genome.fa.s6.2.7.7.80.10.50.1000.34.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  34  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)
11020521--11020607	44	2.0	44	88	8	133	35	27	5	31	1.80
11020593--11020631	16	2.4	16	95	0	69	20	33	7	38	1.81
11028188--11028254	36	1.9	35	82	8	84	22	38	13	25	1.90
11030011--11030047	18	2.1	18	94	0	65	21	16	10	51	1.74
11033059--11033138	20	4.0	20	77	6	81	55	13	11	20	1.69
11036288--11036349	17	3.4	17	69	26	54	27	1	24	46	1.62
11036259--11036399	39	3.6	39	93	0	237	30	4	21	43	1.71
11045117--11045167	24	2.1	25	92	3	86	68	5	5	19	1.31
11047264--11047336	37	2.0	37	100	0	146	39	21	10	27	1.87
11057058--11057147	20	4.3	20	69	17	58	16	17	3	62	1.46
11064482--11064534	25	2.1	25	89	6	81	39	20	15	24	1.91
11065675--11065755	25	3.3	25	74	6	67	30	17	20	30	1.96
11065721--11065802	25	3.3	25	91	0	119	35	19	20	24	1.96
11067343--11067387	10	4.3	10	86	10	63	40	0	2	57	1.11
11071369--11071422	16	3.4	16	92	0	90	38	1	33	25	1.67
11071404--11071499	44	2.1	46	94	3	169	29	4	31	35	1.76
11071651--11071684	18	1.9	17	88	5	50	55	2	0	41	1.15
11071677--11071706	15	1.9	16	93	6	53	50	6	0	43	1.28
11076364--11076441	30	2.8	28	74	16	72	43	19	0	37	1.51
11086823--11086905	33	2.5	33	86	5	114	43	15	8	32	1.77
11094057--11094105	12	3.9	12	79	10	53	24	6	4	65	1.33
11094057--11094089	14	2.3	15	94	5	59	24	0	6	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11110631--11110759	43	3.0	42	76	13	145	31	27	19	21	1.97
11121007--11121159	66	2.3	66	87	2	218	33	24	18	24	1.97
11123616--11123696	17	4.4	17	77	19	90	58	11	18	12	1.63
11123626--11123694	19	3.2	24	62	33	64	57	11	17	13	1.64
11123628--11123711	41	2.0	41	97	0	159	58	9	17	14	1.62
11126815--11126862	22	2.1	23	84	7	62	41	2	2	54	1.24
11127700--11127754	28	2.0	28	85	7	76	49	5	7	38	1.54
11133520--11133759	27	8.9	27	76	6	202	37	21	18	22	1.94
11133520--11133759	81	3.0	81	84	6	301	37	21	18	22	1.94
11133520--11133759	54	4.5	54	80	4	227	37	21	18	22	1.94
11133741--11133840	24	4.0	25	84	5	80	25	15	23	37	1.93
11133776--11133886	24	4.6	24	84	8	127	23	8	23	45	1.79
11133778--11133886	48	2.3	48	85	6	141	23	8	22	44	1.80
11134156--11134229	22	3.3	21	77	5	67	16	21	18	43	1.88
11135259--11135346	46	1.9	46	86	4	124	21	20	19	38	1.93
11139917--11139965	19	2.4	21	86	6	66	46	20	18	14	1.83
11139920--11140107	21	9.1	21	76	2	112	44	19	19	16	1.87
11139941--11140077	42	3.3	43	84	4	165	45	18	19	16	1.85
11139948--11140112	21	7.9	21	74	4	136	44	17	19	18	1.87
11150392--11150443	21	2.5	21	83	0	77	25	42	19	13	1.87
11151620--11151658	14	2.8	14	84	0	51	41	12	17	28	1.87
11152233--11152272	18	2.2	18	86	8	55	60	2	0	37	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11153430--11153608	14	13.1	13	71	20	93	69	0	30	0	0.88
11153431--11153630	24	7.9	24	68	22	90	69	0	30	0	0.89
11153464--11153586	5	25.2	5	68	17	71	66	0	33	0	0.92
11153448--11153627	30	6.3	30	71	16	116	68	0	31	0	0.89
11153432--11153584	44	3.6	43	77	16	176	69	0	30	0	0.89
11153951--11154724	157	4.9	153	72	16	621	49	8	11	30	1.69
11154073--11154546	162	3.0	158	74	14	511	49	8	11	29	1.69
11153951--11154724	319	2.4	319	92	3	1301	49	8	11	30	1.69
11156198--11156238	11	3.6	11	84	15	57	0	29	0	70	0.87
11156737--11156780	1	44.0	1	93	0	70	95	0	2	2	0.31
11156723--11156780	24	2.4	24	91	2	89	87	3	3	5	0.72
11156740--11156779	21	1.9	21	100	0	80	95	0	2	2	0.34
11156739--11156780	22	1.9	22	100	0	84	95	0	2	2	0.32
11156723--11156780	25	2.3	25	90	0	89	87	3	3	5	0.72
11167126--11167156	7	4.4	7	95	0	53	58	0	25	16	1.38
11168433--11168475	22	2.0	22	85	0	59	9	11	27	51	1.69
