genome.fa.s6.2.7.7.80.10.50.1000.61.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  61  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)
19930060--19930123	32	2.0	31	85	8	85	35	1	6	56	1.34
19933694--19933829	25	5.5	24	74	12	80	34	23	25	16	1.95
19933949--19934018	25	2.8	26	84	4	81	34	18	30	17	1.94
19934180--19934232	21	2.5	23	76	17	60	50	11	0	37	1.38
19935958--19935996	15	2.7	14	88	7	53	28	0	10	61	1.28
19938211--19938248	20	1.9	20	94	0	67	31	5	36	26	1.79
19944402--19944482	29	2.8	29	90	1	126	27	0	24	48	1.52
19947599--19947656	22	2.6	22	91	0	89	39	0	24	36	1.55
19947602--19947670	22	3.1	22	85	4	86	40	0	26	33	1.56
19949076--19949139	31	2.1	31	82	5	76	43	14	12	29	1.81
19957601--19957661	31	2.0	31	90	6	97	32	29	21	16	1.95
19958035--19958076	22	2.0	22	95	4	77	16	0	7	76	1.00
19966469--19966577	56	1.9	56	94	0	191	18	16	22	42	1.89
19966586--19966642	22	2.6	22	86	2	71	17	19	26	36	1.94
19966606--19966650	22	2.1	21	88	8	65	20	20	24	35	1.96
19967134--19967159	12	2.2	12	100	0	52	76	7	7	7	1.15
19969143--19969290	57	2.5	60	79	13	169	30	19	25	24	1.98
19971367--19971417	26	2.0	26	84	0	66	21	21	17	39	1.93
19988748--19988954	27	8.0	27	73	16	143	20	16	18	43	1.88
19988848--19988941	47	2.0	47	83	4	118	19	19	18	43	1.88
19988895--19988961	27	2.5	27	85	0	89	22	16	19	41	1.90
19995625--19995653	13	2.3	13	94	5	51	24	0	17	58	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19997775--19998024	42	6.0	41	86	6	283	31	20	22	26	1.98
20015595--20015746	81	1.9	82	80	12	179	20	16	22	40	1.91
20015489--20015868	195	1.9	195	90	2	602	26	18	19	35	1.95
20015677--20016047	114	3.3	112	79	8	437	25	21	19	34	1.96
20015677--20016102	113	3.8	111	77	9	425	26	20	18	34	1.96
20017654--20017690	19	2.0	19	89	5	58	48	18	5	27	1.70
20017655--20017696	19	2.2	19	83	8	50	52	14	4	28	1.62
20022457--20022516	29	2.1	29	93	0	102	31	20	16	31	1.95
20026387--20026504	34	3.5	34	83	3	132	22	14	30	33	1.93
20037810--20037843	17	1.9	18	88	5	52	29	2	2	64	1.22
20040271--20040324	21	2.6	19	77	11	54	37	3	7	51	1.48
20040251--20040529	151	1.9	141	89	7	432	32	9	7	50	1.62
20042687--20042716	15	2.0	15	100	0	60	40	6	20	33	1.78
20042943--20042971	2	14.5	2	100	0	58	48	0	0	51	1.00
20048785--20048939	27	5.7	27	76	8	147	37	21	18	21	1.94
20048793--20048926	54	2.5	54	82	9	175	38	22	20	19	1.94
20049090--20049196	26	4.1	26	85	0	133	20	21	21	36	1.95
20051214--20051253	20	2.0	20	90	5	62	35	2	0	62	1.09
20053061--20053100	18	2.2	18	86	4	53	35	20	17	27	1.95
20053880--20053927	24	2.0	24	91	0	78	33	4	10	52	1.55
20055621--20055668	24	2.0	24	91	0	78	33	4	10	52	1.55
20057530--20057662	70	1.9	69	89	1	203	33	17	20	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20061254--20061278	9	2.8	9	100	0	50	32	0	0	68	0.90
20062675--20062821	64	2.3	64	82	4	181	32	22	24	20	1.98
20064118--20064159	17	2.6	16	85	7	59	42	0	0	57	0.99
20066803--20066841	16	2.6	16	92	8	64	69	2	0	28	1.02
20073908--20073945	20	1.9	20	94	0	67	23	2	18	55	1.55
20074031--20074083	20	2.7	20	90	0	79	18	13	13	54	1.70
20075144--20075219	11	6.8	11	72	21	52	53	3	2	39	1.33
20077324--20077456	33	3.7	34	76	17	135	30	27	21	21	1.98
20077325--20077537	75	2.8	75	90	2	311	31	26	18	23	1.97
20077325--20077544	76	2.9	76	89	3	311	31	25	18	24	1.97
20085837--20085862	5	5.2	5	100	0	52	61	0	0	38	0.96
20088811--20088860	24	2.1	24	92	0	82	12	14	14	60	1.60
20090211--20090248	20	1.9	20	100	0	76	36	0	0	63	0.95
20090206--20090255	20	2.6	18	85	14	73	38	0	0	62	0.96
20092923--20093381	105	4.4	105	81	3	467	32	14	23	29	1.94
20095083--20095126	22	2.0	22	100	0	88	40	0	36	22	1.54
