genome.fa.s9.2.7.7.80.10.50.1000.87.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:  38630433

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   

This is table  87  of  97  ( 11551 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)
34172792--34172824	2	17.0	2	93	6	59	51	0	0	48	1.00
34172745--34172910	85	2.0	85	97	2	316	37	9	7	43	1.66
34172877--34172911	2	17.5	2	93	0	61	51	0	0	48	1.00
34174845--34174880	16	2.2	16	90	0	54	47	2	0	50	1.15
34175375--34175401	2	13.5	2	100	0	54	48	0	51	0	1.00
34175295--34175512	111	2.0	110	100	0	427	40	3	29	25	1.73
34175486--34175514	2	14.5	2	100	0	58	48	0	51	0	1.00
34176767--34176829	2	32.0	2	93	3	110	49	0	1	49	1.10
34177718--34177748	2	15.5	2	93	0	53	51	3	0	45	1.17
34185532--34185605	38	2.0	37	94	0	121	40	21	21	14	1.89
34185404--34185731	166	2.0	162	95	1	584	47	17	17	17	1.83
34187145--34187177	15	2.1	16	88	5	50	60	0	12	27	1.32
34187468--34187921	232	2.0	230	98	1	865	28	13	8	49	1.72
34190139--34190171	17	1.9	17	100	0	66	36	21	6	36	1.78
34190253--34190330	29	2.8	29	82	3	97	39	14	8	37	1.77
34190283--34190348	32	2.2	29	86	13	89	34	15	10	39	1.82
34190439--34190573	24	5.6	24	84	5	175	20	20	20	39	1.93
34190446--34190573	48	2.7	47	89	4	193	20	19	20	39	1.92
34190446--34190608	24	6.9	23	77	8	157	20	19	20	40	1.92
34194232--34194320	25	3.6	25	79	14	87	66	2	0	31	1.04
34198811--34198843	15	2.1	16	88	5	50	60	0	12	27	1.32
34199134--34199594	230	2.0	230	99	0	906	28	13	8	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34208878--34208913	18	1.9	19	88	5	56	44	0	2	52	1.15
34210772--34210841	21	3.3	20	72	18	61	30	8	14	47	1.74
34211601--34211661	19	3.2	18	77	15	61	50	3	1	44	1.28
34211762--34211841	33	2.4	34	83	8	112	37	1	0	61	1.04
34219293--34219343	2	25.5	2	91	0	84	45	0	3	50	1.20
34219295--34219343	18	2.7	18	100	0	98	44	0	4	51	1.20
34221832--34222400	287	2.0	286	98	0	1084	47	8	18	25	1.77
34224425--34224737	161	2.0	160	92	0	518	26	20	16	36	1.94
34235583--34235633	20	2.5	20	87	6	68	25	27	13	33	1.94
34235741--34235769	2	14.5	2	100	0	58	51	0	48	0	1.00
34239354--34239407	28	2.0	28	85	3	74	29	24	14	31	1.95
34239451--34239488	19	2.0	19	94	0	67	44	28	0	26	1.54
34239904--34240035	63	2.1	63	98	0	255	45	7	12	34	1.71
34239917--34240017	31	3.2	31	68	18	100	44	7	12	34	1.72
34239929--34240027	31	3.2	31	67	22	89	42	8	12	37	1.72
34241684--34241764	31	2.6	31	81	14	96	48	0	22	29	1.51
34241841--34241902	9	7.1	9	77	14	51	77	0	0	22	0.77
34241845--34241902	18	3.3	18	83	11	77	77	0	0	22	0.77
34251743--34251791	22	2.3	22	82	10	57	51	0	0	48	1.00
34252940--34252999	24	2.5	24	94	0	102	38	0	38	23	1.55
34253017--34253068	25	2.0	26	89	10	81	61	15	9	13	1.56
34260303--34260375	2	36.5	2	74	20	55	43	2	47	4	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34261609--34261640	14	2.3	14	100	0	64	28	0	0	71	0.86
34261595--34261635	20	2.0	20	85	4	55	31	0	0	68	0.90
34283697--34283725	2	14.5	2	100	0	58	48	0	0	51	1.00
34295903--34295944	19	2.1	20	82	8	50	54	0	2	42	1.13
34301820--34302024	110	1.9	108	80	8	243	31	18	18	32	1.94
34305717--34305771	28	2.0	28	96	0	101	40	1	1	56	1.21
34306097--34306139	21	2.0	22	86	4	61	18	0	6	74	1.04
34308625--34308664	21	2.0	20	85	5	53	62	0	0	37	0.95
34311892--34311964	28	2.5	29	82	8	78	50	0	4	45	1.20
34315865--34315901	18	2.1	18	90	10	58	83	0	13	2	0.74
34315867--34315903	19	1.9	19	89	10	58	83	0	13	2	0.74
34317606--34317643	20	1.9	20	84	10	51	18	7	23	50	1.73
34332411--34332464	21	2.6	21	96	0	99	18	7	18	55	1.65
34341783--34341826	21	2.2	21	84	15	58	54	0	2	43	1.12
