genome.fa.s23.2.7.7.80.10.50.1000.9.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: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   

This is table  9  of  218  ( 26060 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)
3448525--3448582	30	1.9	31	82	3	73	55	8	3	32	1.47
3449767--3449818	25	2.1	25	96	0	95	25	7	0	67	1.17
3456360--3456426	33	2.0	33	91	5	109	8	25	22	43	1.82
3459609--3459643	17	2.1	17	94	5	63	40	0	5	54	1.24
3460278--3460302	7	3.6	7	100	0	50	56	0	0	44	0.99
3460500--3460538	20	1.9	21	89	5	62	58	0	2	38	1.12
3462889--3462938	17	2.7	20	78	18	70	10	0	44	46	1.37
3467527--3467576	17	2.7	20	78	18	70	10	0	44	46	1.37
3475881--3476065	92	2.0	92	100	0	370	29	22	9	37	1.86
3483890--3483955	30	2.2	31	81	5	73	50	7	1	40	1.40
3483945--3484004	18	3.3	18	79	11	68	41	0	0	58	0.98
3483967--3484014	18	2.9	16	76	11	51	37	0	2	60	1.09
3490191--3490228	20	1.9	20	94	0	67	71	5	7	15	1.28
3492255--3492296	23	1.9	22	85	9	59	38	2	11	47	1.53
3496391--3496421	15	2.1	15	93	0	53	35	9	6	48	1.62
3504108--3504150	21	2.1	20	87	12	61	79	0	0	20	0.74
3504607--3504638	14	2.3	14	94	0	55	50	9	21	18	1.75
3505121--3505161	21	2.0	20	90	4	64	34	21	21	21	1.97
3508343--3508405	29	2.2	28	82	5	72	23	14	14	47	1.80
3508651--3508692	13	3.3	13	78	18	52	59	0	2	38	1.10
3510125--3510183	29	2.0	30	86	3	84	28	6	15	49	1.70
3510725--3510763	18	2.0	21	85	14	57	61	12	5	20	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3511866--3511897	9	3.6	9	100	0	64	21	0	0	78	0.76
3511862--3511908	18	2.5	19	76	13	53	31	0	0	68	0.90
3515348--3515450	18	6.2	16	72	22	72	46	11	9	32	1.73
3515493--3515565	18	3.9	18	75	15	58	46	8	13	31	1.73
3515501--3515560	19	3.1	19	75	15	59	51	8	11	28	1.67
3515637--3515695	18	3.5	17	72	19	52	47	6	11	33	1.67
3516628--3516678	21	2.4	21	90	6	77	0	13	9	76	1.02
3516627--3516693	20	3.4	18	78	15	71	1	14	10	73	1.17
3517087--3517243	59	2.7	59	79	3	165	38	4	24	32	1.75
3517087--3517243	29	5.3	29	81	2	134	38	4	24	32	1.75
3518303--3518370	29	2.3	31	82	5	86	17	17	13	51	1.76
3519118--3519155	3	12.7	3	100	0	76	0	34	0	65	0.93
3542465--3542489	13	1.9	13	100	0	50	60	0	0	40	0.97
3548265--3548311	23	2.0	25	87	8	71	53	14	23	8	1.69
3550063--3550129	27	2.5	28	80	7	84	56	0	1	41	1.08
3553675--3553710	15	2.3	16	90	4	56	0	0	19	80	0.71
3555523--3555551	2	14.5	2	100	0	58	48	0	0	51	1.00
3558279--3558326	20	2.3	21	80	20	57	18	0	6	75	1.01
3560590--3560648	28	2.1	28	81	9	66	54	0	3	42	1.17
3568222--3568377	43	3.7	43	92	5	246	26	28	17	26	1.98
3568728--3568863	66	2.1	66	91	2	220	14	27	17	40	1.89
3574227--3574653	9	47.0	9	78	4	437	31	3	17	47	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574227--3574653	100	4.3	99	85	3	489	31	3	17	47	1.64
3574707--3574776	12	6.0	12	80	6	81	31	2	17	48	1.61
3574869--3574925	9	6.7	9	80	9	66	43	0	12	43	1.41
3574876--3574924	16	2.9	16	82	11	62	44	0	14	40	1.45
3575054--3575111	29	2.0	29	100	0	116	41	3	24	31	1.71
3579219--3579259	22	1.9	21	85	14	57	56	24	0	19	1.42
3579276--3579350	23	3.2	23	72	10	71	50	21	1	26	1.56
3579286--3579361	23	3.3	23	73	23	77	48	21	1	28	1.58
3586623--3586686	34	1.9	32	84	6	83	43	1	4	50	1.32
3587126--3587158	10	3.1	11	86	8	50	75	3	0	21	0.93
3587126--3587168	21	2.0	21	86	0	59	72	2	0	25	0.97
3597110--3597140	16	1.9	16	93	0	53	83	0	16	0	0.64
3601986--3602026	21	2.0	21	90	0	64	29	21	29	19	1.98
3607209--3607367	78	2.0	78	96	0	291	35	19	12	32	1.89
3618784--3618859	34	2.3	33	88	4	109	31	5	9	53	1.55
