genome.fa.s6.2.7.7.80.10.50.1000.108.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  108  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)
34927858--34927951	16	5.8	16	69	14	50	54	14	3	27	1.56
34937778--34937831	27	2.0	26	82	3	63	46	9	1	42	1.46
34943038--34943090	28	1.9	27	96	3	97	66	1	0	32	1.03
34945924--34945979	29	1.9	29	82	7	69	39	7	12	41	1.70
34976197--34976240	20	2.2	19	84	12	52	47	0	2	50	1.13
34984470--34984525	29	1.9	29	88	0	85	37	10	10	41	1.75
34988960--34989002	23	1.9	22	90	4	68	58	0	6	34	1.25
34989565--34989620	22	2.5	22	82	0	67	53	1	3	41	1.29
34991964--34992079	53	2.3	47	80	18	153	40	6	5	47	1.53
34991982--34992099	53	2.2	53	100	0	236	42	5	6	44	1.55
34993267--34993345	40	2.0	40	85	5	106	48	12	10	29	1.74
35000978--35001009	1	32.0	1	100	0	64	100	0	0	0	0.00
35005441--35005474	2	17.5	2	93	6	61	52	0	0	47	1.00
35009307--35009705	198	2.0	199	99	0	791	36	6	6	51	1.53
35009852--35009903	24	2.2	24	100	0	104	36	25	11	26	1.90
35012446--35012709	85	3.1	85	64	21	224	36	10	4	48	1.59
35012445--35012791	172	2.0	173	99	0	687	39	9	4	46	1.56
35019892--35020019	45	2.8	45	86	0	175	21	17	18	41	1.90
35021258--35021290	17	2.1	17	88	11	52	60	9	0	30	1.27
35022440--35022783	85	4.1	84	84	4	410	32	10	21	35	1.88
35022376--35022783	169	2.4	170	84	7	481	33	9	20	36	1.86
35031311--35031355	22	2.1	22	88	12	67	26	2	13	57	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35031708--35031758	26	2.0	26	84	7	68	31	5	1	60	1.31
35032481--35032531	23	2.2	23	92	0	84	41	21	9	27	1.84
35041108--35041135	11	2.5	11	100	0	56	28	32	10	28	1.90
35047569--35047602	17	2.1	16	88	5	50	38	5	0	55	1.24
35049731--35049910	93	1.9	95	88	2	274	31	21	15	31	1.94
35051618--35051651	3	11.3	3	100	0	68	32	0	0	67	0.91
35054484--35054535	23	2.3	22	86	6	68	26	7	0	65	1.20
35056517--35056820	126	2.3	131	82	6	386	25	10	15	49	1.76
35057281--35057352	29	2.4	29	81	2	81	40	18	8	33	1.80
35058548--35058620	29	2.4	30	80	11	78	34	12	16	36	1.86
35068018--35068047	14	2.1	14	93	0	51	23	0	0	76	0.78
35070511--35070551	15	2.7	15	88	11	66	68	0	0	31	0.90
35071679--35071736	29	1.9	30	89	6	91	53	12	0	34	1.38
35071643--35071836	95	2.0	95	87	0	280	43	10	8	37	1.70
35074142--35074180	17	2.2	19	86	9	55	38	0	0	61	0.96
35074497--35074827	165	2.0	166	99	0	655	37	12	7	42	1.72
35077130--35077174	22	2.0	24	82	8	58	44	4	2	48	1.35
35078222--35078369	73	2.0	73	100	0	296	16	12	18	53	1.73
35079080--35079129	25	2.0	24	84	3	64	48	8	0	44	1.32
35079239--35079288	20	2.5	21	83	9	68	32	0	4	64	1.12
35083578--35083628	3	17.0	3	95	0	93	31	33	1	33	1.69
35088069--35088191	61	2.0	63	84	6	162	43	2	14	39	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35091008--35091044	19	1.9	19	100	0	74	32	10	8	48	1.67
35091243--35091271	14	2.0	15	93	6	51	75	0	0	24	0.80
35093478--35093516	21	1.9	20	94	5	69	25	12	5	56	1.57
35094108--35094150	18	2.5	17	76	3	50	32	0	4	62	1.15
35094976--35095139	86	1.9	86	91	0	265	40	22	10	26	1.87
35095382--35095412	2	15.5	2	93	0	53	48	3	0	48	1.17
35108773--35108824	24	2.2	24	89	0	77	36	1	5	55	1.35
35111164--35111202	16	2.4	16	82	0	51	23	12	43	20	1.86
35119675--35119775	16	6.3	16	70	6	53	20	5	21	51	1.69
35124510--35124559	23	2.2	23	82	7	57	34	0	0	66	0.92
35127200--35127570	130	2.9	128	83	4	451	43	13	14	28	1.82
35134650--35134720	18	3.8	18	79	5	70	59	0	0	40	0.98
35139203--35139236	3	11.3	3	100	0	68	35	32	32	0	1.58
35153169--35153214	19	2.3	19	85	7	56	21	2	4	71	1.14
35153566--35154122	199	2.8	197	83	5	674	38	9	23	28	1.86
35154442--35154466	12	2.1	12	100	0	50	84	16	0	0	0.63
