genome.fa.s6.2.7.7.80.10.50.1000.52.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  52  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)
16847962--16848026	26	2.5	26	87	2	96	27	21	20	30	1.98
16848063--16848121	4	14.8	4	100	0	118	25	0	23	50	1.49
16850817--16850897	17	4.6	17	72	20	69	38	3	2	55	1.31
16851299--16851331	9	3.8	9	84	8	50	39	24	12	24	1.89
16851297--16851334	17	2.2	17	100	0	76	47	21	10	21	1.80
16859702--16859726	7	3.6	7	100	0	50	56	0	0	44	0.99
16864275--16864335	5	12.0	5	86	10	88	22	0	0	77	0.78
16864275--16864354	41	2.0	41	87	9	119	26	0	1	72	0.92
16865494--16865549	27	2.1	27	83	9	71	75	1	16	7	1.11
16876862--16877038	98	1.8	98	92	0	300	36	23	10	28	1.89
16879281--16879343	13	4.8	13	76	0	63	33	6	22	38	1.79
16880995--16881057	3	21.3	3	73	15	51	65	0	34	0	0.93
16881010--16881057	21	2.3	21	86	10	64	60	0	39	0	0.97
16880995--16881062	12	5.5	12	77	8	57	64	0	35	0	0.94
16882791--16882869	26	3.2	26	77	12	85	20	26	18	34	1.96
16885199--16885250	21	2.5	21	84	6	70	9	13	40	36	1.77
16885910--16885971	8	7.6	8	78	10	72	37	0	1	61	1.06
16885888--16885964	33	2.4	32	82	8	95	36	0	3	59	1.16
16887247--16888002	378	2.0	378	100	0	1512	35	14	16	34	1.88
16888696--16888793	27	3.7	26	77	8	99	52	12	7	28	1.65
16888741--16888871	69	1.9	69	90	4	212	50	19	7	22	1.72
16888847--16888895	24	2.0	25	96	4	91	57	30	0	12	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16888787--16888962	91	1.9	92	91	3	293	50	23	6	19	1.72
16890674--16890761	40	2.2	40	84	9	110	37	18	7	36	1.80
16891482--16891507	11	2.4	11	100	0	52	0	42	7	50	1.31
16893922--16894058	6	23.0	6	92	1	195	61	16	3	18	1.49
16894150--16894190	21	2.0	21	100	0	82	29	29	14	26	1.95
16895803--16895842	21	1.9	21	84	0	53	65	15	10	10	1.48
16899968--16900525	217	2.6	218	89	0	850	28	22	19	29	1.98
16899909--16900524	44	14.2	44	72	11	299	28	23	19	28	1.98
16913256--16913314	17	3.6	17	81	4	59	6	18	35	38	1.78
16920072--16920124	16	3.3	16	78	0	52	58	7	1	32	1.37
16920068--16920175	32	3.4	32	75	13	98	62	4	2	30	1.30
16921346--16921408	33	1.9	32	87	3	90	11	9	33	46	1.72
16921632--16921694	33	1.9	32	87	3	90	11	9	33	46	1.72
16921283--16921856	286	2.0	287	99	0	1141	18	16	26	38	1.92
16925267--16925301	7	4.9	7	86	6	52	14	0	0	85	0.59
16932587--16932621	14	2.6	14	95	4	63	40	0	5	54	1.24
16936122--16936216	9	10.4	9	84	6	120	23	10	26	40	1.87
16936376--16936400	12	2.1	12	100	0	50	16	24	36	24	1.94
16958105--16958163	20	3.0	20	92	4	95	44	0	0	55	0.99
16958944--16959200	136	1.9	136	89	0	397	27	19	21	30	1.98
16962471--16962561	35	2.6	35	85	5	112	25	23	16	35	1.95
16963200--16963263	28	2.4	28	82	12	89	40	17	6	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16963356--16963390	19	1.9	19	88	11	56	31	17	0	51	1.45
16977878--16977947	34	2.1	34	100	0	140	14	27	11	47	1.78
16981515--16981553	5	7.8	5	88	0	60	0	56	0	43	0.99
16982346--16982607	135	1.9	136	99	0	517	27	21	9	41	1.84
16985153--16985189	2	18.5	2	100	0	74	51	0	0	48	1.00
16985233--16985623	199	2.0	199	94	2	687	36	19	18	25	1.94
16986802--16986826	12	2.1	12	100	0	50	36	8	0	56	1.29
16987048--16987092	13	3.6	12	87	6	63	0	24	0	75	0.80
16987045--16987092	19	2.5	21	83	16	68	0	25	0	75	0.81
16987052--16987083	15	2.1	16	94	5	57	0	25	0	75	0.81
16987048--16987118	25	2.8	25	83	10	74	2	21	4	71	1.15
16988683--16988949	130	2.0	131	98	0	518	43	8	5	41	1.59
16989838--16989882	17	2.5	18	82	7	56	26	6	2	64	1.30
17006253--17006351	41	2.4	41	88	1	137	24	25	13	37	1.91
17006673--17006697	13	1.9	13	100	0	50	32	4	24	40	1.73
