genome.fa.s6.2.7.7.80.10.50.1000.28.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  28  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)
9242482--9242619	68	2.0	70	84	9	185	42	2	4	50	1.37
9242585--9242627	21	2.1	20	87	12	61	48	0	6	44	1.29
9244772--9244804	15	2.1	16	88	5	50	51	0	27	21	1.48
9244762--9244818	20	2.8	20	86	0	78	49	0	26	24	1.51
9251517--9251555	18	2.1	19	85	4	53	56	7	2	33	1.41
9255606--9255710	53	2.0	53	96	0	192	29	10	34	25	1.89
9257826--9257894	28	2.5	28	78	4	77	49	18	4	27	1.67
9259923--9260197	120	2.3	122	93	3	466	34	20	16	28	1.94
9260200--9260304	52	2.0	52	96	0	192	37	30	9	22	1.86
9260468--9260527	29	2.1	28	84	6	77	46	15	10	28	1.77
9265238--9265320	40	2.1	40	100	0	166	37	4	34	22	1.76
9265306--9265373	20	3.3	20	67	25	61	48	2	27	20	1.64
9265306--9265388	41	2.0	41	100	0	166	48	2	24	25	1.63
9266437--9266482	23	2.0	23	100	0	92	43	0	8	47	1.34
9268752--9268785	17	1.9	17	88	5	50	44	0	0	55	0.99
9270474--9270905	210	2.0	211	98	1	839	47	12	12	28	1.76
9271493--9271518	6	4.3	6	100	0	52	53	15	30	0	1.42
9271549--9271737	94	2.0	94	98	0	369	32	18	26	22	1.97
9272824--9272893	29	2.3	30	76	13	81	42	1	4	51	1.30
9277817--9278470	325	2.0	326	99	0	1301	37	11	13	38	1.80
9278647--9278678	9	3.6	9	100	0	64	56	0	0	43	0.99
9278645--9278688	18	2.5	17	82	10	61	56	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9294045--9294094	21	2.4	21	96	0	91	0	30	4	66	1.10
9296817--9296848	14	2.2	15	94	5	57	50	15	3	31	1.60
9297867--9297919	25	2.1	25	89	0	79	54	26	7	11	1.62
9303604--9303637	9	3.8	9	92	0	59	23	8	29	38	1.85
9306335--9306395	23	2.5	24	77	15	63	45	1	1	50	1.21
9313697--9313730	9	3.8	9	92	0	59	23	8	29	38	1.85
9316428--9316488	23	2.5	24	77	15	63	45	1	1	50	1.21
9318918--9318963	20	2.3	20	80	0	56	45	15	21	17	1.85
9319314--9319407	47	2.0	47	93	0	161	42	14	8	34	1.77
9320726--9320775	26	1.9	26	83	0	64	18	24	22	36	1.95
9323577--9323623	23	2.0	24	91	4	78	34	14	4	46	1.64
9331202--9331232	12	2.6	12	94	0	53	9	25	38	25	1.86
9341846--9342139	146	2.0	147	98	0	572	35	3	7	53	1.46
9341848--9342223	146	2.6	145	87	6	442	36	3	7	52	1.48
9355900--9355945	15	3.0	15	81	15	58	69	0	2	28	1.00
9358912--9358942	16	1.9	16	93	0	53	48	0	3	48	1.17
9368778--9369159	194	2.0	194	92	1	631	33	19	14	32	1.92
9372807--9372895	27	3.3	27	87	0	124	42	23	13	20	1.87
9372858--9372927	27	2.6	27	82	8	72	41	17	14	27	1.87
9372807--9372922	54	2.1	54	81	6	128	43	22	12	21	1.87
9373248--9373311	33	1.9	33	84	6	85	23	23	25	28	2.00
9378726--9378777	20	2.6	20	100	0	104	21	0	0	78	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9378739--9378777	12	3.6	12	74	25	50	20	0	0	79	0.73
9378718--9378768	15	3.6	14	82	10	59	19	0	0	80	0.71
9378726--9378774	14	3.6	14	73	15	50	20	0	0	79	0.73
9382623--9382662	20	2.0	20	85	9	55	35	0	2	62	1.09
9382986--9383026	16	2.6	16	78	21	50	63	0	4	31	1.15
9400404--9400637	97	2.4	97	83	6	271	28	24	17	29	1.97
9400471--9400637	51	3.4	49	75	12	164	28	26	17	26	1.98
9400637--9401226	89	6.6	89	87	0	766	22	24	24	28	1.99
9400789--9401106	44	7.2	44	67	7	176	20	24	27	27	1.99
9400909--9401357	45	10.0	45	75	9	317	25	24	21	28	1.99
9401312--9401480	88	1.9	88	87	2	250	27	26	17	28	1.97
9402762--9402853	47	2.0	46	95	2	166	13	23	20	42	1.87
9403773--9403814	18	2.3	18	87	0	57	16	2	4	76	1.07
9405899--9405951	24	2.2	24	89	0	88	11	15	16	56	1.67
9408151--9408196	3	15.3	3	90	0	65	60	2	0	36	1.09
9411461--9411548	3	29.3	3	97	0	158	64	0	32	2	1.06