35158298--35158343	9	5.2	9	84	5	58	21	8	28	41	1.83
35158298--35158342	17	2.6	17	78	3	54	22	8	28	40	1.84
35167106--35167731	306	2.0	310	90	2	985	28	7	21	42	1.81
35172502--35172528	14	1.9	14	100	0	54	44	7	3	44	1.49
35174452--35174484	17	1.9	17	93	0	57	63	3	0	33	1.10
35178725--35178839	48	2.4	48	94	0	194	10	11	51	26	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35178725--35178853	48	2.7	48	88	0	141	10	11	52	25	1.68
35180655--35180701	24	2.0	24	84	8	62	40	0	6	53	1.27
35185210--35185237	14	2.0	14	100	0	56	71	7	0	21	1.09
35186528--35186569	18	2.4	18	84	11	52	61	2	2	33	1.21
35188889--35188942	5	10.8	5	93	0	81	24	0	33	42	1.55
35191522--35191546	10	2.5	10	100	0	50	32	8	0	60	1.26
35193249--35193661	185	2.2	191	89	4	642	28	14	20	36	1.91
35193746--35195006	210	5.6	213	79	11	1207	29	10	21	38	1.88
35194105--35195005	237	3.9	239	83	7	1063	29	10	22	38	1.87
35194092--35195005	459	1.9	468	83	6	1179	29	10	22	38	1.87
35194570--35195012	221	2.0	218	84	6	583	29	9	22	38	1.86
35198423--35198451	7	4.1	7	100	0	58	44	13	13	27	1.82
35206975--35207008	2	17.0	2	100	0	68	50	0	0	50	1.00
35210136--35210167	16	2.0	16	93	0	55	59	25	6	9	1.52
35210673--35210991	158	2.0	159	99	0	631	41	6	10	42	1.64
35211006--35211077	31	2.3	32	83	9	87	58	0	5	36	1.22
35213101--35213134	14	2.4	14	90	9	52	47	5	2	44	1.42
35216811--35216857	22	2.1	23	88	4	69	65	14	2	17	1.36
35216830--35216863	18	1.9	17	88	5	50	61	17	2	17	1.46
35217513--35217541	14	2.0	15	93	6	51	20	6	3	68	1.27
35224768--35225512	149	5.0	149	93	1	1210	28	20	17	33	1.95
35227786--35227836	26	1.9	27	84	4	68	45	7	1	45	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35229789--35229827	16	2.4	17	79	12	55	74	0	0	25	0.82
35239875--35239910	3	11.7	3	94	5	63	33	0	0	66	0.92
35242462--35242513	24	2.2	24	89	0	77	55	9	1	32	1.43
35243891--35243919	2	14.5	2	100	0	58	48	0	0	51	1.00
35257140--35257233	40	2.3	41	78	12	106	31	2	8	57	1.41
35266229--35266311	27	2.9	29	77	15	84	63	2	3	30	1.24
35266742--35266783	20	2.1	20	82	8	50	14	2	9	73	1.18
35285947--35285990	9	4.9	9	81	10	54	20	34	11	34	1.88
35285943--35285988	15	3.0	16	81	12	60	21	32	13	32	1.92
35285942--35285990	18	2.7	18	84	9	64	20	34	12	32	1.90
35288946--35288980	18	1.9	18	88	11	54	68	5	20	5	1.31
35291685--35291751	30	2.2	30	78	5	73	43	14	7	34	1.74
35293272--35293639	132	2.8	132	82	3	409	29	25	20	23	1.99
35295722--35295790	33	2.1	33	91	5	113	37	8	11	42	1.72
35303133--35303527	197	2.0	198	99	0	783	35	11	7	46	1.67
35305765--35305808	17	2.4	18	81	11	54	65	0	2	31	1.05
35316694--35316795	48	2.1	48	83	0	123	12	58	9	18	1.61
35316826--35316867	9	4.7	9	80	8	50	21	66	0	11	1.23
35316880--35316962	12	6.7	12	69	13	60	21	61	1	15	1.41
35316818--35316950	39	3.3	38	75	13	108	21	60	1	16	1.44
35318750--35318792	19	2.1	21	87	8	63	44	2	0	53	1.13
35325229--35325273	23	1.9	23	81	4	54	55	2	0	42	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35337914--35338124	107	2.0	107	94	0	368	32	18	18	31	1.94
35367269--35367332	31	2.1	31	87	0	92	31	15	25	28	1.96
35367521--35367618	31	3.1	32	80	7	92	27	9	13	50	1.72
35371970--35372009	21	1.9	21	94	0	71	25	2	12	60	1.45
35372750--35372787	19	2.0	19	85	10	51	50	10	0	39	1.37
35413920--35413958	20	2.0	20	84	0	51	28	15	15	41	1.87
35423353--35423409	29	2.0	29	89	0	87	31	29	12	26	1.92
35425583--35425718	70	1.9	70	91	2	220	41	11	11	36	1.77
35432085--35432116	13	2.3	15	89	10	50	71	6	15	6	1.26
35437137--35437256	43	2.8	43	78	2	134	20	20	28	30	1.98

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