34342336--34342384	21	2.5	20	83	6	55	38	8	4	48	1.52
34343709--34343733	2	12.5	2	100	0	50	52	0	0	48	1.00
34347403--34347436	17	2.0	17	94	0	59	29	11	14	44	1.81
34347656--34347720	27	2.4	27	85	7	87	33	20	18	27	1.96
34356688--34356722	16	2.2	16	89	0	52	40	2	8	48	1.49
34359084--34359314	2	115.5	2	97	0	435	49	0	49	0	1.06
34368473--34368565	21	4.4	21	76	2	96	16	9	29	45	1.79
34368473--34368646	22	7.7	22	70	10	102	18	12	29	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34368473--34368565	43	2.2	42	84	1	114	16	9	29	45	1.79
34375578--34375629	28	1.9	28	81	14	65	50	3	1	44	1.31
34375617--34375655	15	2.5	16	87	4	53	46	2	0	51	1.14
34375626--34375657	16	2.1	15	94	5	55	46	0	0	53	1.00
34378708--34378742	15	2.2	16	90	5	54	20	5	11	62	1.48
34378827--34378863	16	2.2	17	86	13	51	45	0	16	37	1.47
34383470--34383518	20	2.5	20	77	12	55	30	0	2	67	1.02
34383461--34383523	27	2.3	27	78	8	65	25	0	1	73	0.93
34384102--34384264	80	2.0	80	98	0	317	40	16	15	26	1.89
34395807--34395832	5	5.2	5	100	0	52	19	42	0	38	1.51
34400775--34400811	2	18.5	2	100	0	74	51	0	0	48	1.00
34404687--34404724	12	2.9	13	84	11	51	73	0	2	23	0.95
34406412--34406454	22	2.0	22	90	9	70	60	0	0	39	0.97
34410750--34410793	24	1.9	24	86	9	65	36	2	0	61	1.09
34419530--34419620	12	7.3	12	70	15	53	71	2	0	26	0.97
34422641--34422676	2	18.0	2	100	0	72	50	0	50	0	1.00
34426079--34426106	14	2.0	14	100	0	56	35	14	7	42	1.73
34426571--34426625	2	27.5	2	100	0	110	49	0	0	50	1.00
34431761--34431793	2	16.5	2	100	0	66	48	0	0	51	1.00
34442820--34442857	19	2.1	18	85	9	51	55	0	2	42	1.14
34443131--34443205	29	2.6	30	76	14	77	21	18	2	57	1.53
34461391--34461435	18	2.5	17	75	10	54	57	8	15	17	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34477378--34477562	92	2.0	94	91	8	299	27	16	40	16	1.89
34482996--34483035	16	2.4	18	84	16	59	60	0	0	40	0.97
34489881--34489966	42	2.0	42	86	0	118	39	11	18	30	1.86
34490181--34490212	2	16.0	2	100	0	64	50	0	0	50	1.00
34490755--34490783	12	2.3	13	94	5	51	89	3	6	0	0.57
34492226--34492257	1	32.0	1	100	0	64	0	0	0	100	0.00
34498224--34498253	8	3.8	8	95	0	51	80	6	13	0	0.91
34504137--34504183	3	15.7	3	81	0	58	2	4	29	63	1.25
34529119--34529236	63	1.9	62	82	5	148	56	13	23	5	1.59
34529906--34529946	11	3.6	11	81	18	57	51	0	2	46	1.14
34529909--34529948	12	3.4	12	80	19	57	47	0	2	50	1.14
34529900--34529948	23	2.1	23	100	0	98	51	0	4	44	1.20
34531816--34531866	21	2.4	21	80	0	57	37	17	17	27	1.93
34531777--34531970	66	2.9	66	85	3	246	35	17	12	34	1.88
34532962--34533004	19	2.2	19	83	4	50	58	16	0	25	1.38
34548063--34548099	2	18.5	2	100	0	74	48	0	51	0	1.00
34566478--34566602	63	2.0	63	91	0	205	28	20	21	28	1.98
34569356--34569385	2	15.0	2	92	0	51	50	3	0	46	1.18
34582526--34582572	2	23.5	2	95	0	85	0	46	2	51	1.13
34584873--34584931	31	1.9	31	100	0	118	13	32	13	40	1.84
34586468--34586507	20	2.0	20	85	5	53	62	0	0	37	0.95
34592814--34593237	105	4.0	105	97	1	794	35	16	7	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34592814--34593237	213	2.0	210	97	1	794	35	16	7	40	1.77
34593218--34593250	4	8.2	4	93	0	57	51	21	0	27	1.48
34593220--34593254	16	2.2	16	100	0	70	51	17	0	31	1.45
34593220--34593262	8	5.4	8	88	0	59	51	13	0	34	1.42
34596620--34596725	42	2.5	42	90	4	160	39	23	15	21	1.91
34599992--34600071	30	2.7	30	82	3	99	46	15	17	21	1.84
34603207--34603256	22	2.4	21	83	12	59	56	6	0	38	1.24
34603275--34603305	16	1.9	16	93	0	53	48	0	0	51	1.00
34603266--34603326	20	2.9	21	73	14	54	49	1	0	49	1.10
34603307--34603348	15	2.7	16	85	7	59	47	0	0	52	1.00

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