genome.fa.s9.2.7.7.80.10.50.1000.10.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  10  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)
3227686--3227732	22	2.1	22	84	11	60	40	0	6	53	1.27
3227686--3227732	21	2.1	23	84	11	62	40	0	6	53	1.27
3227677--3227732	23	2.4	24	77	17	64	41	0	7	51	1.29
3228084--3228118	18	1.9	18	88	11	54	40	0	5	54	1.24
3230637--3230851	116	1.9	116	90	0	349	34	26	13	25	1.93
3231446--3231498	13	4.1	13	75	0	52	32	5	22	39	1.78
3231756--3231793	19	2.0	19	94	0	67	44	5	13	36	1.66
3231780--3231820	19	2.2	19	100	0	82	51	14	9	24	1.72
3236832--3236880	14	3.6	14	81	13	66	55	0	0	44	0.99
3237188--3237240	24	2.1	25	82	10	63	52	7	0	39	1.30
3237461--3237624	83	2.0	84	87	1	240	31	12	10	46	1.75
3237808--3237859	16	3.2	16	94	0	86	30	0	36	32	1.58
3237840--3237949	45	2.6	43	80	9	129	33	5	29	31	1.80
3238498--3238558	28	2.2	28	85	5	81	50	3	0	45	1.17
3238398--3238680	91	3.0	93	83	7	290	48	3	3	45	1.34
3238505--3238648	47	3.1	46	65	23	113	49	4	2	44	1.33
3238473--3238680	91	2.3	91	89	2	301	46	3	3	46	1.37
3238454--3238640	44	4.1	43	69	16	119	48	3	2	45	1.32
3238523--3238661	47	3.0	47	68	17	137	49	4	2	43	1.34
3240400--3241054	334	2.0	326	88	5	978	35	17	16	30	1.92
3243761--3243806	19	2.3	21	78	10	53	39	0	2	58	1.10
3243863--3243924	30	2.1	29	85	8	81	48	22	6	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3244022--3244058	3	12.3	3	100	0	74	67	0	32	0	0.91
3245012--3245076	31	2.1	31	83	8	80	24	9	20	46	1.79
3248740--3248815	20	3.8	20	76	20	70	31	0	3	64	1.12
3248760--3248816	19	2.9	20	78	19	66	31	0	5	63	1.17
3249410--3249618	106	2.0	103	95	2	373	32	25	8	33	1.85
3252049--3252091	18	2.4	18	88	7	61	46	0	0	53	1.00
3255279--3255305	13	2.1	13	100	0	54	48	7	22	22	1.75
3259845--3259885	12	3.5	12	81	15	50	73	7	19	0	1.07
3260635--3260725	39	2.3	40	84	7	114	36	5	18	39	1.74
3260908--3260994	39	2.2	39	93	0	147	19	16	20	43	1.88
3268833--3268861	15	1.9	15	100	0	58	51	0	13	34	1.42
3268962--3268994	12	2.7	13	86	13	52	72	0	0	27	0.85
3269688--3269720	17	1.9	17	93	0	57	21	27	30	21	1.98
3269896--3269941	21	2.2	20	85	11	58	41	8	15	34	1.78
3270163--3270195	16	2.0	16	94	5	57	78	0	15	6	0.93
3271411--3271448	19	2.0	19	94	0	67	50	21	0	28	1.49
3271475--3271565	38	2.3	41	88	7	143	40	1	5	52	1.32
3278308--3278336	15	1.9	15	100	0	58	51	0	13	34	1.42
3278446--3278512	29	2.4	27	73	7	62	62	4	4	28	1.34
3282349--3282375	11	2.5	11	100	0	54	37	0	0	62	0.95
3283863--3283901	18	2.2	17	86	13	53	33	0	20	46	1.51
3285600--3285671	35	2.1	35	100	0	144	25	18	30	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3287559--3287589	16	1.9	16	100	0	62	54	6	25	12	1.62
3291011--3291049	18	2.2	17	86	13	53	33	0	20	46	1.51
3302810--3303063	129	2.0	130	95	0	456	23	19	12	44	1.85
3307491--3307525	12	2.9	12	86	0	52	22	8	2	65	1.34
3307518--3307566	7	6.6	7	80	13	53	18	2	2	77	0.96
3307518--3307566	15	3.3	15	82	5	55	18	2	2	77	0.96
3307518--3307563	22	2.1	22	83	0	56	17	2	2	78	0.96
3314270--3314324	26	2.1	26	89	0	83	21	20	27	30	1.98
3319103--3319200	40	2.5	40	94	0	169	24	26	26	22	2.00
3326267--3326321	16	3.7	15	73	14	51	30	3	16	49	1.63
3326260--3326321	29	2.1	29	90	0	97	32	3	16	48	1.62
3328350--3328433	30	2.8	29	79	13	82	54	2	2	40	1.26
3328590--3328870	66	4.3	66	84	3	388	43	3	25	27	1.71
3328590--3328870	131	2.1	132	86	4	406	43	3	25	27	1.71
3339114--3339242	34	3.5	33	67	24	96	17	6	10	66	1.41
3339113--3339280	79	2.1	79	98	1	327	17	7	9	65	1.44
