genome.fa.s8.2.7.7.80.10.50.1000.49.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  49  of  135  ( 16172 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)
19854595--19854666	24	3.0	24	89	0	108	19	25	9	45	1.80
19863682--19863719	19	2.0	19	85	10	51	52	0	0	47	1.00
19863682--19863774	29	3.0	30	75	7	89	45	0	3	51	1.17
19870175--19870361	25	7.8	25	80	9	180	22	21	17	37	1.94
19870289--19870351	22	2.9	20	81	11	56	17	26	19	36	1.94
19877411--19877444	17	1.9	18	88	5	52	35	26	0	38	1.57
19879178--19879259	16	5.2	16	69	14	55	1	24	3	70	1.10
19879357--19879419	8	7.8	8	79	10	74	61	1	0	36	1.05
19879900--19879928	15	1.9	15	100	0	58	41	20	0	37	1.53
19895106--19895162	28	2.0	28	100	0	114	33	17	3	45	1.65
19912867--19912930	26	2.5	26	76	16	71	45	4	1	48	1.32
19912937--19912990	20	2.7	19	77	2	54	31	3	0	64	1.11
19912992--19913028	15	2.5	15	90	0	56	29	5	2	62	1.31
19921080--19921106	14	1.9	14	100	0	54	29	22	11	37	1.89
19937452--19937496	22	2.0	22	86	0	63	51	13	13	22	1.75
19945430--19945458	3	9.7	3	100	0	58	68	0	0	31	0.89
19954018--19954069	23	2.2	24	83	10	63	48	1	3	46	1.31
19954066--19954113	21	2.2	23	85	7	64	54	0	4	41	1.20
19963051--19963108	9	6.4	9	85	0	71	41	24	6	27	1.80
19963051--19963108	27	2.1	27	87	0	80	41	24	6	27	1.80
19963210--19963244	13	2.7	13	90	0	61	11	0	45	42	1.40
19963203--19963271	31	2.3	29	80	9	84	14	1	42	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19965537--19965619	25	3.3	25	80	9	89	30	18	28	22	1.97
19965578--19965639	25	2.5	25	83	0	79	27	19	29	24	1.98
19965578--19965697	50	2.4	50	80	2	125	34	18	25	22	1.96
19967915--19967978	20	3.2	20	78	14	78	64	1	4	29	1.23
19967895--19968046	39	3.9	39	73	13	125	63	1	5	29	1.27
19967867--19967987	30	4.0	30	72	6	84	61	0	4	33	1.23
19967894--19968050	11	16.2	10	66	21	68	62	1	5	30	1.28
19968230--19968301	19	3.7	19	75	10	74	30	5	1	62	1.26
19968229--19968330	29	3.5	29	75	12	102	32	5	0	60	1.27
19974463--19974510	25	1.9	25	91	0	78	58	0	2	39	1.10
19975122--19975187	10	6.4	10	70	13	53	36	3	0	60	1.12
19975121--19975166	23	2.0	23	86	0	65	36	2	0	60	1.09
19975130--19975181	22	2.5	20	82	14	54	38	3	0	57	1.17
19985890--19985951	22	2.8	22	78	7	63	64	4	6	24	1.37
19992305--19992346	16	2.6	17	82	17	54	50	0	0	50	1.00
20016466--20016501	2	18.0	2	100	0	72	50	0	0	50	1.00
20020498--20020524	12	2.2	12	100	0	54	40	0	0	59	0.98
20020840--20020891	20	2.6	19	81	9	50	73	5	15	5	1.22
20021933--20022047	39	3.0	39	87	1	151	19	21	23	35	1.96
20030821--20030852	16	1.9	17	93	6	57	62	3	3	31	1.26
20030869--20030919	21	2.5	20	84	12	59	50	7	5	35	1.55
20030975--20031011	18	2.1	18	94	0	65	62	2	0	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20030969--20031008	18	2.3	17	86	4	53	52	2	0	45	1.14
20033229--20033372	70	2.0	71	93	2	245	22	15	18	44	1.86
20033787--20033831	17	2.6	17	82	13	56	35	2	0	62	1.08
20035365--20035503	46	3.0	46	87	4	199	30	23	8	37	1.85
20036718--20036765	17	2.9	17	90	3	71	54	18	0	27	1.44
20036922--20036967	24	1.9	24	86	0	65	34	13	30	21	1.91
20037069--20037129	20	2.7	23	73	19	56	52	1	0	45	1.10
20043328--20043370	11	3.9	11	78	0	50	2	16	2	79	0.95
20047292--20047418	50	2.5	51	83	8	161	26	29	16	27	1.97
20049015--20049121	53	2.0	53	98	0	205	48	23	3	24	1.67
20050331--20050410	39	2.2	36	86	8	108	42	11	2	43	1.53
20059324--20059372	23	2.1	23	100	0	98	57	0	20	22	1.41
20073719--20073773	28	2.0	28	96	0	101	36	5	10	47	1.62
20079818--20079850	2	16.5	2	100	0	66	48	0	0	51	1.00
20080009--20080050	21	2.0	21	81	9	50	11	9	11	66	1.44