11168568--11168807	42	5.7	43	76	9	219	30	20	22	27	1.98
11168565--11168807	127	1.9	126	94	2	425	31	19	21	26	1.98
11180037--11180070	18	1.9	17	88	5	50	58	0	2	38	1.13
11181404--11181472	27	2.6	27	81	2	77	26	21	13	39	1.90
11181732--11181787	22	2.5	23	82	2	69	51	1	1	44	1.22
11181763--11181802	16	2.5	16	91	0	62	47	2	7	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11181875--11181902	9	3.1	9	100	0	56	32	0	10	57	1.33
11181791--11182068	68	4.1	68	97	0	515	40	5	8	45	1.57
11181943--11181970	9	3.1	9	100	0	56	32	0	10	57	1.33
11182011--11182038	9	3.1	9	100	0	56	32	0	10	57	1.33
11185499--11185558	3	20.0	3	100	0	120	66	0	0	33	0.92
11189631--11189669	21	1.9	21	89	5	62	33	25	15	25	1.95
11202704--11202739	3	12.0	3	100	0	72	33	0	0	66	0.92
11207021--11207077	21	2.7	22	80	17	68	45	5	0	49	1.24
11217417--11217493	38	2.0	38	100	0	154	42	15	15	25	1.86
11223092--11223137	17	2.6	18	82	6	58	50	0	2	47	1.13
11223127--11223261	21	6.8	20	70	18	77	54	1	7	37	1.38
11223148--11223222	36	2.0	38	87	10	109	56	0	5	38	1.22
11223535--11223580	20	2.3	20	88	7	67	39	4	2	54	1.32
11223602--11223645	21	2.2	20	84	12	54	29	4	4	61	1.36
11223670--11223705	10	3.5	10	92	3	54	27	11	0	61	1.30
11224539--11224575	18	2.1	18	89	0	56	0	16	0	83	0.64
11225817--11225954	69	2.0	70	88	1	206	26	17	18	37	1.93
11225817--11225955	70	2.0	70	88	2	208	26	17	17	38	1.92
11230524--11230565	16	2.7	16	88	3	59	80	0	9	9	0.89
11231950--11232155	86	2.4	86	93	0	349	29	20	26	24	1.99
11232104--11232212	56	1.9	57	94	1	193	32	21	25	21	1.98
11232018--11232300	143	2.0	143	92	1	478	30	22	24	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11232148--11232364	87	2.5	87	88	0	317	30	23	23	22	1.99
11232423--11232884	244	1.9	244	92	0	780	31	24	20	23	1.98
11232606--11233344	101	7.4	100	88	1	968	32	23	19	23	1.97
11232606--11233344	201	3.7	200	86	2	963	32	23	19	23	1.97
11232423--11233330	50	18.2	50	68	7	461	32	23	20	23	1.98
11233417--11233605	44	4.4	44	68	16	142	30	21	21	26	1.98
11233377--11233618	129	1.9	129	89	0	358	30	21	21	26	1.99
11244888--11244912	13	1.9	13	100	0	50	24	8	28	40	1.83
11253480--11253543	27	2.4	27	89	0	101	18	23	34	23	1.96
11254270--11254303	17	2.0	17	94	0	59	23	23	38	14	1.92
11254489--11254558	22	3.2	22	67	25	67	20	34	12	32	1.90
11254474--11254559	43	2.0	43	100	0	172	20	34	13	30	1.92
11255990--11256026	16	2.2	17	95	4	67	56	13	0	29	1.37
11256537--11256580	18	2.4	18	88	0	61	47	25	9	18	1.77
11260316--11260346	15	2.0	16	93	6	55	83	12	3	0	0.75
11261358--11261402	18	2.5	18	96	0	81	28	4	53	13	1.59
11266358--11266427	4	18.0	4	74	24	53	1	27	0	71	0.94
11266333--11266427	30	3.1	30	80	15	106	1	28	0	70	0.94
11266321--11266427	18	5.9	18	71	17	71	0	29	0	69	0.95
11266482--11266570	27	3.3	27	91	0	142	16	34	32	15	1.91
11269902--11269960	5	12.0	5	76	20	54	22	3	18	55	1.57
11269860--11269983	9	13.6	9	70	13	76	22	4	18	54	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11269898--11270004	49	2.2	48	82	14	130	20	4	19	55	1.61
11270593--11270631	18	2.1	19	90	4	62	48	0	17	33	1.48
11277044--11277403	22	16.4	22	85	0	470	28	10	18	42	1.83
11277047--11277345	11	27.2	11	62	16	93	29	10	17	43	1.82
11277042--11277403	66	5.5	66	90	1	519	28	10	18	42	1.83
11278365--11278474	24	4.6	24	98	0	211	20	42	15	21	1.88
11283520--11283563	17	2.5	17	79	17	54	50	0	2	47	1.13
11283520--11283653	66	2.0	67	98	1	261	41	2	7	47	1.47
11286762--11286820	25	2.4	24	83	5	73	15	8	6	69	1.34
11288635--11288667	16	2.0	16	94	5	57	72	3	0	24	0.98

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