genome.fa.s2.2.7.7.80.10.50.1000.12.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: chr2
Parameters: 2 7 7 80 10 50 1000
Length:  41236440

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   

This is table  12  of  106  ( 12678 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)
5712904--5712969	29	2.4	27	84	5	78	34	6	18	40	1.75
5719268--5719314	24	1.9	25	87	12	71	14	17	6	61	1.53
5719268--5719314	25	1.9	24	86	4	67	14	17	6	61	1.53
5743004--5743058	28	2.0	28	85	7	76	29	1	5	63	1.27
5743681--5743753	33	2.2	33	87	0	101	39	6	8	45	1.61
5743814--5743916	30	3.5	30	80	6	111	53	8	4	33	1.53
5746652--5746698	15	2.9	16	78	12	51	46	2	2	48	1.25
5751837--5751874	20	1.9	20	84	10	51	44	7	5	42	1.56
5753339--5753546	102	2.0	102	90	1	328	28	24	24	23	2.00
5759373--5759398	2	13.0	2	100	0	52	50	0	0	50	1.00
5771090--5771153	2	32.0	2	84	12	87	45	3	50	0	1.17
5777118--5777144	12	2.2	12	100	0	54	40	7	33	18	1.78
5786958--5787000	15	2.8	14	80	19	50	32	0	0	67	0.91
5794516--5794545	3	10.0	3	92	0	51	3	0	30	66	1.07
5796719--5796749	2	15.5	2	100	0	62	48	0	0	51	1.00
5797301--5797353	28	2.0	27	89	10	83	49	0	0	50	1.00
5797313--5797371	24	2.4	25	81	13	79	50	1	0	47	1.11
5797310--5797367	28	2.1	28	83	6	73	46	1	0	51	1.11
5805560--5805591	2	16.0	2	100	0	64	50	0	50	0	1.00
5815843--5816993	339	3.4	335	82	7	1269	45	6	6	41	1.55
5817365--5817415	15	3.4	15	84	10	68	39	9	17	33	1.83
5817683--5817761	29	2.9	28	73	25	78	30	3	0	65	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5817683--5817765	31	3.1	24	77	19	76	30	3	0	66	1.09
5817683--5817788	55	1.9	54	85	9	144	30	4	0	65	1.13
5817747--5817796	26	1.9	26	88	8	75	32	4	0	64	1.12
5817780--5817811	15	2.1	15	94	0	55	31	0	0	68	0.90
5821260--5821303	12	3.7	12	79	11	54	43	0	22	34	1.54
5825754--5825832	37	2.1	37	97	0	149	37	13	17	30	1.89
5843051--5843248	108	1.8	108	86	2	290	30	17	19	32	1.95
5859218--5859303	23	3.7	23	84	9	88	45	0	2	52	1.13
5859325--5859394	27	2.7	26	77	4	70	20	4	1	74	1.07
5859495--5859554	22	2.7	22	77	7	68	48	1	5	45	1.34
5866492--5866526	2	18.0	2	88	5	54	45	0	0	54	0.99
5870673--5870704	3	10.7	3	93	0	55	31	0	3	65	1.08
5872688--5872717	10	3.0	10	90	0	51	60	6	13	20	1.55
5872517--5872920	215	1.9	214	88	3	609	52	9	9	28	1.64
5873910--5874116	108	1.9	109	91	1	344	44	3	15	35	1.65
5874833--5874900	18	4.1	17	72	14	61	52	0	1	45	1.09
5875686--5875712	2	13.5	2	100	0	54	48	0	0	51	1.00
5893880--5893930	25	2.0	25	96	0	93	29	15	7	47	1.74
5893878--5893934	25	2.4	23	83	13	80	28	17	8	45	1.78
5899866--5903973	882	4.6	892	79	9	4180	29	16	20	33	1.94
5923593--5923644	15	3.7	15	77	15	56	25	15	40	19	1.90
5927759--5928076	157	2.0	155	92	6	516	27	8	11	52	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5928356--5928439	17	4.9	17	72	23	61	22	7	0	70	1.11
5929226--5929261	12	2.8	12	91	8	54	5	5	5	83	0.91
5929225--5929276	26	2.0	27	88	11	81	3	7	7	80	1.00
5943216--5943248	2	16.5	2	93	0	57	45	0	3	51	1.16
5953433--5953460	2	14.0	2	100	0	56	0	50	0	50	1.00
5953460--5953489	2	15.0	2	100	0	60	50	0	0	50	1.00
5953497--5953522	2	13.0	2	100	0	52	0	50	0	50	1.00
5953523--5953552	2	15.0	2	100	0	60	50	0	0	50	1.00
5960035--5960072	2	19.0	2	88	0	58	47	2	0	50	1.15
5962611--5962643	15	2.2	15	89	10	50	57	0	0	42	0.98
5967967--5968015	20	2.2	24	82	17	70	30	0	0	69	0.89
5967969--5968016	23	2.2	23	89	10	75	31	0	0	68	0.90
5968451--5968499	24	2.0	24	84	0	62	22	26	20	30	1.98
5968772--5968842	32	2.2	33	79	2	81	32	4	12	50	1.59
