genome.fa.s1.2.7.7.80.10.50.1000.78.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   

This is table  78  of  93  ( 11113 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)
29810623--29810787	31	5.4	31	80	1	134	28	27	18	26	1.98
29810623--29810787	61	2.7	61	82	0	177	28	27	18	26	1.98
29810761--29811016	104	2.4	106	86	3	349	29	27	19	23	1.98
29814840--29814899	23	2.6	23	72	0	66	38	15	13	33	1.86
29814939--29815099	21	7.2	21	73	12	92	37	16	13	31	1.88
29814940--29815036	44	2.2	43	85	1	122	41	16	12	29	1.85
29815058--29815121	25	2.6	25	90	4	96	40	15	12	31	1.85
29822203--29822256	27	2.1	24	83	10	63	33	1	14	50	1.54
29822207--29822262	25	2.1	27	80	6	62	37	1	14	46	1.55
29845803--29845855	20	2.7	20	84	0	70	41	3	1	52	1.30
29858761--29858808	3	16.0	3	91	0	69	2	33	4	60	1.27
29863967--29864022	20	2.8	20	86	2	67	57	16	8	17	1.64
29864838--29865003	82	2.0	82	82	4	201	39	19	17	22	1.92
29864870--29865512	199	3.2	197	80	5	650	36	16	19	27	1.93
29867087--29867202	2	58.5	2	70	14	80	46	2	4	45	1.36
29874571--29874734	27	6.1	27	80	4	143	43	5	15	35	1.70
29874571--29874734	81	2.0	81	82	6	199	43	5	15	35	1.70
29876949--29877033	26	3.4	26	82	12	83	68	7	17	7	1.36
29876984--29877040	26	2.2	26	93	0	105	64	10	17	7	1.46
29889284--29889329	17	2.7	17	78	18	51	76	0	21	2	0.90
29889288--29889321	12	2.7	13	86	9	52	76	0	23	0	0.79
29891308--29891810	31	16.4	30	68	13	242	33	17	18	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29891308--29891682	61	6.1	62	83	3	463	33	18	18	28	1.95
29891308--29891682	122	3.1	122	90	0	597	33	18	18	28	1.95
29891687--29891833	61	2.4	61	74	6	136	33	15	17	33	1.92
29891871--29891925	22	2.6	21	83	8	76	32	25	9	32	1.87
29891993--29892036	21	2.0	21	86	4	61	25	27	13	34	1.93
29891831--29892178	122	2.8	122	89	1	509	29	20	14	35	1.92
29893269--29893326	21	2.8	20	79	10	62	75	0	24	0	0.80
29893269--29893326	15	3.9	15	84	8	66	75	0	24	0	0.80
29896618--29896652	2	17.5	2	93	0	61	48	0	2	48	1.16
29896618--29896828	106	2.0	105	100	0	413	35	12	18	34	1.88
29896724--29896758	2	17.5	2	93	0	61	48	0	2	48	1.16
29900276--29900313	17	2.3	17	86	13	53	55	0	0	44	0.99
29933453--29933479	2	13.5	2	100	0	54	48	0	0	51	1.00
29934575--29934669	46	2.1	46	88	4	138	18	11	11	57	1.63
29938940--29939018	40	2.0	40	84	0	104	36	22	21	18	1.95
29947358--29947528	92	1.9	92	96	0	315	32	18	18	30	1.95
29947535--29947729	47	4.0	47	65	13	122	26	22	20	30	1.98
29947587--29947652	28	2.4	28	84	0	78	36	18	15	30	1.91
29947607--29947668	28	2.2	28	88	5	90	33	14	17	33	1.90
29947715--29947744	15	2.0	15	93	0	51	3	33	23	40	1.71
29953169--29953205	18	2.1	18	89	0	56	40	24	18	16	1.90
29956294--29956367	4	18.2	4	74	20	57	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29956303--29956376	23	3.3	22	81	9	87	72	0	0	27	0.84
29956468--29956496	13	2.2	13	100	0	58	79	13	6	0	0.93
29970967--29971033	31	2.1	32	94	2	118	47	7	8	34	1.63
29976351--29976490	27	5.0	27	73	16	106	42	18	10	28	1.82
29977177--29977233	26	2.2	26	78	6	62	50	8	8	31	1.64
29977190--29977232	13	3.4	12	78	9	50	44	9	9	37	1.69
29981034--29981062	2	14.5	2	100	0	58	51	0	0	48	1.00
29981264--29981505	130	1.9	130	85	2	335	33	4	5	56	1.42
29983047--29983099	25	2.1	25	96	0	97	50	13	0	35	1.41
29992253--29992290	19	2.0	19	94	0	67	42	28	0	28	1.56
29994995--29995104	35	3.1	35	84	0	139	34	4	14	46	1.65
29997922--29997979	22	2.6	22	83	0	80	32	3	15	48	1.62
29997944--29998011	35	1.9	35	87	0	100	35	5	13	45	1.67
29998603--29998681	34	2.3	34	97	0	149	29	24	17	29	1.97
29998881--29998931	2	27.5	2	77	15	56	56	0	0	43	0.99
