genome.fa.s8.2.7.7.80.10.50.1000.106.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  106  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)
39179426--39179574	73	2.0	74	98	1	291	49	4	8	37	1.53
39180316--39180378	30	2.0	30	82	11	74	36	7	9	46	1.66
39182357--39182562	103	2.0	106	84	7	278	38	15	16	29	1.89
39182598--39183311	108	6.5	110	78	9	792	39	12	15	29	1.84
39184577--39185444	108	8.1	108	88	4	1190	40	13	16	29	1.87
39185445--39185488	21	2.1	21	100	0	88	18	4	20	56	1.58
39187382--39187474	47	2.0	47	100	0	186	31	12	23	32	1.92
39187600--39187658	31	1.9	31	82	6	75	38	3	0	57	1.15
39213223--39213555	90	3.7	90	95	0	576	25	22	15	36	1.93
39219246--39219379	58	2.3	58	84	1	178	38	17	20	23	1.94
39222366--39222403	15	2.4	17	83	16	55	39	5	5	50	1.48
39225488--39225522	18	2.0	17	88	5	52	45	0	0	54	0.99
39225668--39225777	45	2.6	44	80	8	122	31	28	4	35	1.77
39225758--39225825	16	4.2	16	92	0	91	33	33	0	32	1.58
39226864--39226914	24	2.1	24	96	0	93	21	15	23	39	1.92
39228385--39228430	23	2.0	23	100	0	92	39	13	13	34	1.83
39231613--39231661	18	2.6	19	81	15	57	57	4	0	38	1.18
39231938--39231987	20	2.4	22	81	18	63	6	10	0	84	0.79
39231941--39231987	21	2.3	19	82	13	58	4	10	0	85	0.74
39233002--39233191	49	4.1	48	77	14	132	60	6	24	8	1.51
39233061--39233138	23	3.3	23	66	16	59	64	8	19	7	1.47
39233044--39233201	49	3.2	48	83	10	196	63	6	21	8	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39238017--39238079	28	2.2	27	76	20	65	63	3	0	33	1.10
39239419--39239450	2	16.0	2	100	0	64	50	0	0	50	1.00
39240840--39240881	19	2.2	19	100	0	84	40	16	7	35	1.76
39241110--39241147	19	2.1	19	85	5	51	39	0	13	47	1.42
39241449--39241508	27	2.2	27	90	0	93	35	21	25	18	1.96
39241582--39241651	19	3.7	19	78	3	88	37	10	1	51	1.44
39241587--39241657	37	1.9	37	97	0	133	39	11	1	47	1.48
39241701--39241786	27	3.2	27	85	8	106	19	25	23	31	1.98
39241825--39241869	23	2.0	23	100	0	90	53	0	8	37	1.32
39244350--39244374	13	1.9	13	100	0	50	60	0	0	40	0.97
39247747--39247835	44	2.1	43	89	4	135	19	24	10	46	1.80
39250180--39250220	10	4.3	10	81	12	50	43	2	7	46	1.44
39254661--39254701	20	2.0	20	90	9	66	36	9	17	36	1.82
39256981--39257107	57	2.2	57	92	0	209	46	14	18	20	1.84
39258625--39258712	37	2.4	37	86	0	122	38	20	7	32	1.82
39260604--39260628	13	1.9	13	100	0	50	68	24	0	8	1.16
39262080--39262119	16	2.6	16	80	4	55	52	5	0	42	1.23
39262329--39262535	57	3.6	57	83	1	236	21	17	15	45	1.85
39268974--39269004	9	3.4	9	90	0	53	25	12	22	38	1.90
39269022--39269055	14	2.5	14	90	4	52	26	14	17	41	1.88
39273612--39273675	25	2.5	26	73	14	62	70	4	0	25	1.06
39274774--39274807	14	2.5	14	90	4	52	32	8	29	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39282138--39282200	30	2.1	30	93	0	108	50	12	6	30	1.65
39282192--39282224	2	16.5	2	100	0	66	51	0	0	48	1.00
39282607--39282667	31	2.0	30	82	17	74	29	18	6	45	1.74
39282859--39282932	25	2.9	26	80	4	80	32	21	25	20	1.97
39282819--39282931	50	2.3	50	84	3	138	30	20	24	24	1.99
39286276--39286321	23	2.0	24	86	4	67	23	6	45	23	1.76
39292873--39293011	74	1.9	75	86	1	199	29	22	17	30	1.97
39293268--39293407	74	1.9	75	84	1	192	28	22	18	30	1.98
39295727--39295753	10	2.7	10	100	0	54	62	11	7	18	1.50
39307007--39307668	44	14.9	44	77	3	603	29	24	15	30	1.96
39307009--39307556	89	6.2	89	89	2	805	29	24	14	31	1.95
39307007--39307600	266	2.2	265	88	3	888	29	24	14	31	1.95
39307007--39307668	133	5.0	132	81	6	667	29	24	15	30	1.96
39307009--39307668	222	3.0	221	80	5	593	29	24	15	30	1.96
39309911--39309951	20	2.0	20	90	0	64	68	7	12	12	1.39