3340355--3340390	5	7.2	5	100	0	72	38	19	19	22	1.93
3343482--3343544	31	2.1	30	84	3	81	41	1	1	55	1.19
3343808--3343855	25	2.0	24	84	12	62	35	0	0	64	0.94
3349982--3350029	13	3.7	13	91	5	71	22	8	27	41	1.82
3355396--3355424	15	1.9	15	100	0	58	20	6	31	41	1.79
3356058--3356126	19	3.7	18	76	7	57	50	26	1	21	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3356058--3356125	26	2.6	26	77	9	68	51	25	1	22	1.56
3356241--3357074	22	39.5	21	68	15	215	47	25	0	26	1.59
3356250--3357186	7	129.6	7	69	12	301	47	24	0	27	1.58
3356297--3356485	15	13.0	15	70	12	51	47	23	1	27	1.58
3356515--3356655	57	2.5	57	91	3	221	48	21	0	29	1.51
3356385--3356633	36	6.9	36	68	11	125	47	22	0	28	1.57
3356529--3356742	57	3.6	57	78	14	200	47	24	0	27	1.55
3356328--3357038	29	24.9	28	68	16	164	47	25	0	26	1.58
3356574--3357037	36	13.1	35	72	14	180	46	26	0	25	1.58
3357004--3357163	58	2.7	58	80	5	153	47	20	0	31	1.51
3356954--3357117	51	3.2	50	76	13	149	46	24	0	28	1.53
3357116--3357185	22	3.1	22	93	2	113	50	18	0	31	1.48
3357123--3357192	23	3.1	22	87	6	88	51	18	0	30	1.47
3357223--3357332	45	2.6	45	80	9	133	34	5	28	31	1.80
3360425--3360503	7	11.0	7	71	10	61	48	25	0	26	1.52
3360445--3360500	15	3.8	15	88	2	78	53	17	0	28	1.44
3360598--3360649	14	3.8	14	84	2	70	51	19	0	28	1.47
3360598--3360658	14	4.4	14	81	4	61	52	19	0	27	1.46
3360646--3360722	15	5.3	14	73	13	57	57	23	1	18	1.48
3360579--3360806	44	5.4	43	75	10	168	52	24	0	22	1.50
3360579--3360821	21	11.5	21	69	13	99	52	24	0	23	1.51
3360742--3360851	36	3.1	36	76	10	109	53	21	0	24	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3360802--3360850	15	3.3	15	83	11	73	51	20	0	28	1.48
3360870--3360935	27	2.4	27	84	0	87	48	25	1	24	1.60
3360904--3360952	20	2.5	20	90	3	73	51	28	0	20	1.48
3364475--3364499	8	3.1	8	100	0	50	40	0	24	36	1.55
3370089--3370282	103	1.9	103	89	2	300	40	20	17	22	1.91
3376227--3376273	18	2.7	17	80	12	51	65	0	2	31	1.04
3378192--3378232	22	1.9	21	85	5	55	48	0	4	46	1.23
3380529--3380603	39	1.9	39	86	5	107	37	5	9	48	1.58
3381689--3381785	48	2.0	49	89	2	151	18	16	23	41	1.90
3386791--3386887	49	2.0	48	87	2	140	19	16	22	41	1.90
3396494--3396561	27	2.5	27	75	0	73	19	20	19	41	1.91
3397296--3397392	20	4.8	20	96	2	169	36	9	24	29	1.87
3405635--3405661	2	13.5	2	100	0	54	48	0	0	51	1.00
3414997--3415036	7	5.7	7	100	0	80	72	0	0	27	0.85
3415307--3415351	22	2.0	22	86	4	63	37	17	6	37	1.76
3415307--3415377	21	3.4	20	82	11	72	39	15	7	38	1.75
3418873--3418931	26	2.3	26	84	0	73	42	15	11	30	1.83
3421816--3421859	23	1.9	23	90	0	70	29	27	6	36	1.83
3423306--3423338	2	17.5	2	87	12	52	51	0	0	48	1.00
3424670--3424718	23	2.1	24	88	3	73	48	2	18	30	1.59
3424908--3424947	21	1.9	21	84	0	53	65	7	5	22	1.38
3429705--3429839	67	2.0	67	94	0	234	20	17	33	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3431350--3431497	49	3.0	49	88	2	215	25	14	29	31	1.94
3437452--3437493	16	2.5	17	88	7	68	85	0	4	9	0.72
3437459--3437493	9	4.0	9	88	7	54	88	0	2	8	0.61
3441859--3441913	19	2.8	20	89	10	78	36	0	0	63	0.95
3443249--3443304	28	1.9	30	85	7	80	60	7	0	32	1.24
3446071--3446185	14	8.2	14	71	7	54	29	13	23	33	1.92
3446155--3446247	28	3.3	28	76	0	69	36	12	20	30	1.90
3446214--3446247	14	2.4	14	90	0	50	41	14	14	29	1.86
3446104--3446241	70	2.0	70	82	0	168	33	13	21	31	1.92
3448527--3448577	20	2.6	19	88	11	77	35	9	0	54	1.33

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