17012589--17012675	43	2.0	43	100	0	174	41	11	9	37	1.73
17016912--17016994	25	3.3	25	91	0	112	33	16	26	22	1.96
17017851--17017907	27	2.2	25	81	12	62	0	28	3	68	1.06
17020971--17021028	19	2.9	19	75	14	64	37	12	10	39	1.77
17023956--17023997	21	2.0	21	95	0	75	26	9	21	42	1.83
17028053--17028078	2	13.0	2	100	0	52	50	0	0	50	1.00
17029906--17029931	13	2.0	13	100	0	52	46	0	7	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17038194--17038233	18	2.4	17	84	15	57	20	0	2	77	0.88
17038838--17038880	16	2.9	15	83	16	54	44	9	0	46	1.35
17039105--17039164	31	2.0	29	87	6	84	43	11	13	31	1.80
17042568--17042664	51	1.9	51	95	0	176	30	13	21	34	1.92
17046265--17046311	9	5.2	9	97	0	76	21	10	25	42	1.85
17049253--17049332	24	3.0	26	75	18	76	47	0	3	48	1.19
17049469--17049526	29	2.0	29	89	0	89	29	5	10	55	1.55
17049680--17049941	128	2.0	130	98	1	510	38	9	4	47	1.56
17050503--17050556	15	3.3	15	76	18	63	42	0	1	55	1.10
17050490--17050562	34	2.2	33	81	9	96	43	2	1	52	1.24
17050595--17050626	13	2.3	15	89	10	50	37	0	0	62	0.95
17055579--17055620	18	2.4	17	84	11	50	78	2	4	14	1.01
17055579--17055620	17	2.4	18	84	11	52	78	2	4	14	1.01
17058075--17058119	19	2.4	18	82	10	54	2	24	0	73	0.95
17063509--17063548	19	2.0	20	86	13	57	50	15	0	35	1.44
17068424--17068465	22	1.9	22	85	0	57	26	14	11	47	1.78
17070150--17070232	3	27.7	3	85	0	112	60	4	0	34	1.18
17086509--17086542	16	2.1	17	94	5	61	11	5	20	61	1.50
17089357--17089462	25	4.3	25	70	11	85	33	18	24	23	1.97
17095545--17095573	15	1.9	15	100	0	58	34	20	24	20	1.97
17096728--17096772	17	2.6	18	82	7	56	28	2	0	68	1.01
17110622--17110655	17	2.1	17	88	5	52	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17113984--17114049	25	2.7	24	76	6	69	53	0	0	46	1.00
17113985--17114047	23	2.8	22	78	19	67	52	0	0	47	1.00
17116103--17116150	25	1.9	25	91	0	78	37	18	8	35	1.81
17120215--17120247	16	2.1	16	88	5	50	75	3	3	18	1.06
17131196--17131275	28	2.9	28	92	0	142	31	26	21	21	1.98
17131591--17131732	27	5.3	27	89	0	203	16	15	26	41	1.88
17137062--17137098	18	2.1	18	100	0	74	21	10	27	40	1.86
17139038--17139097	26	2.3	26	85	0	84	36	23	21	18	1.95
17139132--17139189	26	2.2	26	90	0	89	15	24	24	36	1.94
17139182--17139229	23	2.1	23	88	7	71	22	29	16	31	1.96
17144502--17144526	12	2.1	12	100	0	50	32	20	40	8	1.81
17152928--17152994	33	2.0	33	100	0	134	31	5	26	35	1.81
17158731--17158759	12	2.3	13	94	5	51	13	10	6	68	1.37
17168572--17168715	72	2.0	72	93	0	243	26	11	13	48	1.76
17179652--17179705	4	13.5	4	88	0	72	68	1	5	24	1.21
17200910--17200953	12	3.7	12	81	0	61	63	27	2	6	1.31
17201012--17201055	4	11.0	4	85	0	52	68	2	6	22	1.25
17210016--17210053	16	2.4	16	87	12	53	63	15	2	18	1.43
17211462--17211532	37	1.9	37	100	0	142	30	2	11	54	1.50
17214894--17214924	16	1.9	16	93	0	53	64	0	0	35	0.94
17222236--17222354	58	2.0	59	91	1	195	40	10	18	30	1.85
17222347--17222388	22	1.9	22	85	9	59	16	7	4	71	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17222892--17222931	21	1.9	21	89	0	62	25	12	20	42	1.86
17224106--17224158	24	2.2	24	83	9	65	5	33	1	58	1.32
17224721--17224778	30	1.9	31	92	3	100	18	0	18	62	1.34
17228099--17228123	3	8.3	3	100	0	50	36	32	0	32	1.58
17238366--17238405	16	2.4	17	87	4	55	27	2	2	67	1.16
17241745--17241783	11	3.4	11	83	13	51	56	5	0	38	1.22
17243554--17243682	22	5.7	22	66	18	77	44	4	3	47	1.42
17243497--17243682	91	2.0	92	98	1	365	44	4	5	46	1.46
17251378--17251458	3	27.0	3	92	0	126	64	2	2	30	1.20
17255570--17255608	20	2.1	18	85	9	51	53	2	12	30	1.52

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