3618835--3618950	47	2.5	47	92	1	189	30	10	10	49	1.70
3618895--3618924	14	2.1	15	93	6	53	43	0	13	43	1.43
3619460--3619501	14	3.0	14	76	10	50	69	0	0	30	0.89
3622155--3622218	27	2.3	27	78	2	65	46	1	3	48	1.27
3622179--3622222	19	2.4	18	80	3	52	43	2	2	52	1.26
3634309--3634338	15	2.1	14	93	6	51	26	3	0	70	1.03
3642195--3642232	20	1.9	20	88	0	58	26	7	5	60	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3643742--3643772	16	1.9	16	100	0	62	51	29	6	12	1.65
3648022--3648079	22	2.5	22	73	15	55	51	1	6	39	1.39
3648348--3648384	3	12.3	3	94	0	65	67	2	0	29	1.04
3649972--3650605	44	14.6	43	70	10	294	27	22	20	29	1.98
3649962--3650561	87	6.9	87	72	11	358	27	22	19	29	1.98
3649967--3650562	214	2.7	215	89	3	910	27	22	19	29	1.98
3659452--3659596	49	3.0	49	85	13	185	29	30	16	23	1.96
3660844--3660990	37	4.0	37	90	6	228	24	21	16	38	1.93
3660844--3660990	75	2.0	72	89	6	224	24	21	16	38	1.93
3660954--3661171	45	4.6	48	77	16	181	27	21	13	36	1.92
3660966--3661157	53	3.9	51	79	12	190	27	21	14	36	1.92
3661010--3661165	52	3.1	51	80	12	178	26	22	13	37	1.91
3665761--3665785	1	25.0	1	100	0	50	0	0	0	100	0.00
3667624--3667664	17	2.3	17	83	8	55	17	7	4	70	1.28
3670440--3670469	15	2.1	15	93	6	53	70	0	0	30	0.88
3672468--3672590	56	2.2	55	80	11	133	32	13	20	33	1.92
3672643--3672669	11	2.5	11	100	0	54	62	0	0	37	0.95
3673056--3673234	47	4.0	46	70	14	135	21	17	3	56	1.56
3673107--3673315	84	2.5	84	85	3	267	23	19	3	53	1.61
3676261--3676389	9	14.6	9	67	11	70	34	1	17	47	1.57
3676261--3676389	36	3.1	42	80	17	171	34	1	17	47	1.57
3677817--3677842	11	2.4	11	100	0	52	30	0	7	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3678483--3678527	23	2.0	23	100	0	90	42	8	22	26	1.83
3682133--3682223	27	3.1	30	84	10	125	42	6	24	26	1.78
3686798--3686871	27	2.6	28	87	6	105	43	8	20	28	1.80
3697901--3697963	28	2.3	27	91	5	108	33	19	11	36	1.87
3699963--3699992	13	2.3	13	100	0	60	50	26	16	6	1.70
3700335--3700370	19	1.9	18	88	5	54	63	2	13	19	1.41
3700669--3700710	11	3.8	11	87	0	57	61	11	16	9	1.55
3701443--3701533	41	2.2	41	86	3	121	32	9	16	40	1.81
3704172--3704200	12	2.5	12	94	5	51	37	6	0	55	1.27
3709573--3709621	22	2.2	21	82	13	55	24	6	8	61	1.47
3718095--3718166	26	2.8	26	73	10	67	37	5	16	40	1.72
3741124--3741174	15	3.5	15	69	15	52	52	15	9	21	1.71
3743166--3743195	2	15.0	2	100	0	60	50	0	0	50	1.00
3745233--3745264	12	2.8	12	86	13	50	56	0	15	28	1.40
3745443--3745474	8	4.0	8	100	0	64	12	0	37	50	1.41
3746390--3746422	7	4.7	7	96	0	57	0	45	15	39	1.46
3749025--3749069	23	2.0	22	83	12	56	40	2	4	53	1.33
3751103--3751178	25	3.0	25	86	7	109	27	18	18	35	1.94
3751263--3751310	22	2.2	21	82	10	62	39	4	18	37	1.70
3753376--3753422	15	2.9	16	84	12	60	40	19	14	25	1.90
3759625--3759682	24	2.4	24	76	0	62	60	5	1	32	1.29
3759620--3759695	37	2.1	37	85	11	104	61	5	2	30	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3761428--3761481	28	1.9	28	85	7	74	5	25	1	66	1.23
3762110--3762152	22	2.0	22	81	9	52	34	0	2	62	1.08
3772043--3772243	106	1.9	106	97	0	384	31	18	19	30	1.96
3772705--3772810	37	2.8	38	77	16	105	50	0	13	35	1.41
3773096--3773152	22	2.6	23	78	18	75	64	3	7	24	1.34
3773864--3773888	13	1.9	13	100	0	50	68	0	8	24	1.16
3779604--3779637	16	2.1	16	100	0	68	41	0	17	41	1.50
3783445--3784119	45	15.2	45	82	9	816	29	23	17	30	1.97
3783451--3784119	90	7.5	90	88	3	998	29	23	17	29	1.97
3788078--3788103	10	2.6	10	100	0	52	38	11	19	30	1.87

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218