genome.fa.s6.2.7.7.80.10.50.1000.62.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  62  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)
20168662--20168802	50	2.8	50	78	6	160	22	24	24	28	2.00
20168658--20169002	100	3.5	99	81	3	395	23	21	23	31	1.98
20168990--20169192	49	4.1	50	73	7	182	22	24	23	29	1.99
20168871--20169157	99	2.9	98	78	3	247	23	22	22	31	1.99
20169002--20169194	98	2.0	99	85	3	264	22	22	24	30	1.99
20169214--20169324	45	2.5	45	77	12	120	18	25	23	32	1.97
20169332--20169558	44	5.2	45	65	17	127	25	25	22	25	2.00
20169289--20169628	88	3.9	88	89	2	479	23	25	23	27	2.00
20169305--20169628	175	1.9	175	90	2	517	24	25	22	28	2.00
20171767--20171868	43	2.4	42	79	12	109	27	24	15	32	1.96
20173067--20173109	6	7.0	6	85	15	61	0	18	0	81	0.69
20173068--20173118	25	2.1	24	92	3	84	1	15	0	82	0.76
20173127--20173198	1	72.0	1	77	0	54	11	0	2	86	0.68
20173129--20173198	9	7.9	9	84	9	99	11	0	2	85	0.69
20173131--20173198	17	3.9	17	86	7	100	11	0	2	85	0.71
20173129--20173198	27	2.6	28	91	6	110	11	0	2	85	0.69
20193387--20193411	7	3.6	7	100	0	50	12	12	0	76	1.04
20194747--20194872	64	2.0	64	100	0	252	9	23	5	61	1.47
20199643--20199667	13	1.9	13	100	0	50	64	4	32	0	1.12
20206189--20206558	36	10.1	36	77	8	329	38	15	20	25	1.92
20206193--20206542	109	3.2	106	77	8	317	38	14	21	25	1.91
20206200--20206540	184	1.9	184	89	2	533	38	14	21	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20206424--20206562	74	1.9	74	83	7	185	38	14	20	27	1.91
20209373--20209416	23	1.9	23	81	9	54	43	4	4	47	1.44
20210148--20210837	140	5.0	140	82	7	745	31	20	19	28	1.97
20210148--20210837	280	2.5	265	85	5	862	31	20	19	28	1.97
20210563--20210821	126	2.1	126	92	0	428	32	19	19	28	1.97
20214908--20214947	20	2.0	21	90	5	64	67	5	0	27	1.11
20217999--20218179	88	2.1	89	97	2	348	42	11	8	37	1.72
20223823--20224010	63	3.0	63	80	1	207	23	20	25	30	1.98
20224537--20224603	23	3.0	22	75	24	68	71	4	22	1	1.12
20224531--20224598	21	3.2	20	80	16	66	72	4	20	2	1.16
20228863--20228887	2	12.5	2	100	0	50	52	0	0	48	1.00
20234084--20234216	25	5.3	24	77	12	101	24	22	20	32	1.98
20249843--20249895	21	2.5	21	81	0	61	24	24	30	20	1.99
20253866--20253910	18	2.4	18	81	3	54	37	4	2	55	1.32
20261508--20261532	12	2.1	12	100	0	50	60	0	8	32	1.26
20261666--20261697	9	3.7	9	91	8	57	87	0	0	12	0.54
20261763--20261797	3	11.3	3	87	6	52	65	0	2	31	1.07
20263033--20263079	10	4.7	10	75	19	53	65	2	2	29	1.15
20263022--20263079	20	2.8	20	82	7	64	63	3	3	29	1.27
20263069--20263112	20	2.3	20	84	7	56	70	2	2	25	1.10
20263169--20263194	11	2.4	11	100	0	52	69	0	7	23	1.14
20263260--20263304	22	2.1	22	83	4	56	48	2	4	44	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20266347--20266394	20	2.4	21	86	6	64	43	6	4	45	1.48
20269067--20269097	15	2.1	14	94	5	53	41	3	0	54	1.16
20274111--20274152	7	6.0	7	81	18	52	69	0	16	14	1.20
20274111--20274152	21	2.0	21	86	9	59	69	0	16	14	1.20
20275573--20276279	132	5.4	132	95	1	1195	27	19	24	29	1.98
20276295--20276588	100	2.9	100	87	1	401	31	23	21	24	1.98
20276307--20276464	50	3.2	50	70	3	165	29	19	24	26	1.98
20276847--20276960	44	2.6	44	80	5	124	31	20	20	28	1.97
20279964--20279992	11	2.5	12	88	11	51	10	13	0	75	1.04
20280822--20280854	15	2.2	15	100	0	66	27	0	6	66	1.15
20282604--20282643	20	2.0	19	85	9	53	35	10	12	42	1.76
20285167--20285191	3	8.3	3	100	0	50	64	0	0	36	0.94
20286176--20286232	28	2.0	29	83	10	73	40	1	1	56	1.20
20293529--20293622	45	2.1	45	100	0	188	32	14	4	47	1.64
20294112--20294159	21	2.3	21	96	0	87	14	12	0	72	1.11