20082211--20082296	39	2.2	39	97	0	163	34	4	24	36	1.76
20086642--20086690	22	2.2	22	86	13	66	65	0	4	30	1.11
20086873--20086913	21	2.0	21	85	0	55	43	0	4	51	1.23
20087562--20087601	20	2.0	20	90	0	62	55	7	0	37	1.29
20087615--20087658	22	2.0	23	86	4	63	63	2	2	31	1.19
20090840--20091228	159	2.5	159	94	1	667	26	8	8	56	1.58
20091858--20091899	2	21.0	2	95	0	75	52	47	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20094157--20094375	113	1.9	114	98	0	422	33	16	19	30	1.94
20097384--20097444	22	2.8	21	75	9	59	60	1	1	36	1.16
20102327--20102376	21	2.4	21	86	0	64	36	32	6	26	1.81
20102765--20102812	25	2.0	24	87	4	69	52	2	2	43	1.24
20105477--20105502	12	2.2	12	100	0	52	42	7	7	42	1.62
20106139--20106198	20	3.0	20	75	20	70	53	18	0	28	1.45
20106832--20106876	24	1.9	23	82	13	56	48	24	6	20	1.73
20110044--20110074	5	6.4	5	96	3	55	0	38	0	61	0.96
20113797--20113868	16	4.3	17	68	21	53	76	5	18	0	0.97
20114124--20114180	25	2.2	26	81	6	71	66	0	5	28	1.13
20114619--20114659	19	2.1	20	86	4	57	56	2	9	31	1.45
20127596--20127665	33	2.3	29	80	17	95	45	5	8	40	1.58
20127605--20127670	33	2.0	33	100	0	132	48	3	9	39	1.50
20127663--20127737	31	2.5	31	86	2	107	32	10	12	45	1.75
20129825--20129854	3	10.0	3	100	0	60	33	0	0	66	0.92
20140883--20141016	66	2.0	66	100	0	268	38	20	14	26	1.92
20148127--20148182	22	2.5	23	82	2	69	51	1	1	44	1.22
20148158--20148197	16	2.5	16	91	0	62	47	2	7	42	1.45
20148270--20148297	9	3.1	9	100	0	56	32	0	10	57	1.33
20148186--20148827	68	9.5	68	99	0	1261	39	4	8	47	1.54
20148338--20148365	9	3.1	9	100	0	56	32	0	10	57	1.33
20148406--20148433	9	3.1	9	100	0	56	32	0	10	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20148474--20148501	9	3.1	9	100	0	56	32	0	10	57	1.33
20148542--20148569	9	3.1	9	100	0	56	32	0	10	57	1.33
20148610--20148637	9	3.1	9	100	0	56	32	0	10	57	1.33
20148678--20148705	9	3.1	9	100	0	56	32	0	10	57	1.33
20148746--20148773	9	3.1	9	100	0	56	32	0	10	57	1.33
20151227--20151260	16	2.1	16	94	0	59	79	0	0	20	0.73
20151831--20151902	34	2.1	34	89	5	110	16	5	9	68	1.37
20154499--20154531	14	2.3	15	89	5	50	39	0	6	54	1.25
20173429--20173459	10	3.1	10	100	0	62	51	0	9	38	1.35
20175257--20175289	8	3.7	9	88	12	50	45	9	0	45	1.35
20182243--20182274	16	2.0	16	100	0	64	25	31	18	25	1.98
20188424--20188485	23	2.6	23	79	5	61	66	3	1	29	1.17
20188426--20188475	19	2.5	20	83	12	66	70	4	2	24	1.15
20188495--20188535	21	2.0	21	85	0	55	56	4	7	31	1.48
20188544--20188603	27	2.2	28	82	11	81	75	3	1	20	1.04
20188544--20188602	24	2.3	24	86	13	75	76	3	1	18	1.02
20189103--20189178	19	4.0	19	89	0	125	38	13	9	39	1.76
20190426--20190453	3	9.3	3	100	0	56	0	35	0	64	0.94
20192669--20192737	31	2.3	30	76	18	81	37	2	11	47	1.55
20195968--20196106	46	3.0	45	89	4	208	36	10	25	28	1.88
20200208--20200264	23	2.4	25	83	13	77	50	7	0	42	1.29
20200208--20200272	23	2.9	24	82	13	59	52	7	1	38	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20211672--20211809	50	2.7	50	83	3	179	22	16	28	32	1.96
20211669--20211854	51	3.7	48	78	7	183	22	15	28	33	1.95
20213761--20213909	45	3.4	45	85	5	196	21	17	26	34	1.95
20216353--20216485	41	3.2	41	92	0	212	29	24	21	24	1.99
20218060--20218111	28	1.9	26	92	7	86	46	7	0	46	1.31
20219969--20220020	25	2.3	23	81	18	72	38	5	15	40	1.71
20219976--20220027	25	2.1	25	92	0	86	42	3	13	40	1.62
20239098--20239149	24	2.2	24	85	0	68	38	3	7	50	1.50
20277409--20277465	30	1.9	30	92	0	96	33	21	10	35	1.87
20281882--20281923	21	2.1	19	86	8	57	54	4	0	40	1.21

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135