39312291--39312326	17	2.1	17	89	5	54	47	16	16	19	1.83
39313855--39313885	2	15.5	2	100	0	62	51	0	0	48	1.00
39320792--39320824	17	2.0	17	88	5	50	27	12	21	39	1.88
39321307--39321465	77	2.0	79	91	2	259	38	20	18	22	1.93
39324640--39324831	90	2.1	90	89	1	287	32	16	23	27	1.96
39326108--39326143	17	2.1	18	89	5	56	27	22	33	16	1.95
39334438--39334498	22	2.8	22	92	0	95	60	1	29	8	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39339004--39339063	21	2.9	22	78	9	63	46	0	3	50	1.18
39357274--39357324	26	1.9	27	92	4	86	52	3	5	37	1.44
39362546--39362572	13	2.1	13	100	0	54	29	29	18	22	1.97
39364755--39364787	18	1.9	17	88	11	50	57	12	0	30	1.35
39364790--39364825	15	2.5	14	86	8	54	44	8	0	47	1.33
39366516--39366564	22	2.2	22	89	7	73	34	0	4	61	1.15
39368043--39368153	43	2.6	43	88	2	170	31	27	15	26	1.96
39368030--39368170	43	3.3	42	81	4	165	29	24	17	29	1.97
39369605--39369656	7	7.3	7	78	8	52	46	34	0	19	1.50
39369606--39369656	15	3.5	15	73	7	52	47	33	0	19	1.50
39369695--39369738	14	3.1	14	86	3	52	47	29	0	22	1.51
39370111--39370266	41	3.8	41	85	0	204	28	29	19	21	1.98
39370327--39370435	40	2.8	40	85	1	157	21	23	21	33	1.97
39372397--39372421	4	6.2	4	100	0	50	76	0	0	24	0.80
39372442--39372473	15	2.1	15	94	0	55	15	6	9	68	1.36
39374234--39374265	15	2.2	15	94	5	57	53	6	3	37	1.42
39374257--39374297	19	2.2	19	86	4	57	48	12	14	24	1.78
39377959--39377997	16	2.6	16	88	12	64	48	5	5	41	1.47
39379598--39379777	91	2.0	88	91	3	288	26	10	21	42	1.84
39379981--39380346	181	2.0	184	92	2	621	29	13	13	42	1.83
39382823--39382913	40	2.3	40	86	0	128	31	21	17	28	1.96
39382840--39382926	40	2.2	40	82	0	102	33	25	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39382957--39383103	40	3.7	39	81	7	179	30	19	19	29	1.97
39382813--39383063	137	1.8	137	86	1	369	31	20	17	30	1.96
39384020--39384164	75	2.0	73	86	5	202	29	12	12	45	1.78
39385613--39385669	29	1.9	30	89	3	89	47	12	8	31	1.72
39391644--39391692	16	3.0	16	78	3	53	53	6	6	34	1.51
39392981--39393196	87	2.5	89	85	6	289	38	20	8	31	1.83
39393663--39393699	10	3.8	10	92	3	58	32	0	0	67	0.91
39393698--39393903	89	2.3	90	88	4	301	32	9	21	36	1.85
39419569--39419611	22	2.0	22	85	0	59	34	18	11	34	1.87
39420698--39420766	32	2.2	31	82	7	77	31	34	20	13	1.91
39422327--39422401	38	2.0	38	83	0	96	34	14	17	33	1.90
39424902--39424934	15	2.1	16	94	5	59	36	0	0	63	0.95
39430006--39430039	16	2.1	16	100	0	68	23	29	23	23	1.99
39431317--39432347	128	8.0	128	91	0	1569	33	21	20	25	1.97
39431416--39432297	84	10.3	86	66	14	279	33	21	20	25	1.97
39431317--39432347	385	2.7	384	90	1	1620	33	21	20	25	1.97
39432270--39432390	44	2.8	43	81	9	113	28	18	24	28	1.98
39433094--39433127	8	4.4	8	88	3	52	8	0	2	88	0.62
39433094--39433137	16	2.8	15	80	10	52	9	2	4	84	0.85
39433797--39433829	15	2.1	16	94	5	59	36	0	0	63	0.95
39453755--39453868	43	2.7	43	88	2	167	35	28	16	18	1.93
39464550--39464721	83	2.1	84	97	2	330	32	9	16	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39467946--39468041	40	2.4	40	82	3	113	38	21	27	12	1.90
39467945--39468043	20	4.9	20	71	7	76	37	22	27	13	1.91
39473470--39473582	56	2.0	56	96	0	208	38	5	37	19	1.75
39487638--39487726	25	3.1	30	82	15	125	25	25	6	41	1.80
39487648--39487694	15	3.1	15	70	11	51	27	23	8	40	1.83
39489765--39489802	6	6.3	6	100	0	76	15	50	0	34	1.45
39502952--39503010	30	2.0	30	83	6	75	6	23	18	50	1.70
39502983--39503051	5	13.8	5	75	6	50	7	21	15	55	1.65
39502961--39503015	15	3.7	15	77	0	56	5	21	18	54	1.63
39502990--39503042	20	2.7	20	81	0	70	5	22	15	56	1.60

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