20306291--20306486	54	3.6	52	80	8	153	38	13	19	28	1.90
20306348--20306631	54	5.3	54	78	7	240	38	12	20	28	1.89
20306402--20306671	104	2.5	108	83	4	334	38	12	21	27	1.90
20306499--20306666	54	3.1	55	73	9	164	39	14	19	26	1.90
20308095--20308128	16	2.1	16	94	0	59	11	35	0	52	1.38
20308720--20308757	18	2.1	18	95	0	67	21	5	18	55	1.62
20310227--20310293	34	1.9	35	87	3	100	46	8	8	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20311348--20311382	18	1.9	18	88	0	52	25	34	22	17	1.96
20311450--20311501	23	2.3	23	100	0	104	40	3	15	40	1.65
20312906--20312958	18	2.9	18	75	25	58	30	0	1	67	1.01
20314329--20314449	3	39.7	3	72	17	72	30	6	1	61	1.31
20314496--20314559	28	2.2	28	86	8	85	40	9	0	50	1.35
20320747--20320938	44	4.5	43	69	9	149	31	20	20	26	1.98
20320741--20321025	128	2.2	128	99	0	561	32	21	20	24	1.98
20320741--20321206	128	3.6	128	89	3	510	31	22	21	23	1.98
20320998--20321291	44	6.7	44	99	0	570	28	25	22	23	1.99
20322879--20322973	3	30.7	3	83	8	111	29	5	1	64	1.22
20323061--20323221	17	9.6	17	67	12	75	40	9	0	49	1.40
20323004--20323250	117	2.1	119	93	1	426	41	10	0	46	1.44
20323142--20323197	27	2.1	26	87	12	78	39	7	1	51	1.40
20323178--20323221	16	2.6	17	82	7	54	38	6	0	54	1.27
20323199--20323273	35	2.2	34	85	4	98	41	10	2	45	1.53
20325713--20325746	17	2.0	17	88	0	50	44	2	0	52	1.16
20329983--20330008	2	13.0	2	100	0	52	50	0	0	50	1.00
20331427--20331473	24	2.0	24	83	8	60	68	2	2	27	1.13
20331497--20331606	54	2.0	55	98	1	213	35	20	5	39	1.75
20339058--20339099	17	2.4	18	84	8	59	16	16	11	54	1.70
20349916--20349987	24	3.0	25	74	10	69	36	18	25	20	1.95
20365796--20365835	20	2.0	20	100	0	80	35	10	20	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20369661--20369712	13	3.9	13	78	9	52	50	9	0	40	1.35
20380281--20380358	13	6.5	12	76	16	74	48	10	0	41	1.37
20380278--20380322	23	2.0	23	100	0	90	46	8	0	44	1.34
20380280--20380358	36	2.2	36	93	0	140	48	11	0	40	1.39
20380318--20380367	23	2.2	23	92	0	82	52	12	2	34	1.50
20382475--20382531	15	3.5	15	71	17	51	49	1	1	47	1.22
20386333--20386384	22	2.4	22	77	6	52	38	7	3	50	1.50
20388056--20388080	13	1.9	13	100	0	50	32	4	24	40	1.73
20390008--20390103	41	2.3	41	82	3	113	28	18	26	27	1.98
20409085--20409112	11	2.5	11	100	0	56	28	0	0	71	0.86
20415726--20415799	13	5.7	13	86	0	103	39	31	8	21	1.83
20422473--20422510	20	1.9	20	88	0	58	84	0	10	5	0.77
20423115--20423161	17	2.7	17	80	9	51	61	10	0	27	1.29
20423405--20423429	3	8.3	3	100	0	50	68	0	32	0	0.90
20430708--20430781	25	3.0	25	77	0	85	31	20	28	20	1.97
20431096--20431138	17	2.5	17	84	0	59	41	32	13	11	1.81
20435516--20435592	25	3.2	23	68	20	57	40	15	23	20	1.91
20435701--20435758	26	2.3	26	84	3	73	39	17	22	20	1.92
20436248--20436287	21	1.9	21	89	0	62	40	25	0	35	1.56
20437422--20438303	37	23.8	37	99	0	1719	40	13	19	27	1.88
20441509--20441570	28	2.2	28	91	2	99	37	9	38	14	1.79
20443668--20443733	27	2.4	27	84	0	78	21	27	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20445856--20445923	21	3.2	21	79	10	68	64	20	5	8	1.43
20445868--20445923	21	2.7	21	91	0	85	64	23	3	8	1.38
20446503--20446536	16	2.1	16	94	0	59	61	0	0	38	0.96
20446503--20446542	16	2.7	14	88	7	53	57	0	0	42	0.98
20451032--20451120	45	2.0	45	84	8	119	64	4	4	26	1.32
20451095--20451155	20	3.2	19	73	15	54	67	4	4	22	1.30
20451395--20451466	34	2.1	34	82	12	85	29	1	6	62	1.30
20470012--20470058	23	2.0	23	95	0	85	40	0	14	44	1.46
20470016--20470094	13	6.5	13	70	16	71	40	1	12	45	1.50
20470016--20470094	36	2.2	36	93	4	133	40	1	12	45	1.50

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