20098258--20098581	108	3.0	108	87	4	436	33	19	16	30	1.94
20098706--20098830	4	30.8	4	72	18	89	68	4	4	21	1.27
20098708--20098797	25	3.9	23	72	16	80	68	4	4	22	1.25
20098708--20098855	33	4.4	33	81	14	153	68	4	6	20	1.30
20099059--20099093	3	11.7	3	87	0	52	60	0	5	34	1.21
20099062--20099093	12	2.7	12	100	0	64	59	0	6	34	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20104700--20104768	35	2.0	35	94	0	120	43	15	14	26	1.85
20111443--20111575	60	2.2	60	90	0	203	14	22	30	33	1.93
20112104--20112133	16	1.9	16	93	6	53	40	16	0	43	1.48
20113189--20113345	71	2.2	70	82	6	192	42	15	10	31	1.81
20113328--20113407	35	2.3	35	80	0	88	41	16	7	35	1.76
20113811--20114120	41	7.6	41	94	2	516	33	25	18	22	1.97
20118269--20118559	18	16.5	17	72	15	164	46	10	15	27	1.79
20118297--20118559	36	7.4	36	74	16	187	45	11	15	27	1.80
20118313--20118553	89	2.7	90	76	13	239	45	10	16	26	1.80
20118324--20118478	53	2.9	54	79	10	158	43	10	16	29	1.81
20118277--20118560	17	15.9	18	72	12	212	45	10	15	27	1.80
20118287--20118599	107	2.9	105	79	14	277	44	11	16	28	1.82
20118428--20118561	71	1.9	72	90	1	216	44	9	15	29	1.79
20118567--20118638	19	4.1	18	68	13	51	44	8	16	30	1.77
20118572--20118639	35	1.9	35	84	0	91	45	5	16	32	1.71
20118744--20118782	20	2.0	20	100	0	78	41	10	10	38	1.73
20119103--20119141	18	2.2	18	95	4	71	0	12	0	87	0.55
20119412--20119468	13	4.8	12	78	19	57	0	22	0	77	0.77
20119403--20119462	16	3.9	15	75	14	59	1	20	0	78	0.84
20119541--20119597	12	4.4	13	78	14	64	0	31	0	68	0.90
20119545--20119603	4	14.2	4	77	19	50	0	28	0	71	0.87
20119548--20119604	21	2.8	21	89	2	89	0	28	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20119987--20120086	29	3.4	29	72	12	80	45	4	17	34	1.67
20123165--20123278	51	2.2	51	90	0	174	21	20	29	28	1.98
20130105--20130138	17	2.1	17	88	5	52	58	2	0	38	1.13
20134354--20134392	6	6.5	6	100	0	78	84	0	15	0	0.62
20135205--20135287	43	1.9	43	85	4	114	18	19	30	32	1.95
20135215--20135328	43	2.7	43	81	8	124	21	21	28	28	1.99
20138088--20138131	18	2.5	18	92	3	72	75	4	4	15	1.14
20138276--20138320	24	1.9	23	86	4	63	57	2	8	31	1.41
20138392--20138418	14	1.9	14	100	0	54	66	3	0	29	1.09
20139081--20139122	6	6.8	6	94	5	75	85	0	0	14	0.59
20140118--20140289	46	3.7	46	90	0	236	32	26	13	27	1.94
20140272--20140573	129	2.3	128	86	5	428	30	20	17	31	1.96
20140496--20141005	44	11.7	44	71	9	278	26	21	21	30	1.98
20140496--20141007	218	2.3	218	95	0	909	26	21	21	30	1.99
20141481--20141765	87	3.3	89	70	15	227	26	20	21	32	1.97
20141480--20141945	218	2.1	219	89	3	708	27	19	20	32	1.97
20141698--20142311	175	3.5	175	93	1	1009	28	20	19	31	1.97
20141480--20142313	44	19.0	44	68	13	278	28	20	19	32	1.97
20142562--20142722	81	2.0	81	95	0	286	26	25	18	29	1.98
20143644--20143690	7	7.0	7	85	9	71	14	17	0	68	1.22
20143647--20143689	13	3.3	13	87	6	61	13	16	0	69	1.19
20143644--20143690	20	2.3	20	96	0	85	14	17	0	68	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20146492--20146529	20	1.9	19	89	5	58	42	13	21	23	1.88
20148804--20148847	18	2.5	18	88	3	63	72	6	4	15	1.22
20149000--20149026	14	1.9	14	100	0	54	66	3	0	29	1.09
20149674--20149703	6	4.8	6	92	8	51	86	0	0	13	0.57
20149674--20149703	13	2.4	12	94	5	51	86	0	0	13	0.57
20152132--20152590	94	4.9	95	84	4	538	28	19	19	32	1.96
20152384--20152545	44	3.6	44	71	18	125	29	17	20	32	1.96
20156676--20156762	26	3.2	26	66	15	77	47	8	3	41	1.50
20156670--20156762	32	3.2	32	65	25	96	48	7	3	40	1.48
20156661--20156771	55	2.0	56	98	1	215	46	7	3	42	1.48

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