genome.fa.s4.2.7.7.80.10.50.1000.2.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: Chr7
Parameters: 2 7 7 80 10 50 1000
Length:  55462051

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  2  of  163  ( 19464 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)
298007--298069	26	2.4	25	76	5	63	61	7	9	20	1.51
305337--305580	129	1.9	129	84	1	328	23	27	15	34	1.94
308341--308500	84	1.9	84	96	2	295	25	15	20	40	1.90
309742--309809	34	1.9	35	82	11	86	42	2	10	44	1.53
311952--312358	210	1.9	210	86	1	573	31	21	14	32	1.93
316987--317036	25	2.0	25	96	0	91	48	14	4	34	1.62
317970--318194	41	5.5	41	92	1	362	15	17	29	37	1.91
321048--321072	12	2.1	12	100	0	50	20	16	16	48	1.82
322238--322295	29	2.0	29	96	0	107	31	22	3	43	1.70
322425--322481	9	6.7	9	76	9	57	42	12	1	43	1.52
322448--322479	16	2.0	16	93	0	55	46	12	0	40	1.42
322574--322643	12	6.0	12	78	6	72	47	18	2	31	1.63
322697--323866	64	18.3	64	99	0	2245	48	15	3	32	1.61
328267--328388	43	2.8	43	87	2	174	28	20	26	24	1.99
329143--329173	16	1.9	16	93	0	53	16	12	9	61	1.56
331020--331184	41	4.0	41	100	0	330	51	21	12	14	1.75
332065--332132	34	1.9	36	85	11	97	44	2	10	42	1.53
343745--343786	18	2.3	18	91	0	66	64	0	2	33	1.07
349235--349634	210	1.9	210	86	2	570	30	20	15	33	1.94
360926--360969	8	5.5	8	84	10	54	59	0	2	38	1.10
363486--363874	210	1.9	210	86	1	564	31	22	14	31	1.94
364874--365000	42	3.0	42	100	0	254	44	14	4	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379594--379620	2	13.5	2	100	0	54	51	0	0	48	1.00
380750--380947	91	2.2	90	82	7	242	39	18	8	33	1.80
382789--382831	17	2.6	16	81	7	50	65	4	0	30	1.13
383969--384033	24	2.6	24	76	9	60	58	4	6	30	1.43
383989--384084	8	12.4	7	70	24	52	63	3	4	29	1.28
384014--384075	17	3.7	17	79	10	65	66	1	3	29	1.17
384004--384082	34	2.3	35	76	8	90	65	1	3	29	1.17
385602--385636	18	2.0	17	88	5	52	0	48	0	51	1.00
386037--386093	18	3.4	18	81	18	86	28	5	0	66	1.13
386051--386078	14	2.0	14	100	0	56	21	7	0	71	1.09
389172--389265	47	2.0	47	97	0	179	28	19	20	31	1.97
391558--392167	209	2.9	207	86	4	799	33	15	21	30	1.94
392933--392994	24	2.5	25	89	5	90	46	0	8	45	1.32
392949--393001	24	2.2	24	86	3	72	52	0	5	41	1.25
397123--397157	3	11.7	3	100	0	70	65	0	0	34	0.93
399248--399313	28	2.3	28	84	5	78	42	15	0	42	1.46
399587--399612	10	2.6	10	100	0	52	57	7	0	34	1.27
399591--399804	106	2.0	107	99	0	421	55	8	4	31	1.51
399750--399808	31	2.0	29	83	6	73	66	1	3	28	1.18
400089--400137	20	2.4	19	83	10	62	71	6	0	22	1.08
400087--400130	11	4.1	11	80	16	56	65	6	0	27	1.17
401444--401524	3	26.3	3	80	9	92	30	1	3	64	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419664--419697	17	1.9	17	88	5	50	2	29	0	67	1.05
426074--426164	40	2.3	40	80	3	112	30	19	25	24	1.98
426423--426538	21	5.6	21	76	12	96	16	0	35	47	1.53
426423--426538	7	16.7	7	73	12	87	16	0	35	47	1.53
426586--426768	7	26.0	7	70	12	74	20	1	34	44	1.59
426620--426665	22	2.1	22	88	8	67	21	0	28	50	1.49
426356--426689	163	2.1	158	92	4	548	19	4	27	48	1.68
427167--427244	41	2.0	40	87	7	115	56	5	3	34	1.40
427341--427739	125	3.2	124	83	3	480	33	16	19	30	1.94
430285--430309	5	5.0	5	100	0	50	60	0	0	40	0.97
432032--432083	27	1.9	27	100	0	104	34	11	11	42	1.77
438466--438748	143	2.0	143	99	0	559	42	9	6	41	1.63
439699--439783	24	3.3	24	68	17	71	27	0	23	49	1.50
439683--439851	54	2.9	54	81	14	203	30	1	21	46	1.62
