genome.fa.s8.2.7.7.80.10.50.1000.79.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  79  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)
31080179--31080497	158	2.0	158	88	0	476	36	16	11	34	1.85
31081632--31081681	27	2.0	25	84	11	66	26	4	28	42	1.73
31083548--31083666	58	2.1	58	95	0	211	31	19	21	28	1.97
31083798--31083822	13	1.9	13	100	0	50	8	0	24	68	1.16
31085175--31085336	41	4.0	41	87	1	209	30	18	28	22	1.97
31086031--31086135	41	2.6	41	87	3	140	31	20	27	20	1.97
31089751--31089790	20	2.1	19	85	4	53	40	10	5	45	1.60
31098302--31098376	37	2.0	37	100	0	150	52	10	32	5	1.59
31101280--31102015	367	2.0	367	99	0	1456	37	8	8	45	1.65
31105521--31105589	29	2.3	31	82	12	97	33	1	24	40	1.64
31105531--31105593	29	2.2	29	91	2	101	36	1	22	39	1.64
31112905--31112941	18	2.1	18	90	10	58	0	32	5	62	1.18
31119983--31120039	29	2.0	29	85	0	78	22	17	29	29	1.97
31120807--31120947	25	5.7	25	75	6	99	34	19	28	18	1.95
31120821--31120953	49	2.7	50	79	6	135	33	18	27	20	1.96
31120807--31120955	74	2.0	75	81	3	176	33	19	27	19	1.96
31130687--31130715	15	2.0	15	93	6	51	41	0	0	58	0.98
31132151--31132245	46	2.1	46	95	0	172	42	23	2	32	1.66
31149182--31149241	29	2.1	29	84	12	79	23	6	6	63	1.43
31152654--31152683	14	2.2	14	94	5	53	26	0	0	73	0.84
31152654--31152684	16	1.9	16	93	0	53	29	0	0	70	0.87
31154362--31154429	33	2.0	34	85	2	93	52	1	0	45	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31154426--31154469	22	2.0	23	86	4	63	47	2	2	47	1.27
31160611--31160653	23	1.9	22	100	0	77	39	20	9	30	1.84
31160611--31160661	23	2.2	23	96	0	75	41	19	9	29	1.84
31165891--31165971	25	3.1	27	77	16	89	29	25	23	20	1.99
31167804--31167838	17	2.0	18	88	5	54	65	14	2	17	1.38
31169626--31169663	3	12.7	3	100	0	76	0	34	0	65	0.93
31195086--31195160	18	4.2	18	71	11	64	33	2	2	61	1.24
31195096--31195165	36	2.0	35	83	13	90	30	1	2	65	1.15
31200151--31200221	21	3.3	21	80	5	63	66	1	7	25	1.25
31206591--31206631	11	3.9	11	84	12	59	17	7	29	46	1.74
31206604--31206695	9	10.2	9	83	9	98	20	9	27	42	1.83
31216160--31216226	28	2.4	28	79	18	77	41	5	0	52	1.26
31216139--31216333	97	2.0	97	96	0	363	41	4	1	52	1.31
31216257--31216320	28	2.3	28	77	20	71	43	4	0	51	1.22
31216257--31216324	29	2.4	28	76	13	70	42	4	0	52	1.21
31216301--31216367	32	2.1	31	83	13	82	37	2	2	56	1.30
31217326--31217374	18	2.7	18	77	3	53	40	44	2	12	1.53
31217478--31217535	9	6.4	9	87	0	80	24	8	25	41	1.83
31217478--31217535	18	3.2	18	90	0	89	24	8	25	41	1.83
31217478--31217536	27	2.2	27	93	0	100	23	8	25	42	1.82
31220647--31220797	73	2.1	74	97	2	288	41	7	5	45	1.56
31221716--31221743	3	9.3	3	100	0	56	32	32	0	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31222432--31222463	14	2.3	14	94	0	55	40	15	15	28	1.88
31222940--31222965	2	13.0	2	100	0	52	0	50	0	50	1.00
31228182--31228208	6	4.5	6	100	0	54	14	37	29	18	1.91
31233858--31233891	17	2.1	16	88	5	50	73	2	0	23	0.97
31234195--31234236	21	2.0	21	86	9	59	57	4	0	38	1.20
31237294--31237331	19	2.0	19	100	0	76	26	10	15	47	1.78
31237407--31237449	18	2.4	18	96	0	77	46	2	0	51	1.13
31242640--31242677	19	2.0	19	100	0	76	26	10	15	47	1.78
31244813--31244838	8	3.2	8	100	0	52	76	11	11	0	1.01
31249167--31249206	17	2.4	17	86	0	53	57	2	2	37	1.26
31249316--31249353	17	2.3	17	86	4	51	39	5	5	50	1.48
31253128--31253531	132	3.1	131	86	7	498	29	24	18	27	1.98
31253150--31253555	134	3.1	133	87	7	569	29	23	19	27	1.98
31253514--31253735	88	2.5	88	91	1	356	22	23	23	29	1.99
31255033--31255071	16	2.6	16	88	8	55	12	15	0	71	1.14
31259623--31259655	3	11.0	3	100	0	66	66	0	0	33	0.92
