0	64	68	4	0	26	1.10
34060966--34061013	24	2.0	24	95	0	87	33	31	16	18	1.94
34063465--34063490	5	5.2	5	100	0	52	23	19	19	38	1.93
34063580--34063605	5	5.2	5	100	0	52	19	19	19	42	1.90
34063799--34063839	9	4.6	9	81	0	55	68	4	0	26	1.10
34063799--34063839	18	2.3	18	91	0	64	68	4	0	26	1.10
34066146--34066193	24	2.0	24	95	0	87	33	31	16	18	1.94
34070596--34070655	24	2.5	24	86	2	75	18	23	20	38	1.93
34074640--34074681	15	2.7	15	88	3	57	73	2	19	4	1.12
34074731--34074758	4	7.0	4	100	0	56	75	0	25	0	0.81
34076847--34076893	17	2.8	17	93	0	76	40	10	14	34	1.81
34085214--34085304	44	2.1	44	93	0	155	30	10	8	49	1.68
34087625--34087754	25	5.2	25	87	0	154	19	29	20	31	1.97
34103721--34103808	26	3.4	26	80	3	106	35	17	7	39	1.78
34112906--34112947	18	2.4	17	84	11	57	7	21	2	69	1.25
34121185--34121250	21	3.1	21	74	8	80	40	3	3	53	1.32
34121206--34121240	7	5.0	7	96	0	61	40	0	0	60	0.97
34121852--34121907	27	2.1	27	86	6	78	60	1	3	33	1.24
34130665--34130707	17	2.5	17	80	3	50	34	4	0	60	1.17
34134831--34134879	26	1.9	26	87	4	73	44	10	14	30	1.78
34136090--34136150	22	2.7	22	87	2	77	49	1	1	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34136126--34136165	16	2.5	16	91	0	62	47	2	7	42	1.45
34136780--34136836	3	19.3	3	85	3	80	64	3	1	29	1.20
34137631--34137664	17	2.0	17	88	0	50	0	23	0	76	0.79
34142469--34142495	7	3.9	7	100	0	54	14	40	14	29	1.86
34145198--34145237	17	2.4	17	100	0	80	57	15	20	7	1.61
34162541--34162966	126	3.4	125	86	1	568	29	17	23	29	1.97
34166119--34166924	21	38.0	21	79	7	805	23	0	29	46	1.57
34166119--34166924	43	19.0	43	84	6	846	23	0	29	46	1.57
34166119--34166950	86	9.8	86	84	6	957	23	0	29	46	1.57
34166401--34166446	15	3.0	16	78	15	53	21	0	30	47	1.51

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