9414445--9414491	6	7.8	6	92	0	67	82	0	12	4	0.80
9415235--9415337	53	2.0	52	88	1	152	59	4	4	31	1.40
9419634--9419680	24	2.0	24	95	0	85	25	23	17	34	1.96
9436912--9436941	12	2.5	12	88	0	51	16	16	30	36	1.91
9436944--9436973	12	2.5	12	94	0	51	13	13	26	46	1.80
9439549--9439668	44	2.8	43	79	8	120	30	29	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9441939--9442002	27	2.2	30	86	8	89	70	7	4	17	1.29
9451731--9451931	45	4.5	45	92	1	296	20	20	14	44	1.86
9457344--9457401	16	3.8	16	84	15	86	65	0	6	27	1.18
9457338--9457406	29	2.3	29	95	2	120	68	0	5	26	1.12
9457324--9457385	13	4.5	13	83	16	72	66	0	6	27	1.16
9465348--9465422	23	3.3	23	92	0	123	34	26	21	17	1.95
9479774--9479882	56	2.0	55	92	5	184	38	8	12	40	1.74
9482052--9482158	56	1.9	55	90	1	169	39	9	10	41	1.71
9484737--9484768	16	2.0	16	100	0	64	37	12	18	31	1.88
9487700--9487730	15	2.1	15	93	0	53	32	9	0	58	1.31
9488022--9488079	22	2.8	19	73	19	53	34	12	1	51	1.49
9500111--9500694	44	13.3	45	74	6	473	27	16	26	30	1.97
9500111--9500694	219	2.7	221	92	1	971	27	16	26	30	1.97
9500111--9500723	87	7.0	89	77	6	410	27	16	26	29	1.97
9502103--9502133	15	2.1	15	93	0	53	32	9	0	58	1.31
9502434--9502491	22	2.8	19	73	19	53	34	12	1	51	1.49
9502645--9502973	107	3.1	107	93	0	527	31	17	17	33	1.94
9513397--9513454	20	2.8	21	74	10	66	60	0	1	37	1.07
9513382--9513435	18	3.1	18	82	10	60	64	0	0	35	0.94
9514019--9514063	20	2.2	21	80	11	58	60	2	2	35	1.22
9516153--9516276	55	2.2	59	80	9	134	48	7	16	28	1.72
9520084--9520131	17	2.8	17	93	0	78	47	2	6	43	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9524287--9524358	30	2.4	29	81	6	83	50	1	8	40	1.41
9525897--9525925	15	1.9	15	100	0	58	55	6	0	37	1.27
9526529--9526559	15	2.1	15	93	0	53	67	9	0	22	1.19
9536543--9536869	44	7.7	43	76	11	311	28	25	17	28	1.97
9536549--9536869	88	3.8	85	80	10	354	28	25	17	28	1.97
9536624--9536858	77	2.9	80	84	10	280	28	26	14	31	1.95
9536581--9536815	121	1.9	121	84	6	316	28	26	14	30	1.95
9536549--9536855	165	1.9	165	86	4	440	28	25	16	29	1.97
9536883--9537358	88	5.4	88	88	0	675	20	23	28	27	1.99
9536946--9537089	44	3.3	44	63	7	103	20	23	30	25	1.99
9536883--9537358	264	1.8	264	90	0	765	20	23	28	27	1.99
9537489--9537521	17	2.0	17	94	5	59	18	0	0	81	0.68
9545317--9545395	22	3.7	21	74	16	63	41	16	3	37	1.66
9545317--9545374	22	2.6	22	81	7	64	43	17	1	37	1.59
9545353--9545408	21	2.8	19	82	10	76	37	16	8	37	1.80
9545364--9545407	21	2.1	21	100	0	88	38	13	9	38	1.77
9549786--9549853	23	3.0	23	70	20	70	35	7	13	44	1.71
9551375--9551729	114	3.1	113	85	3	471	27	21	16	34	1.95
9552464--9552521	22	2.6	22	83	5	64	24	1	3	70	1.12
9552622--9552674	18	3.1	17	73	10	54	54	0	0	45	0.99
9552631--9552688	28	2.1	28	81	12	66	55	0	1	43	1.10
9552623--9552694	36	2.0	35	89	10	110	55	0	1	43	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9552623--9552675	17	3.0	17	74	15	54	52	0	0	47	1.00
9552635--9552701	18	3.7	18	71	15	59	59	0	1	38	1.06
9556255--9556317	25	2.6	25	89	2	92	23	22	39	14	1.91
9557023--9557062	19	2.2	18	86	4	53	20	2	20	57	1.52
9559868--9560061	51	3.8	51	80	2	246	30	27	15	25	1.96
9559876--9560063	102	1.8	102	94	0	331	30	27	15	25	1.96
9562892--9562957	32	2.0	33	82	11	82	28	24	34	12	1.91
9563973--9564781	46	17.6	46	89	0	1186	31	25	15	27	1.96
9563973--9564920	138	6.8	138	88	1	1266	31	25	15	28	1.95
9564766--9564797	16	2.0	16	93	0	55	12	34	18	34	1.89

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