genome.fa.s9.2.7.7.80.10.50.1000.1.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: Chr2
Parameters: 2 7 7 80 10 50 1000
Length:  43198478

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   

This is table  1  of  131  ( 15627 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)
5--719	7	99.9	7	81	6	427	37	44	5	9	1.61
7615--7697	42	2.0	42	97	0	157	53	9	18	19	1.71
9408--9448	21	2.0	21	85	9	57	46	26	14	12	1.80
15331--15362	16	2.0	16	93	0	55	50	3	31	15	1.60
21417--21504	31	2.8	32	75	5	90	29	25	23	21	1.99
24067--24110	17	2.8	16	86	6	54	56	13	0	29	1.38
25830--25856	6	4.5	6	100	0	54	18	14	33	33	1.92
32614--32665	19	2.8	18	82	8	68	55	1	21	21	1.53
32623--32686	32	2.0	33	84	3	85	53	1	20	25	1.55
37729--37804	34	2.2	34	92	0	125	35	31	6	26	1.82
38050--38087	19	2.0	19	100	0	76	26	21	26	26	1.99
38662--38727	31	2.1	31	86	5	89	36	10	7	45	1.67
47619--47660	14	2.9	15	82	3	50	47	4	9	38	1.57
51725--51764	11	3.6	11	82	0	53	27	17	0	55	1.43
52782--52820	16	2.4	16	87	12	53	28	0	5	66	1.12
56475--56553	40	2.0	40	89	0	122	50	8	3	36	1.52
70548--70711	87	1.9	87	91	2	267	20	19	21	37	1.94
72473--72510	18	2.1	19	85	5	51	26	0	7	65	1.19
76999--77085	27	3.4	27	62	18	67	59	9	14	16	1.59
76997--77095	50	2.0	50	100	0	198	56	10	14	19	1.66
86888--86928	21	2.0	21	95	0	73	41	4	17	36	1.71
89626--89669	10	4.4	10	81	18	56	40	0	11	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89634--89676	19	2.2	20	91	4	70	44	0	6	48	1.29
91048--91115	22	3.0	22	84	6	82	36	17	26	19	1.94
116525--116561	18	2.0	19	94	5	67	10	18	5	64	1.43
118303--118733	2	215.5	2	97	0	817	49	0	0	49	1.09
129951--129994	22	2.0	22	90	0	70	36	29	11	22	1.89
132695--132922	113	2.0	113	94	0	402	32	11	17	38	1.86
139914--139959	17	2.6	17	80	12	58	69	0	17	13	1.19
140336--140381	24	2.0	23	87	12	67	23	0	2	73	0.94
140633--140686	28	1.9	29	81	7	67	42	1	3	51	1.30
166069--166117	4	12.2	4	100	0	98	24	0	24	51	1.49
175973--176005	6	5.5	6	100	0	66	15	15	36	33	1.88
176524--176554	6	5.2	6	100	0	62	32	16	35	16	1.91
176700--176751	26	2.0	26	88	0	77	38	9	28	23	1.86
178982--179027	7	6.6	7	97	0	83	41	28	2	28	1.68
179967--179992	2	13.0	2	100	0	52	0	50	0	50	1.00
188446--188536	46	2.0	46	95	0	164	34	6	20	38	1.79
193828--193890	31	2.1	30	88	5	92	49	11	7	31	1.67
196443--196476	17	1.9	17	88	5	50	50	11	11	26	1.73
201112--201154	4	10.8	4	100	0	86	51	23	0	25	1.49
232030--232191	81	2.0	82	97	1	308	25	12	24	37	1.90
239786--239823	18	2.1	18	85	9	51	28	0	2	68	1.03
239791--239845	26	2.0	26	83	13	67	34	1	3	60	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
244087--244122	2	18.0	2	100	0	72	50	0	0	50	1.00
245058--245085	6	4.7	6	100	0	56	35	0	14	50	1.43
248916--248947	2	16.0	2	100	0	64	50	0	0	50	1.00
251749--251779	2	16.0	2	93	6	55	51	0	0	48	1.00
262093--262156	31	2.0	32	84	3	85	28	18	7	45	1.77
269116--269150	18	1.9	19	88	11	56	54	5	0	40	1.24
272494--272543	26	1.9	26	91	0	82	52	24	14	10	1.71
272597--272718	60	2.0	61	98	1	237	31	9	13	45	1.75
272923--272961	16	2.4	16	82	0	51	2	15	7	74	1.15
308525--308576	23	2.3	23	82	0	59	1	25	7	65	1.30
316537--316635	4	24.8	4	93	0	153	49	29	0	21	1.50
317465--317813	174	2.0	174	100	0	698	42	16	20	21	1.89
319551--319650	11	9.9	11	71	20	60	39	1	0	60	1.04
319532--319656	40	3.2	40	88	5	191	36	0	0	62	1.01
320716--320744	2	14.5	2	100	0	58	48	0	0	51	1.00
