genome.fa.s6.2.7.7.80.10.50.1000.36.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  36  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)
11641121--11641170	26	2.0	26	84	7	68	38	16	6	40	1.73
11643811--11643852	19	2.2	20	82	4	50	30	7	11	50	1.66
11645650--11647232	791	2.0	792	98	0	3035	27	14	28	28	1.96
11657885--11657929	22	2.0	23	91	4	74	13	20	6	60	1.55
11658764--11658931	92	1.8	91	82	3	212	39	16	10	33	1.82
11659048--11659120	35	2.1	34	82	7	85	35	4	4	56	1.38
11659128--11659181	17	3.1	17	81	2	63	42	0	0	57	0.98
11659159--11659191	10	3.3	10	95	0	57	36	0	0	63	0.95
11662657--11662839	98	1.9	92	83	8	233	31	25	16	27	1.96
11667365--11667448	37	2.3	37	93	0	141	15	33	9	41	1.79
11669182--11669226	23	2.0	23	100	0	90	26	22	8	42	1.83
11669626--11669813	98	1.9	99	86	1	270	33	8	13	44	1.74
11669725--11669899	72	2.4	71	86	1	233	32	9	13	44	1.77
11669772--11669976	72	2.9	72	80	2	198	32	6	14	46	1.71
11670589--11670632	19	2.3	18	81	11	52	29	0	4	65	1.12
11670590--11670627	19	2.0	20	89	5	60	26	0	5	68	1.11
11671077--11671116	16	2.5	16	87	0	62	42	5	30	22	1.75
11671093--11671190	44	2.2	47	83	9	132	33	4	25	36	1.75
11671396--11671435	20	2.0	21	85	5	55	60	5	0	35	1.19
11671393--11671580	64	3.1	60	69	21	169	54	3	0	40	1.22
11671535--11671575	13	3.2	12	80	12	55	58	0	0	41	0.98
11671370--11671612	118	2.1	116	88	8	357	51	4	1	42	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11680380--11680502	43	2.9	43	82	1	140	25	17	25	31	1.97
11715269--11715311	18	2.4	18	88	7	61	30	16	6	46	1.73
11717960--11718013	27	2.0	28	92	3	92	38	1	3	55	1.28
11719238--11719290	13	3.9	14	78	14	56	58	0	13	28	1.35
11719341--11719461	9	13.6	9	77	6	104	47	15	0	36	1.46
11719339--11719462	27	4.6	27	77	8	128	48	15	0	36	1.45
11725336--11725428	43	2.2	42	88	1	132	30	23	19	26	1.98
11726003--11726060	28	2.1	27	90	3	89	29	24	22	24	1.99
11726008--11726068	28	2.2	28	87	0	86	29	22	21	26	1.99
11726171--11726235	26	2.5	26	82	0	76	40	21	18	20	1.92
11728196--11728309	43	2.8	40	74	7	111	24	14	28	31	1.95
11728224--11728315	43	2.1	43	83	0	112	21	13	31	33	1.92
11729219--11729329	54	2.1	54	94	0	195	27	10	27	34	1.90
11751895--11752148	126	2.0	126	96	2	474	34	9	25	30	1.88
11771087--11771145	27	2.2	28	82	8	79	42	18	23	15	1.88
11771300--11771417	26	4.5	26	89	4	150	25	14	20	39	1.90
11777850--11777897	24	2.0	24	100	0	96	62	12	4	20	1.46
11778529--11778882	26	13.5	26	83	1	402	24	16	20	38	1.93
11786899--11786935	17	2.2	17	90	9	58	51	8	5	35	1.55
11789354--11789455	27	3.8	26	85	3	123	47	18	17	16	1.84
11789712--11789990	27	10.3	27	84	2	308	42	20	18	18	1.89
11789712--11789990	108	2.6	108	84	0	351	42	20	18	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11790423--11790767	54	6.4	54	82	2	390	41	19	18	20	1.90
11790409--11790768	81	4.5	80	80	6	395	41	19	18	20	1.90
11790409--11790769	27	13.4	27	77	11	289	41	19	18	20	1.90
11793742--11794100	27	13.3	27	80	0	308	42	20	16	20	1.89
11796354--11796427	38	1.9	38	97	0	139	29	16	16	37	1.90
11799753--11799819	29	2.3	29	81	0	71	20	26	23	28	1.99
11805663--11805705	22	2.0	22	90	0	68	34	25	23	16	1.95
11817565--11817664	20	5.1	20	66	13	73	30	18	36	16	1.92
11817564--11817664	19	5.2	19	66	21	66	30	17	35	15	1.92
11817527--11817667	39	3.6	38	79	12	144	34	18	31	15	1.92
11817780--11817841	19	3.2	19	71	13	63	35	20	32	11	1.88
11817774--11817928	39	4.0	38	84	5	186	32	20	33	13	1.91
11817774--11817926	77	2.0	77	89	2	236	33	20	32	13	1.92
11817828--11817928	19	5.2	19	65	7	60	30	17	36	14	1.91
11819115--11819381	27	10.0	27	85	1	349	41	22	19	16	1.90
