genome.fa.s6.2.7.7.80.10.50.1000.105.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  105  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)
33580272--33580318	21	2.2	22	84	3	60	68	0	2	29	1.02
33580272--33580319	23	2.2	22	77	7	53	68	0	2	29	1.01
33585583--33585609	13	2.1	13	100	0	54	77	7	0	14	0.97
33589017--33589058	22	2.0	20	86	9	57	47	0	7	45	1.30
33592677--33592705	2	14.5	2	100	0	58	51	0	0	48	1.00
33594310--33594343	16	2.1	16	88	0	50	35	2	35	26	1.72
33599723--33599758	18	2.0	18	100	0	72	38	11	16	33	1.84
33604692--33604735	2	22.0	2	100	0	88	50	0	50	0	1.00
33612298--33612356	30	2.0	29	86	3	82	59	5	0	35	1.20
33612340--33612390	25	2.1	24	92	3	84	64	0	0	35	0.94
33612582--33612634	20	2.7	20	85	8	72	28	0	5	66	1.15
33612581--33612627	19	2.3	22	82	14	64	23	0	6	70	1.10
33620961--33621039	31	2.5	32	76	13	76	50	3	5	40	1.42
33621325--33621387	31	2.0	31	90	6	101	47	3	7	41	1.48
33625309--33625374	30	2.2	31	83	8	82	43	10	7	37	1.68
33625783--33625896	58	2.0	58	92	0	192	33	14	17	34	1.91
33632570--33632611	21	2.0	20	82	13	50	40	7	0	52	1.29
33636345--33636374	15	2.1	15	93	6	53	43	6	0	50	1.28
33650897--33651495	298	2.0	297	98	1	1164	36	8	10	44	1.68
33659995--33660021	9	3.0	9	100	0	54	44	0	0	55	0.99
33662776--33662843	31	2.2	32	78	7	77	41	0	5	52	1.25
33669833--33669974	72	2.0	72	97	2	268	50	25	5	19	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33671392--33671444	26	2.0	27	81	7	63	37	1	1	58	1.20
33682179--33682221	20	2.1	21	87	12	63	41	2	0	55	1.12
33690763--33690802	21	2.0	19	85	9	53	57	7	2	32	1.40
33694023--33694056	4	8.5	4	93	0	50	44	26	5	23	1.76
33695957--33695984	12	2.3	12	100	0	56	42	28	17	10	1.83
33697307--33697367	1	61.0	1	93	0	59	88	11	0	0	0.51
33701158--33701189	12	2.4	14	90	10	50	71	0	3	25	1.00
33701854--33702126	136	2.0	136	100	0	546	38	10	10	40	1.75
33705323--33705398	26	2.8	26	84	11	100	51	43	0	5	1.24
33705325--33705410	6	14.5	6	73	21	58	51	44	0	4	1.22
33705323--33705401	29	2.9	26	87	9	106	51	43	0	5	1.23
33705355--33705416	11	5.5	11	75	19	56	50	43	0	6	1.28
33706815--33706885	26	2.7	26	79	12	74	28	7	2	61	1.36
33706943--33707027	26	3.3	26	78	6	84	28	8	4	58	1.47
33710345--33710388	22	2.0	22	100	0	88	18	36	18	27	1.94
33724099--33724389	144	2.0	144	98	0	564	36	27	10	26	1.89
33726139--33726211	29	2.5	30	82	6	87	41	15	15	28	1.87
33732927--33732970	17	2.6	17	82	10	56	54	20	4	20	1.62
33745568--33745608	18	2.2	18	87	12	57	24	2	7	65	1.30
33749556--33749581	5	5.2	5	100	0	52	61	0	38	0	0.96
33754139--33754236	49	2.0	50	88	8	146	40	5	1	53	1.30
33754152--33754257	49	2.2	48	81	8	124	40	7	1	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33759200--33759239	21	1.9	21	84	0	53	27	22	5	45	1.73
33760515--33760567	20	2.7	20	80	14	56	37	0	0	62	0.96
33761483--33761526	2	22.0	2	100	0	88	50	0	0	50	1.00
33767265--33767316	3	17.3	3	100	0	104	67	0	0	32	0.91
33769262--33769336	33	2.3	33	81	4	89	38	17	16	28	1.91
33772031--33772130	46	2.2	46	96	0	182	33	15	21	31	1.93
33775473--33775634	81	2.0	81	100	0	324	30	14	23	30	1.95
33776513--33776711	110	1.8	107	90	3	317	33	21	16	29	1.94
33776948--33776994	19	2.5	19	82	10	60	53	0	6	40	1.27
33777258--33777311	21	2.5	21	84	6	63	51	5	0	42	1.25
33788586--33788630	23	1.9	24	82	13	58	35	8	28	26	1.87
33790514--33790538	4	6.2	4	100	0	50	0	0	24	76	0.80
33794858--33794893	18	2.0	18	89	10	56	33	0	5	61	1.19
33796993--33797125	27	5.3	25	78	18	143	53	12	0	33	1.44
33796992--33797259	19	12.2	22	68	22	138	55	12	0	31	1.41
33796992--33797125	49	2.7	49	89	0	214	53	12	0	32	1.44