334616--334673	17	3.4	17	65	25	50	46	29	6	17	1.74
337087--337116	10	3.0	10	95	0	51	53	0	0	46	1.00
342225--342326	50	2.0	50	86	3	143	56	7	25	9	1.58
345260--345312	27	2.0	27	82	10	65	30	11	13	45	1.78
349336--349417	42	2.0	42	82	4	103	29	24	15	30	1.96
352441--352497	28	2.0	28	80	16	64	47	1	5	45	1.35
352499--352568	28	2.4	31	83	9	92	47	0	2	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352902--352958	22	2.6	23	83	8	73	15	8	12	63	1.52
360121--360230	40	2.7	40	85	2	148	28	22	26	22	1.99
360292--360336	16	2.8	16	75	0	54	20	0	26	53	1.46
360492--360826	17	18.9	17	66	20	109	32	13	11	42	1.79
360488--360785	17	16.5	17	69	17	131	31	14	11	42	1.80
360527--360634	35	3.1	35	81	2	94	33	15	12	38	1.85
360772--360835	16	4.1	16	68	11	51	42	9	9	39	1.70
361396--361421	2	13.0	2	100	0	52	50	0	0	50	1.00
361633--361854	91	2.4	93	89	6	324	39	18	0	41	1.56
365054--365644	288	2.1	284	86	4	803	25	11	20	42	1.85
383122--383164	22	2.0	22	100	0	86	32	4	4	58	1.39
385075--385116	21	2.0	20	86	13	59	47	0	0	52	1.00
386669--386701	2	16.5	2	100	0	66	51	48	0	0	1.00
386701--386728	2	14.0	2	100	0	56	50	0	0	50	1.00
389138--389170	16	2.0	17	88	5	50	39	0	0	60	0.97
389161--389240	30	2.7	30	77	11	83	41	1	3	53	1.27
389856--389887	15	2.1	16	88	11	50	68	6	6	18	1.32
392801--392856	22	2.5	23	77	11	62	23	3	5	67	1.27
405035--405060	13	2.0	13	100	0	52	30	15	15	38	1.88
417718--417999	143	2.0	143	92	0	465	29	19	18	33	1.95
428822--429069	123	2.0	123	91	1	399	37	18	8	34	1.82
429471--429549	37	2.2	37	84	11	101	58	5	1	35	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430092--430126	16	2.1	17	89	5	54	40	0	0	60	0.97
431368--431410	22	2.0	22	85	0	59	53	13	18	13	1.73
432045--432089	23	2.0	23	100	0	90	42	22	0	35	1.54
433317--433382	28	2.4	27	82	5	78	24	7	10	57	1.58
435020--435369	111	3.2	110	82	4	357	34	19	24	22	1.96
435162--435617	102	4.3	106	86	5	464	34	21	24	18	1.96
441168--441207	20	2.0	20	100	0	80	45	20	10	25	1.81
442861--442902	17	2.5	17	100	0	84	71	9	19	0	1.13
446151--447116	486	2.0	488	86	3	1367	25	17	19	37	1.93
455404--455465	31	2.0	32	84	9	83	32	12	16	38	1.86
465044--465074	15	2.1	15	100	0	62	61	19	0	19	1.35
465216--465425	47	4.5	47	98	0	393	53	23	6	16	1.65
476586--476626	21	2.0	21	90	0	64	34	2	0	63	1.08
484687--484712	1	26.0	1	100	0	52	100	0	0	0	0.00
491798--491827	12	2.6	11	90	10	51	90	0	10	0	0.47
494152--494208	21	2.7	21	83	8	71	56	0	0	43	0.99
500583--501498	275	3.3	272	84	2	1122	30	19	26	23	1.98
501306--501662	193	1.8	193	84	4	488	35	17	22	23	1.95
502986--503028	21	2.0	21	86	0	59	46	6	2	44	1.43
529156--529190	18	1.9	19	88	11	56	40	0	5	54	1.24
544886--544910	13	1.9	13	100	0	50	56	16	8	20	1.65
548125--548155	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552376--552590	106	2.0	106	86	1	297	26	8	25	39	1.84
562333--562412	40	2.0	40	85	0	106	51	20	6	22	1.69
575409--575434	11	2.4	11	100	0	52	57	0	0	42	0.98
580270--580316	11	4.4	11	74	15	53	36	2	0	61	1.08
580279--580318	21	2.0	21	95	5	73	32	2	0	65	1.06
580746--580785	8	5.0	8	96	0	71	40	12	10	37	1.77
583944--583983	21	1.9	21	100	0	80	25	10	20	45	1.81
583942--583989	21	2.3	21	85	0	78	29	14	18	37	1.91
585468--585521	22	2.5	22	81	3	65	55	9	7	27	1.58
588974--589029	23	2.3	24	84	6	69	37	3	0	58	1.15

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