29998884--29998930	12	4.0	12	89	10	71	59	0	0	40	0.97
30003815--30003848	12	2.8	12	95	0	59	32	17	17	32	1.94
30010901--30010939	7	5.6	7	96	0	69	53	15	12	17	1.72
30011545--30011592	20	2.4	20	100	0	96	0	25	4	70	1.04
30011536--30011596	20	2.7	22	80	17	72	3	24	3	68	1.19
30026277--30026321	18	2.6	17	79	6	54	73	0	2	24	0.95
30026280--30026321	17	2.4	17	84	4	57	76	0	2	21	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30026946--30026972	5	5.4	5	100	0	54	18	0	0	81	0.69
30027637--30027662	2	13.0	2	100	0	52	50	0	0	50	1.00
30035391--30035442	17	3.1	17	85	0	68	26	1	0	71	0.97
30035882--30036234	195	1.8	196	82	5	464	34	8	5	51	1.55
30036332--30036371	15	2.7	15	88	7	55	27	0	0	72	0.85
30036053--30038047	251	7.8	252	73	12	1168	33	11	6	48	1.64
30036536--30036605	20	3.5	20	96	0	122	30	24	5	40	1.78
30036527--30036605	40	1.9	41	89	5	124	30	22	5	41	1.75
30037111--30037969	252	3.5	241	81	7	885	34	10	6	49	1.62
30036861--30037969	492	2.2	489	82	6	1259	34	10	6	49	1.62
30037365--30038047	252	2.7	248	81	5	658	34	9	7	49	1.63
30055372--30055472	44	2.3	43	75	1	103	44	23	10	20	1.83
30055372--30055517	22	6.7	22	71	5	91	43	21	11	23	1.85
30061281--30061319	18	2.2	18	90	0	60	15	5	53	25	1.62
30067512--30067655	72	2.0	71	95	4	263	32	2	9	54	1.48
30080457--30080533	38	2.0	38	94	0	136	36	14	7	41	1.75
30083052--30083101	21	2.2	24	80	16	63	60	2	2	36	1.20
30089936--30089969	17	2.0	17	88	0	50	47	5	5	41	1.52
30101349--30101395	2	24.0	2	78	4	51	42	4	4	48	1.42
30120147--30120198	26	2.0	26	100	0	104	34	34	3	26	1.75
30130028--30130069	12	3.5	12	86	0	57	42	0	57	0	0.99
30130821--30130858	18	2.2	16	90	9	58	7	13	0	78	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30130830--30130856	14	1.9	14	100	0	54	7	11	0	81	0.87
30135516--30135540	11	2.3	11	100	0	50	0	0	8	92	0.40
30139772--30139816	14	3.1	15	78	12	58	73	8	4	13	1.23
30141595--30141620	3	8.7	3	100	0	52	30	0	0	69	0.89
30151900--30151949	24	2.0	25	82	17	61	64	14	0	22	1.29
30153914--30154045	68	1.9	68	90	3	212	29	19	21	29	1.98
30154048--30154115	34	2.0	34	94	0	118	32	17	17	32	1.94
30154511--30154738	81	2.8	80	82	3	253	42	7	7	42	1.60
30160081--30160164	33	2.6	33	85	12	104	70	2	1	26	1.07
30160115--30160165	25	2.1	24	88	3	75	72	0	1	25	0.95
30160445--30160499	15	3.7	15	82	0	65	32	20	7	40	1.80
30161072--30161178	45	2.4	43	77	13	103	27	3	3	65	1.27
30172633--30172683	22	2.3	21	80	9	57	35	1	0	62	1.06
30176586--30176627	2	21.0	2	100	0	84	50	0	0	50	1.00
30183041--30183128	18	4.5	21	78	12	98	42	17	11	29	1.84
30183043--30183083	12	3.7	12	75	18	52	46	12	9	31	1.74
30183076--30183128	9	5.9	9	81	0	70	39	18	13	28	1.88
30183378--30183413	18	2.0	18	94	0	63	44	19	11	25	1.83
30183386--30183425	18	2.2	18	86	8	55	47	20	10	22	1.79
30194851--30194898	15	3.1	15	84	3	60	33	6	20	39	1.78
30194858--30194931	15	4.9	15	88	0	67	35	6	22	35	1.81
30195253--30195316	33	2.0	32	87	9	94	21	3	1	73	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30195461--30195493	13	2.5	13	100	0	66	30	18	9	42	1.81
30205666--30205839	60	2.9	59	83	6	208	23	18	33	24	1.97
30207675--30207884	108	1.9	108	90	3	334	43	3	15	37	1.65
30216810--30216844	18	1.9	18	88	11	54	45	2	5	45	1.41
30217575--30217609	15	2.3	15	90	9	54	8	25	11	54	1.64
30255605--30255811	27	7.9	27	76	8	176	48	1	2	47	1.26
30255586--30255803	53	4.1	53	71	17	141	45	2	3	48	1.34
30255669--30255728	28	2.1	30	87	9	90	43	0	1	55	1.10
30255706--30255809	48	2.1	49	83	1	138	50	2	1	45	1.28
30267776--30267800	5	5.0	5	100	0	50	0	20	20	60	1.37

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