33797027--33797237	39	5.0	42	70	19	127	54	13	0	31	1.43
33797316--33797803	27	18.1	27	100	0	976	22	37	25	14	1.93
33804715--33804757	20	2.2	20	100	0	86	23	9	16	51	1.73
33807026--33807058	17	2.0	17	94	5	59	48	0	9	42	1.35
33807025--33807061	16	2.3	15	86	13	56	43	0	8	48	1.32
33814841--33814869	15	1.9	15	100	0	58	24	6	0	68	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33826197--33826237	9	4.6	9	87	0	64	2	43	0	53	1.13
33826257--33826288	3	10.7	3	93	0	55	3	34	28	34	1.73
33826252--33826291	9	4.4	9	90	0	53	10	35	22	32	1.87
33826252--33826300	12	4.1	12	86	0	62	10	34	20	34	1.86
33826392--33826431	21	1.9	21	90	10	64	15	35	10	40	1.80
33826381--33826439	21	2.6	24	71	20	63	15	40	6	37	1.74
33830029--33830267	100	2.4	101	89	1	372	28	24	15	31	1.95
33836566--33836647	35	2.4	35	85	6	105	59	1	0	39	1.05
33855058--33855912	28	30.5	28	100	0	1710	46	10	10	31	1.73
33858368--33858665	75	4.0	75	83	5	324	37	11	23	26	1.89
33863015--33863064	19	2.7	19	76	20	61	38	8	0	54	1.30
33863699--33863763	29	2.2	29	86	0	85	52	0	1	46	1.10
33867059--33867110	25	2.0	25	85	3	68	48	5	0	46	1.26
33872288--33872326	14	2.8	14	84	0	51	33	7	15	43	1.75
33878313--33878338	12	2.2	12	100	0	52	15	7	26	50	1.71
33879459--33879496	15	2.5	15	95	0	67	13	47	28	10	1.76
33880397--33880838	207	2.1	208	97	1	832	38	8	8	44	1.65
33883918--33883959	3	14.0	3	94	0	75	64	0	0	35	0.94
33885708--33885760	14	3.7	14	76	2	52	66	5	0	28	1.15
33903784--33903829	18	2.5	18	80	20	51	26	2	4	67	1.21
33922504--33922556	17	3.1	17	83	2	61	58	0	1	39	1.09
33922573--33922618	23	2.0	24	83	12	60	56	4	6	32	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33927658--33927710	17	3.1	17	83	2	61	58	0	1	39	1.09
33927727--33927772	23	2.0	24	83	12	60	56	4	6	32	1.45
33946200--33946332	38	3.3	38	79	13	158	3	25	11	59	1.48
33946216--33946324	45	2.5	46	85	7	154	2	26	9	61	1.40
33948514--33948712	54	3.5	53	68	20	139	43	2	4	49	1.34
33948646--33948680	18	2.0	17	88	5	52	45	0	0	54	0.99
33949163--33949197	15	2.2	16	90	5	54	48	0	0	51	1.00
33949372--33949404	16	2.1	16	94	0	57	21	33	6	39	1.78
33951564--33951635	31	2.4	30	75	13	76	38	13	12	34	1.83
33955343--33956373	5	206.2	5	100	0	2062	40	19	19	19	1.92
33957813--33957841	2	14.5	2	100	0	58	48	0	0	51	1.00
33961709--33961745	16	2.2	17	90	4	58	56	2	0	40	1.13
33962285--33962518	118	2.0	118	85	5	321	39	12	11	35	1.81
33971896--33972005	42	2.6	43	85	1	141	30	24	19	26	1.98
33975439--33975477	18	2.2	18	90	0	60	41	10	12	35	1.77
33978850--33978874	7	3.6	7	100	0	50	88	0	0	12	0.53
33983563--33984360	399	2.0	399	100	0	1596	30	9	11	48	1.72
33995556--33995618	30	2.1	30	90	0	99	26	1	12	58	1.43
33996511--33996580	29	2.5	28	79	11	79	64	0	1	34	1.03
34002083--34002144	30	2.1	30	90	0	97	27	1	11	59	1.41
34002930--34002999	29	2.5	28	79	11	79	64	0	1	34	1.03
34025555--34025704	78	1.9	79	88	1	230	41	6	14	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34032941--34032971	6	5.2	6	100	0	62	67	32	0	0	0.91
34033869--34034113	133	1.8	133	86	1	357	24	20	22	33	1.97
34039548--34039786	78	3.1	78	93	0	406	39	23	20	16	1.92
34039572--34039789	42	5.5	42	60	14	111	40	24	18	16	1.90
34045011--34045047	19	1.9	19	89	10	58	45	0	13	40	1.43
34045012--34045053	19	2.3	18	80	15	50	50	0	14	35	1.43
34048423--34048482	26	2.3	26	88	0	93	18	21	21	38	1.94
34053660--34053717	25	2.2	25	84	9	71	44	3	0	51	1.18
34059318--34059362	4	11.2	4	100	0	90	51	24	0	24	1.49
34067690--34067726	14	2.6	15	83	12	51	0	27	10	62	1.28

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