genome.fa.s6.2.7.7.80.10.50.1000.20.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:  35726063

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   

This is table  20  of  109  ( 13028 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)
6733722--6733985	137	1.9	136	83	3	343	50	13	14	21	1.77
6735974--6736013	17	2.2	19	86	8	57	40	2	0	57	1.12
6738501--6738563	27	2.3	27	97	0	117	22	34	31	11	1.89
6738613--6738658	19	2.3	20	85	10	60	17	2	6	73	1.14
6751072--6752073	42	23.8	42	82	1	961	23	17	18	40	1.90
6756101--6756525	212	2.0	213	99	0	843	38	11	11	38	1.78
6758508--6758581	6	12.2	6	97	1	94	39	0	43	17	1.49
6764901--6764943	21	2.1	20	86	4	59	32	16	11	39	1.84
6767720--6767794	37	2.0	38	84	7	100	48	10	16	25	1.78
6803951--6804889	89	10.6	89	90	1	1398	30	18	24	27	1.98
6809915--6810149	124	1.9	124	88	1	355	27	16	9	46	1.78
6811257--6811622	180	2.0	180	93	0	624	40	18	11	30	1.85
6812329--6812534	44	4.7	44	84	1	171	31	18	22	26	1.97
6812319--6812543	88	2.5	88	79	6	256	31	20	21	27	1.98
6812455--6812822	146	2.5	147	87	1	517	32	18	20	29	1.96
6812494--6812778	51	5.7	50	68	12	176	33	18	18	29	1.95
6812750--6812859	44	2.5	44	87	0	157	25	16	28	30	1.97
6815204--6815243	21	1.9	21	89	0	62	67	2	2	27	1.16
6815860--6815902	23	1.9	23	85	4	61	37	4	20	37	1.74
6826129--6826300	84	2.0	85	98	1	337	40	6	3	48	1.47
6827946--6827987	21	2.0	21	86	9	59	52	4	4	38	1.44
6829945--6830068	47	2.6	47	87	2	169	23	20	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6830162--6830223	20	3.0	20	70	21	65	48	1	14	35	1.54
6830364--6830404	18	2.4	17	84	8	57	46	0	4	48	1.23
6831539--6831644	45	2.6	39	76	16	113	21	16	18	43	1.88
6831550--6831646	45	2.2	45	90	0	149	21	15	19	43	1.88
6852502--6852528	12	2.2	12	100	0	54	70	0	0	29	0.88
6871784--6872153	45	8.3	45	78	2	354	30	19	25	25	1.98
6871774--6872187	89	4.7	89	93	0	659	28	19	25	26	1.98
6893761--6893811	14	3.4	14	73	21	50	45	3	1	49	1.32
6893746--6893811	31	2.1	31	83	5	80	42	4	4	48	1.44
6900596--6900649	19	2.8	19	88	0	90	35	9	18	37	1.83
6900596--6900675	19	3.9	21	82	8	78	35	7	18	38	1.79
6918908--6919047	46	3.0	46	94	0	235	30	27	7	33	1.85
6919990--6920050	28	2.3	25	83	10	77	63	1	0	34	1.04
6920112--6920174	27	2.4	27	94	2	110	23	33	36	6	1.80
6927220--6927269	23	2.2	23	96	0	91	30	30	20	20	1.97
6929888--6929916	12	2.4	12	100	0	58	34	6	0	58	1.25
6932306--6932365	21	3.0	21	92	4	97	13	23	20	43	1.86
6935512--6935541	15	2.0	15	93	0	51	50	0	33	16	1.46
6935864--6935985	43	2.8	44	81	3	140	25	16	28	29	1.97
6937850--6938034	93	2.0	93	97	1	354	42	9	3	44	1.55
6938595--6938620	5	5.2	5	100	0	52	19	19	19	42	1.90
6940761--6940788	13	2.2	13	100	0	56	46	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6940779--6941083	24	13.2	22	65	21	108	44	21	7	25	1.78
6940774--6941083	69	4.5	69	92	0	494	44	21	7	26	1.78
6940954--6941053	22	4.4	23	73	5	87	44	20	11	25	1.84
6940871--6941069	45	4.3	46	72	8	154	46	21	7	24	1.77
6941237--6941497	24	11.3	22	70	21	162	45	21	7	25	1.78
6941208--6941497	69	4.2	69	97	0	535	45	20	8	25	1.79
6941264--6941487	45	4.9	45	70	17	149	45	20	8	25	1.79
6942312--6942468	41	3.8	41	87	0	215	33	27	19	19	1.96
6942844--6942902	28	2.0	30	81	15	70	42	11	1	44	1.51
6943061--6943085	13	1.9	13	100	0	50	40	24	4	32	1.73
6950213--6950265	26	2.0	27	85	3	72	24	20	22	32	1.98
6951548--6951634	25	3.4	25	78	10	81	68	2	26	2	1.13
6952493--6952599	37	2.8	38	72	12	101	27	13	23	36	1.92
6958677--6958957	44	6.1	44	68	11	168	33	16	19	30	1.94