439731--439903	65	2.7	65	88	1	258	30	1	23	43	1.64
442931--442964	17	1.9	17	88	5	50	2	29	0	67	1.05
458283--458385	51	2.0	51	98	0	197	24	17	26	32	1.97
469479--469512	17	1.9	18	88	5	52	38	5	0	55	1.24
469627--469700	9	8.2	9	80	0	85	50	13	1	35	1.50
469633--469700	18	3.8	18	94	0	109	51	13	0	35	1.41
469627--469700	27	2.7	27	85	0	94	50	13	1	35	1.50
471182--471244	17	3.4	17	72	19	63	55	17	6	20	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471183--471264	39	2.1	40	97	2	157	50	17	9	23	1.75
472704--472758	28	2.0	28	81	0	65	34	36	3	25	1.74
473091--473126	14	2.4	15	86	13	56	52	25	0	22	1.47
504945--504988	5	8.8	5	100	0	88	59	0	0	40	0.98
505978--506430	226	2.0	226	93	1	784	32	14	24	28	1.94
524463--524487	5	5.0	5	100	0	50	60	0	0	40	0.97
526407--526442	5	7.2	5	100	0	72	61	0	0	38	0.96
527295--527360	29	2.2	31	83	5	91	50	4	12	33	1.60
527193--527354	87	1.9	88	83	8	215	48	4	14	32	1.64
527185--527351	29	5.8	29	69	10	99	49	4	14	31	1.62
541667--541953	114	2.5	112	88	1	439	22	22	27	27	1.99
541667--542002	113	3.0	113	86	1	467	22	22	26	28	1.99
542266--542327	30	2.0	31	87	3	90	17	0	48	33	1.48
544736--544851	18	5.6	21	73	23	79	43	12	0	44	1.41
544740--544828	18	4.8	18	81	14	110	44	12	0	42	1.42
544736--544855	39	2.9	39	80	17	138	44	11	0	44	1.40
545169--545374	9	23.3	9	67	24	86	48	17	0	33	1.54
545168--545385	16	13.5	16	73	18	150	49	17	0	32	1.53
545130--545236	23	4.7	24	82	13	118	49	16	0	32	1.52
545147--545286	21	6.6	21	74	20	98	49	15	0	34	1.50
550491--550539	21	2.3	22	82	10	66	36	20	40	2	1.64
550880--551077	42	4.7	42	89	1	299	33	21	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550878--551077	83	2.4	84	94	0	348	34	21	20	24	1.97
557522--557928	110	3.7	110	86	3	525	35	18	16	29	1.93
558264--558300	16	2.3	16	90	0	56	51	0	5	43	1.24
558984--560100	88	12.7	88	89	2	1654	25	24	23	26	1.99
561325--561374	7	7.4	7	93	6	86	0	12	0	88	0.53
561324--561374	13	3.9	13	92	7	86	0	13	0	86	0.58
561325--561374	20	2.5	20	93	6	84	0	12	0	88	0.53
564196--564598	110	3.7	109	89	2	538	34	19	15	31	1.93
564662--564697	19	1.9	19	88	5	56	72	0	8	19	1.10
564869--564929	28	2.2	28	82	5	70	59	1	6	32	1.33
570737--570770	17	2.0	17	100	0	68	41	0	11	47	1.40
571437--571465	3	9.7	3	100	0	58	0	31	0	68	0.89
577095--577133	20	2.0	20	94	0	69	48	0	2	48	1.15
577231--577270	20	2.0	20	90	0	62	45	10	10	35	1.71
588649--588807	81	2.0	80	92	1	264	32	12	24	30	1.92
625663--625721	4	14.5	4	75	19	52	22	5	0	72	1.03
625663--625729	12	5.5	13	73	23	58	22	5	0	71	1.07
625667--625721	17	3.4	16	85	11	69	21	5	0	72	1.04
636559--636594	18	1.9	19	94	5	65	16	5	11	66	1.40
636559--636601	18	2.3	18	88	4	59	20	4	9	65	1.40
638907--638935	4	7.2	4	100	0	58	24	0	24	51	1.48
641925--641957	6	5.5	6	100	0	66	33	0	30	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646484--646526	21	2.0	21	90	0	68	18	16	20	44	1.87
646844--646873	9	3.3	9	100	0	60	20	0	0	80	0.72
649546--649718	41	4.2	39	77	8	150	19	15	26	38	1.91
649564--649718	82	1.9	82	84	10	210	17	16	27	39	1.90
649561--649733	82	2.1	81	79	13	194	19	17	27	35	1.94
650349--650423	7	9.9	7	70	16	51	18	0	49	32	1.48
650327--650423	22	4.7	21	75	18	96	19	0	47	32	1.50
650338--650423	40	2.2	38	87	6	120	19	0	48	31	1.49
651850--651895	22	2.0	22	91	8	74	34	41	0	23	1.55
652883--652942	31	1.9	32	86	3	86	38	11	13	36	1.81

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163