11819796--11820062	27	10.0	26	83	5	205	43	20	17	17	1.89
11819795--11820060	54	4.9	55	81	7	253	43	20	18	18	1.88
11819795--11820062	107	2.5	108	80	7	305	43	20	17	17	1.88
11820230--11820432	19	10.3	19	87	8	289	35	9	15	39	1.79
11820231--11820435	40	5.1	40	98	0	392	35	9	15	40	1.79
11820523--11820567	23	2.0	23	86	0	63	24	0	13	62	1.31
11820800--11820824	6	4.2	6	100	0	50	16	0	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11824824--11825133	27	11.5	27	83	1	334	43	21	16	18	1.88
11824826--11825133	81	3.8	80	81	3	375	42	22	16	18	1.89
11827349--11827422	38	1.9	38	91	0	121	31	13	17	37	1.89
11836940--11836982	22	2.0	22	85	0	59	32	25	25	16	1.96
11850451--11850623	39	4.5	38	83	4	186	34	19	31	15	1.93
11850517--11850616	19	5.2	19	73	11	87	33	19	33	15	1.92
11850451--11850623	77	2.2	77	84	1	211	34	19	31	15	1.93
11850796--11850893	19	5.1	20	67	6	76	30	18	33	17	1.94
11850718--11850893	77	2.3	77	84	4	212	34	18	30	15	1.93
11850718--11850893	39	4.5	39	80	4	178	34	18	30	15	1.93
11850423--11850954	267	2.0	267	93	0	902	40	16	22	21	1.91
11854663--11854822	71	2.3	71	84	2	196	20	15	24	40	1.91
11854759--11854804	22	2.1	22	88	4	67	17	13	30	39	1.87
11856705--11856796	22	4.2	22	88	0	112	30	27	0	42	1.56
11856746--11856848	52	2.0	51	83	9	129	33	32	0	34	1.58
11856798--11856839	22	1.9	22	90	0	66	33	33	0	33	1.58
11856881--11856936	28	2.0	29	92	3	96	37	0	1	60	1.07
11856881--11856944	28	2.2	29	88	2	94	37	0	1	60	1.06
11859349--11859428	39	2.1	39	100	0	160	28	20	17	33	1.95
11860944--11860977	14	2.2	16	90	10	54	11	5	2	79	1.02
11862006--11862066	30	2.0	30	84	6	79	29	21	18	31	1.96
11864565--11864613	19	2.6	19	100	0	98	59	0	18	22	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11866714--11866739	5	5.2	5	100	0	52	0	0	23	76	0.78
11868124--11868154	5	6.0	5	96	3	53	58	0	22	19	1.40
11871540--11871578	20	2.0	20	89	0	60	69	2	2	25	1.14
11871558--11871612	17	3.3	17	80	14	69	70	3	0	25	1.03
11873425--11873578	50	3.1	50	85	0	209	37	20	14	27	1.92
11873440--11873577	25	5.5	25	72	16	115	37	20	15	26	1.92
11874674--11874720	10	4.6	10	82	12	51	34	0	4	61	1.15
11883091--11883149	25	2.4	23	81	13	64	35	1	3	59	1.24
11884044--11884114	3	23.7	3	97	0	124	69	0	30	0	0.89
11884336--11884406	3	23.7	3	97	0	124	69	0	30	0	0.89
11883995--11884582	292	2.0	293	99	0	1169	43	17	22	17	1.88
11904254--11904302	18	2.7	18	90	0	80	61	2	0	36	1.08
11907250--11907438	27	7.0	27	80	1	173	41	21	17	19	1.91
11915526--11915564	19	2.1	19	100	0	78	56	10	15	17	1.66
11915734--11915800	27	2.4	27	87	2	98	28	19	25	26	1.99
11919698--11919808	56	2.0	56	85	3	152	43	15	15	26	1.86
11919698--11919808	28	4.0	28	81	0	132	43	15	15	26	1.86
11925302--11925418	51	2.3	51	100	0	234	29	13	16	40	1.87
11925439--11925475	9	4.1	9	92	0	65	45	13	10	29	1.77
11941741--11941780	18	2.2	19	90	4	64	75	0	15	10	1.05
11942345--11942384	16	2.4	17	87	4	64	70	2	0	27	1.01
11942332--11942365	9	3.7	9	84	7	50	70	0	2	26	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11943054--11943091	16	2.4	16	95	0	67	36	2	31	28	1.71
11943070--11943160	45	2.0	44	85	2	119	31	6	27	34	1.83
11950999--11951380	190	2.0	189	95	0	683	35	20	10	32	1.87
11954958--11955083	63	2.0	64	88	1	191	23	23	23	29	1.99
11955709--11955755	20	2.6	18	83	16	62	78	2	10	8	1.04
11957587--11957629	17	2.5	17	88	0	59	30	23	2	44	1.66
11964385--11964540	64	2.5	64	82	1	179	21	29	23	26	1.99
11975342--11975408	35	1.9	35	84	6	91	32	26	17	22	1.96
11978155--11978385	115	2.0	117	83	3	295	36	10	22	29	1.89
11984145--11984287	40	3.6	40	86	0	187	33	18	28	19	1.95

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