genome.fa.s14.2.7.7.80.10.50.1000.14.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   

This is table  14  of  213  ( 25468 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)
3814557--3814607	25	2.0	25	92	0	84	45	17	1	35	1.60
3814223--3814731	228	2.2	228	97	0	973	44	12	1	40	1.53
3814670--3814719	19	2.6	19	93	0	82	48	10	2	40	1.48
3814715--3814770	9	6.2	9	85	0	76	46	17	0	35	1.49
3815645--3815709	21	3.1	20	86	4	85	35	18	43	3	1.66
3815678--3815737	12	5.2	12	74	11	63	40	18	38	3	1.67
3816182--3816326	42	3.5	42	84	6	152	22	19	20	37	1.95
3816201--3816326	43	3.0	42	85	5	157	23	19	19	36	1.95
3827858--3827892	17	2.0	18	88	5	54	60	0	11	28	1.32
3835253--3835311	30	1.9	30	86	3	82	47	3	22	27	1.67
3838135--3838231	49	2.0	50	87	2	142	44	18	20	16	1.87
3839456--3839809	132	2.7	132	93	0	584	28	18	25	27	1.98
3839512--3839715	44	4.6	44	75	7	198	28	18	25	27	1.98
3839512--3839740	44	5.2	44	75	4	192	28	18	24	28	1.98
3839802--3839997	44	4.5	44	87	5	301	30	13	26	29	1.94
3839802--3839997	84	2.3	85	90	3	295	30	13	26	29	1.94
3841462--3841522	28	2.1	29	81	6	70	18	19	4	57	1.58
3841523--3841555	3	11.3	3	93	6	59	30	0	0	69	0.88
3841729--3841753	9	2.8	9	100	0	50	0	8	0	92	0.40
3851210--3851247	10	3.8	10	86	10	51	55	2	2	39	1.28
3851210--3851247	19	2.0	20	89	5	60	55	2	2	39	1.28
3851273--3851316	20	2.1	20	87	8	61	56	4	0	38	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3855176--3855210	18	1.9	18	88	0	52	34	2	0	62	1.10
3858285--3858345	29	2.2	28	82	5	70	26	13	16	44	1.84
3868635--3868686	20	2.5	21	78	6	61	42	3	5	48	1.45
3875030--3875075	24	1.9	24	90	0	74	36	8	15	39	1.78
3875815--3875857	11	3.9	11	81	9	52	60	2	2	34	1.22
3876040--3876087	14	3.2	14	81	18	53	60	0	10	29	1.30
3876610--3876670	30	2.0	31	84	9	81	39	4	1	54	1.32
3876729--3876789	10	5.9	10	81	14	63	36	1	3	59	1.24
3876720--3876790	30	2.4	27	78	19	72	35	2	2	59	1.27
3883859--3883912	9	6.2	9	75	14	51	16	7	0	75	1.01
3886495--3886528	7	4.9	7	96	0	50	38	5	14	41	1.70
3893619--3893678	31	2.0	30	83	9	77	50	3	1	45	1.28
3894699--3894735	19	1.9	19	89	10	58	59	0	2	37	1.12
3897809--3897916	56	1.9	55	87	5	155	50	12	2	35	1.54
3898112--3898145	17	1.9	18	88	5	52	52	5	0	41	1.25
3906782--3906826	21	2.1	21	95	0	81	26	13	26	33	1.93
3908750--3908782	14	2.4	14	85	14	50	3	15	0	81	0.80
3910056--3910203	41	3.6	41	88	0	206	29	22	19	28	1.98
3910068--3910231	41	4.0	41	85	1	159	30	22	18	28	1.98
3912940--3913073	66	2.0	66	87	5	191	14	22	17	44	1.86
3914912--3914951	20	2.0	20	85	0	53	10	32	27	30	1.89
3916416--3916451	17	2.1	17	100	0	72	27	25	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3919847--3920122	100	2.8	100	80	3	295	31	18	21	27	1.97
3920219--3920809	44	13.8	43	68	11	302	31	21	20	26	1.98
3920136--3920830	44	16.3	41	68	13	249	30	22	20	26	1.98
3920131--3920888	128	5.9	128	90	0	1120	31	22	20	25	1.98
3922198--3922247	19	2.6	19	79	17	59	28	4	2	66	1.21
3922170--3922227	22	2.6	23	74	17	68	25	5	3	65	1.29
3923253--3923450	109	1.8	106	88	3	297	31	20	18	29	1.96
3925201--3925240	18	2.2	18	86	8	55	82	5	2	10	0.91
3928221--3928335	58	2.0	58	96	0	212	40	13	16	30	1.86
3936721--3936770	17	2.7	20	78	18	70	10	0	44	46	1.37
3941363--3941412	17	2.7	20	78	18	70	10	0	44	46	1.37
3941808--3941862	27	2.0	27	100	0	110	10	0	18	70	1.15
3941808--3941870	27	2.3	27	91	5	92	11	3	19	66	1.36
3951358--3951909	119	5.0	110	79	9	561	29	15	18	36	1.91
3951093--3951954	228	4.0	218	80	9	844	28	16	18	37	1.92