6958717--6958949	95	2.5	95	87	1	351	33	15	19	31	1.93
6958717--6958981	95	2.8	95	81	4	232	33	16	19	30	1.94
6960639--6960699	3	20.0	3	77	9	61	27	4	3	63	1.30
6966357--6966402	23	2.1	22	84	8	58	30	13	13	43	1.81
6973084--6973136	22	2.5	21	73	11	54	41	5	11	41	1.64
6990637--6990737	38	2.7	38	90	3	159	4	24	10	59	1.51
6992830--6992977	48	3.1	48	65	16	126	43	0	6	49	1.34
6992857--6992898	15	2.9	15	82	10	52	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6992810--6993000	95	2.0	95	95	0	346	41	1	7	49	1.37
6992818--6993046	95	2.5	94	87	4	290	43	1	6	48	1.37
6993210--6993255	16	2.9	16	93	0	74	26	32	2	39	1.68
7000562--7001487	132	7.0	132	93	0	1570	27	26	19	26	1.99
7002237--7002273	19	1.9	19	88	0	56	27	8	0	64	1.21
7003239--7003289	14	3.6	14	84	5	66	33	0	1	64	1.05
7004379--7004428	24	2.1	24	85	7	66	46	4	32	18	1.67
7004675--7005006	75	4.5	74	83	5	390	40	9	8	41	1.67
7005135--7005203	34	2.0	34	100	0	138	28	27	11	31	1.92
7005979--7006020	15	2.7	15	79	13	50	54	0	11	33	1.37
7007265--7007314	25	2.0	25	100	0	100	48	24	8	20	1.76
7021749--7026388	918	5.0	915	79	7	4336	29	17	16	36	1.92
7035011--7035047	18	2.0	19	89	5	58	16	35	5	43	1.71
7037455--7037519	26	2.5	26	83	11	80	49	0	0	50	1.00
7037626--7037675	25	1.9	27	84	8	68	42	4	10	44	1.56
7043299--7043339	18	2.2	19	87	12	59	39	0	0	60	0.96
7043331--7043370	20	2.0	21	85	14	57	70	7	0	22	1.12
7043789--7043828	16	2.5	16	87	0	62	42	5	30	22	1.75
7043805--7043902	44	2.2	47	83	9	132	33	4	25	36	1.75
7045157--7045187	10	3.1	10	95	0	53	58	19	12	9	1.62
7045169--7045259	25	3.6	25	82	8	112	60	15	7	16	1.57
7049236--7049267	1	32.0	1	100	0	64	0	0	0	100	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7060727--7060804	6	12.5	6	75	12	50	15	2	6	75	1.11
7060738--7060804	25	2.6	25	77	9	64	16	1	7	74	1.11
7063281--7063305	13	1.9	13	100	0	50	32	12	24	32	1.91
7067164--7067261	42	2.3	42	87	3	135	31	20	18	29	1.96
7069037--7069092	21	2.8	20	71	10	51	41	5	16	37	1.71
7084529--7084596	35	1.9	35	100	0	136	44	11	8	35	1.72
7088718--7088754	19	1.9	19	88	0	56	10	2	8	78	1.06
7094201--7094239	6	6.7	6	88	2	53	69	10	5	15	1.34
7096368--7096920	129	4.3	129	92	1	912	31	18	23	26	1.97
7096368--7096960	257	2.3	258	89	2	852	31	17	23	26	1.97
7096990--7097112	44	2.8	44	78	2	140	29	21	26	21	1.99
7097081--7097201	44	2.8	44	83	7	156	29	17	22	30	1.96
7098653--7098678	11	2.4	11	100	0	52	46	0	0	53	1.00
7105251--7105358	32	3.4	32	87	1	146	37	16	21	24	1.93
7105364--7105412	25	1.9	26	91	4	82	36	24	22	16	1.94
7105401--7105464	27	2.4	27	80	14	80	32	21	25	20	1.97
7105540--7105685	24	6.1	24	86	0	184	45	22	6	24	1.76
7105703--7105843	27	5.3	26	78	9	115	24	22	18	34	1.96
7105722--7105846	27	4.6	27	83	0	169	25	22	18	33	1.96
7106197--7106238	17	2.5	17	88	0	66	26	45	21	7	1.77
7112431--7112544	33	3.4	33	86	2	147	41	37	7	13	1.73
7113468--7113509	21	2.0	21	90	9	68	23	9	4	61	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7125024--7125069	18	2.5	19	80	16	53	76	2	8	13	1.11
7125687--7125726	18	2.1	19	86	13	55	10	17	2	70	1.27
7131605--7131841	115	2.1	117	97	2	453	38	10	4	47	1.57
7134362--7134451	41	2.2	41	97	0	171	40	14	18	26	1.89
7134385--7134455	21	3.4	21	67	18	67	39	12	19	28	1.88
7142475--7142593	38	3.0	38	75	12	141	52	3	6	36	1.44
7144011--7144129	38	3.0	38	75	12	141	52	3	6	36	1.44
7145997--7146205	69	3.0	69	99	0	409	26	8	22	42	1.82
7147031--7147097	21	3.2	20	72	12	64	41	0	2	55	1.15
7147342--7147419	30	2.6	29	80	12	77	34	11	12	41	1.80

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