5969721--5969754	15	2.2	16	89	5	52	50	0	2	47	1.16
5973030--5973252	6	37.3	6	78	0	142	40	5	8	44	1.59
5973031--5973252	28	8.0	28	80	1	158	40	5	9	44	1.59
5973053--5973252	16	12.3	16	72	11	129	40	5	10	45	1.60
5975473--5975572	51	2.0	51	95	0	182	17	24	20	39	1.92
5976947--5977000	21	2.6	21	75	16	58	24	31	29	14	1.95
5978159--5978191	13	2.4	14	90	5	50	57	18	24	0	1.40
5983429--5983492	30	2.1	30	100	0	128	21	28	6	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5985290--5985344	8	6.6	8	76	15	58	78	0	0	21	0.76
5985280--5985344	34	1.9	34	84	6	87	75	0	1	23	0.89
5994690--5994721	15	2.1	15	94	0	55	15	12	0	71	1.14
5995507--5995533	1	27.0	1	100	0	54	100	0	0	0	0.00
6018947--6018981	9	3.8	9	85	7	52	20	0	2	77	0.90
6019016--6019045	14	2.1	14	93	0	51	53	10	0	36	1.35
6020449--6020536	30	2.9	30	88	5	124	40	11	14	32	1.82
6024514--6024559	12	3.8	12	91	0	74	47	10	34	6	1.64
6024514--6024558	6	7.5	6	84	0	63	48	11	35	4	1.59
6039373--6039397	3	8.3	3	100	0	50	32	0	0	68	0.90
6050680--6050711	2	16.0	2	100	0	64	50	0	0	50	1.00
6065257--6065300	20	2.3	20	84	7	56	40	0	4	54	1.21
6065317--6065398	39	2.0	41	83	6	105	23	14	21	40	1.90
6077969--6078067	48	2.1	48	98	0	189	28	26	18	27	1.98
6086551--6086858	153	2.0	156	80	4	347	25	24	15	34	1.95
6086551--6086858	78	4.0	78	80	3	318	25	24	15	34	1.95
6088782--6089003	105	2.1	105	85	1	302	18	18	15	47	1.82
6093964--6094005	14	3.0	14	96	0	75	54	14	30	0	1.40
6093953--6094005	28	1.9	28	84	3	72	58	13	28	0	1.35
6127718--6127775	28	2.1	28	87	6	82	27	20	22	29	1.99
6128956--6128996	2	21.0	2	95	5	75	0	0	48	51	1.00
6129108--6129209	37	2.6	39	84	4	136	21	15	41	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6135014--6135060	24	2.0	24	86	0	67	8	19	27	44	1.79
6142446--6142479	16	2.1	16	88	0	50	26	0	0	73	0.83
6149199--6149228	2	15.5	2	93	6	53	50	0	0	50	1.00
6162392--6162419	2	14.0	2	100	0	56	50	0	0	50	1.00
6185664--6185700	2	18.5	2	100	0	74	48	0	0	51	1.00
6185780--6185808	2	14.5	2	100	0	58	48	0	0	51	1.00
6186479--6186517	21	1.9	21	85	15	55	51	15	7	25	1.70
6188350--6188393	15	3.0	14	87	9	61	45	0	0	52	1.01
6188266--6188505	119	2.0	122	94	3	416	42	5	3	47	1.44
6188319--6188496	53	3.1	53	67	21	133	44	4	3	46	1.40
6188469--6188505	16	2.4	16	86	13	51	45	0	0	54	1.00
6188536--6188572	15	2.4	16	82	13	51	54	0	2	43	1.14
6188782--6188838	29	2.0	29	89	0	87	38	26	10	24	1.88
6193472--6193514	2	21.5	2	100	0	86	51	0	0	48	1.00
6193514--6193546	2	16.5	2	100	0	66	51	0	48	0	1.00
6193555--6193592	2	19.0	2	100	0	76	50	0	0	50	1.00
6193592--6193632	2	20.5	2	90	9	66	51	0	46	2	1.14
6235745--6235811	22	2.9	24	69	13	68	40	0	1	58	1.07
6236924--6236986	28	2.2	28	80	5	74	73	3	3	20	1.12
6239327--6239386	18	3.5	18	68	21	56	35	10	10	45	1.71
6239962--6240027	33	2.0	34	85	8	91	39	6	1	53	1.35
6240473--6240504	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6253870--6253903	2	17.0	2	100	0	68	50	0	0	50	1.00
6254476--6254564	30	3.0	30	85	1	117	32	2	5	59	1.33
6254512--6254573	30	2.1	30	90	0	97	29	4	9	56	1.52
6256117--6256155	19	2.0	20	85	5	53	43	0	53	2	1.14
6279608--6279659	18	3.2	17	74	25	58	51	0	0	48	1.00
6290858--6290904	22	2.1	23	88	4	69	46	10	23	19	1.80
6295668--6295702	18	1.9	18	88	0	52	34	17	37	11	1.85
6296159--6296204	22	2.0	23	91	4	76	45	15	23	15	1.84
6299294--6299342	23	2.1	23	100	0	98	18	34	34	12	1.88
6301641--6301820	28	6.5	27	76	5	155	41	15	9	33	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