3953215--3953389	61	2.9	61	94	0	314	50	5	16	28	1.65
3953351--3953437	44	1.9	45	90	4	140	52	2	20	24	1.58
3953588--3953612	12	2.1	12	100	0	50	24	36	24	16	1.94
3953775--3953867	9	10.3	9	88	0	132	34	24	9	31	1.88
3953775--3953867	27	3.4	27	92	0	159	34	24	9	31	1.88
3955001--3955034	15	2.4	14	90	5	50	67	5	20	5	1.33
3956834--3956858	13	1.9	13	100	0	50	16	8	4	72	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3956832--3956905	31	2.4	31	79	4	87	18	6	2	71	1.20
3957796--3958360	224	2.5	220	82	5	683	29	19	16	35	1.93
3957796--3958387	111	5.4	108	81	6	636	29	19	15	35	1.93
3960195--3960219	12	2.1	12	100	0	50	32	16	36	16	1.90
3981329--3981369	17	2.5	16	88	11	57	29	7	7	56	1.54
3981515--3981566	19	2.7	19	80	11	61	46	5	0	48	1.26
3985271--3985339	31	2.3	31	84	2	86	39	5	10	44	1.62
3985589--3985631	21	2.0	21	100	0	86	25	9	41	23	1.84
3988573--3988633	29	2.1	28	81	3	68	26	14	16	42	1.87
3996136--3996192	5	10.8	5	76	23	55	75	3	3	17	1.09
3997350--3997430	37	2.2	37	93	0	135	23	11	22	43	1.85
4000262--4000286	6	4.2	6	100	0	50	16	0	0	84	0.63
4006790--4006853	23	2.9	21	78	19	67	23	6	0	70	1.10
4006785--4006834	25	1.9	26	88	8	75	20	6	0	74	1.03
4006811--4006844	12	2.8	12	87	12	52	23	5	0	70	1.09
4006784--4006837	16	3.5	15	80	12	56	20	5	0	74	1.02
4010559--4010589	14	2.2	14	100	0	62	29	6	35	29	1.82
4011416--4011477	17	3.9	17	67	32	57	50	1	9	38	1.45
4012824--4012873	17	2.7	20	78	18	70	10	0	44	46	1.37
4017463--4017512	17	2.7	20	78	18	70	10	0	44	46	1.37
4025090--4025634	273	2.0	273	85	2	729	31	17	19	31	1.95
4027650--4027697	17	2.8	17	81	15	62	47	0	6	45	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4028680--4028706	14	1.9	14	100	0	54	51	3	0	44	1.19
4032501--4032559	31	1.9	31	89	3	93	33	3	1	61	1.23
4033000--4033029	15	1.9	16	93	6	53	76	6	3	13	1.11
4034096--4034146	21	2.4	21	81	12	61	43	13	9	33	1.77
4034358--4034397	20	2.0	20	100	0	80	40	5	10	45	1.60
4044435--4044605	84	2.0	84	96	0	315	30	15	29	24	1.96
4048425--4048471	17	2.7	17	78	15	51	46	0	8	44	1.33
4049368--4049407	16	2.6	16	92	7	66	45	5	0	50	1.23
4049440--4049466	14	1.9	14	100	0	54	51	3	0	44	1.19
4051324--4051437	59	1.9	60	80	5	133	21	15	15	47	1.82
4053923--4053948	9	2.9	9	100	0	52	88	0	0	11	0.52
4064308--4064369	29	2.1	29	84	0	79	14	37	20	27	1.92
4066313--4066378	27	2.4	27	85	5	80	33	21	16	28	1.95
4066338--4066397	27	2.2	27	82	5	68	33	20	15	31	1.93
4069425--4069449	9	2.8	9	100	0	50	24	12	0	64	1.27
4071613--4071682	16	4.4	16	90	0	86	32	1	34	31	1.67
4071662--4071770	45	2.6	41	78	10	114	34	5	28	31	1.80
4071917--4071951	18	2.0	17	88	5	52	54	0	0	45	0.99
4071804--4072119	157	2.0	156	96	0	578	44	3	4	47	1.40
4072054--4072095	15	2.7	16	82	14	52	52	2	0	45	1.13
4072063--4072104	15	2.9	15	82	10	52	52	0	0	47	1.00
4072112--4072430	66	5.2	64	67	22	245	49	5	3	41	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4072172--4072223	15	3.6	15	80	12	56	53	1	0	44	1.11
4072292--4072343	15	3.6	15	80	12	56	53	1	0	44	1.11
4072057--4072468	120	3.4	120	96	1	740	49	5	2	42	1.38
4075910--4075960	24	2.2	23	80	16	61	47	0	0	52	1.00
4082931--4082964	17	2.0	17	100	0	68	70	5	5	17	1.28
4082934--4082973	9	4.6	9	84	6	55	67	7	2	22	1.28
4093424--4093516	18	5.2	18	85	0	132	30	24	13	31	1.94
4099459--4100003	273	2.0	273	84	3	713	31	17	19	31	1.95
4101890--4101962	32	2.3	32	86	6	105	45	12	17	24	1.83
4102753--4102789	17	2.2	17	90	9	58	45	0	5	48	1.25

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