31259692--31259999	65	4.5	65	80	9	332	62	4	6	26	1.39
31259692--31259999	69	4.5	69	80	9	332	62	4	6	26	1.39
31263140--31263180	18	2.2	19	86	4	57	43	0	2	53	1.13
31281549--31281926	88	4.3	88	68	11	234	26	23	18	30	1.98
31281524--31282034	132	3.9	132	95	1	873	27	23	18	30	1.98
31281549--31282034	44	11.0	44	65	9	202	27	23	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31282065--31282258	88	2.2	88	90	0	309	24	21	23	30	1.99
31284478--31284517	19	2.1	19	90	0	62	67	7	12	12	1.41
31286443--31286468	13	2.0	13	100	0	52	46	15	7	30	1.74
31289571--31289848	131	2.1	132	91	2	463	35	16	15	32	1.90
31294049--31294200	70	2.1	71	96	2	279	31	17	1	50	1.54
31294171--31294216	24	1.9	24	95	0	83	19	30	4	45	1.70
31296339--31296375	14	2.5	15	82	8	58	16	0	10	72	1.10
31298488--31298537	20	2.5	20	83	0	55	54	6	4	36	1.44
31299717--31299751	15	2.2	16	90	5	54	62	0	0	37	0.95
31305263--31305420	79	2.0	80	86	1	219	44	13	5	36	1.67
31306548--31306803	43	6.0	43	80	0	208	31	29	14	24	1.95
31307594--31307745	82	1.8	83	87	1	225	19	17	28	34	1.94
31307590--31307770	82	2.2	82	80	2	211	18	15	27	38	1.91
31308714--31308753	21	1.9	21	84	0	53	5	2	55	37	1.35
31308736--31308826	21	4.3	21	69	8	67	9	2	45	42	1.49
31308708--31308840	64	2.1	64	94	0	230	9	2	47	41	1.47
31318226--31318382	43	3.7	42	78	8	165	27	19	27	25	1.99
31318271--31318426	42	3.7	43	77	11	169	23	17	28	30	1.97
31318243--31318472	43	5.4	42	75	11	173	26	18	26	28	1.98
31318228--31318451	85	2.6	85	87	4	317	24	19	27	28	1.98
31321077--31321134	29	2.0	29	86	6	82	41	3	6	48	1.47
31321270--31321327	29	2.0	29	86	6	82	41	3	6	48	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31320993--31321380	193	2.0	193	98	1	751	36	5	10	47	1.63
31322345--31322445	3	33.7	3	97	0	193	0	33	0	65	1.00
31330901--31330940	19	2.1	19	90	4	62	57	0	2	40	1.12
31331796--31332031	117	2.0	118	98	1	456	51	7	13	27	1.68
31332028--31332098	28	2.5	28	93	4	117	39	9	1	49	1.45
31332086--31332123	18	2.1	18	90	5	58	78	10	0	10	0.95
31332165--31332232	27	2.5	27	95	0	118	26	26	27	19	1.99
31332279--31332356	18	4.5	17	78	15	72	66	0	33	0	0.92
31332281--31332352	10	6.6	10	73	17	54	68	0	31	0	0.90
31332281--31332362	24	3.5	23	73	12	69	68	0	31	0	0.90
31332284--31332357	14	5.1	13	71	25	51	68	0	31	0	0.89
31332301--31332362	10	6.4	10	75	14	58	67	0	32	0	0.91
31335029--31335106	27	2.9	27	92	0	120	14	32	26	26	1.94
31335156--31335200	22	2.0	22	100	0	90	55	0	8	35	1.31
31335692--31335745	28	1.9	28	81	7	65	29	7	3	59	1.42
31335995--31336226	115	2.0	117	86	5	328	43	8	10	37	1.70
31337280--31337492	102	2.1	103	96	1	392	20	21	8	49	1.75
31337488--31337522	3	11.7	3	93	0	61	31	2	0	65	1.07
31337489--31337527	12	3.2	12	92	0	60	30	7	0	61	1.24
31342629--31342967	169	2.0	170	92	0	563	32	17	18	31	1.94
31344539--31344758	45	5.0	44	79	3	246	31	15	24	28	1.96
31344543--31345048	89	5.7	89	74	10	460	29	17	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31344544--31344781	44	5.4	44	77	6	228	30	16	23	29	1.96
31344901--31345047	44	3.3	43	77	10	179	29	19	22	29	1.98
31344634--31345174	266	2.0	266	90	2	863	29	18	23	28	1.98
31345299--31345400	44	2.3	44	86	0	141	30	13	22	33	1.93
31346900--31346933	12	2.8	12	90	0	50	29	8	0	61	1.26
31348411--31348437	5	5.4	5	100	0	54	59	0	0	40	0.98
31349277--31349339	31	2.0	31	93	0	108	20	15	12	50	1.77
31349727--31349782	25	2.2	25	80	0	67	58	3	7	30	1.42
31352157--31352492	167	2.0	172	95	3	610	39	15	14	30	1.87
31368323--31368469	57	2.5	59	85	8	201	29	21	25	22	1.99

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