genome.fa.s3.2.7.7.80.10.50.1000.10.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: Chr8
Parameters: 2 7 7 80 10 50 1000
Length:  70076365

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   

This is table  10  of  210  ( 25174 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)
3253915--3253960	21	2.2	21	96	3	85	52	8	13	26	1.69
3256572--3256817	54	4.6	54	85	9	340	31	25	18	23	1.98
3257830--3257854	12	2.1	12	100	0	50	60	0	0	40	0.97
3266382--3266435	27	2.0	27	82	7	65	31	12	1	53	1.50
3267159--3267215	26	2.1	27	81	9	64	0	31	3	64	1.10
3267268--3267298	8	3.9	8	100	0	62	61	0	0	38	0.96
3269707--3269846	40	3.6	39	75	10	124	30	24	18	27	1.98
3269712--3269849	41	3.5	41	72	10	117	31	24	17	26	1.97
3272953--3273084	40	3.4	39	76	7	133	30	25	18	25	1.98
3276270--3276591	160	2.0	161	98	1	619	46	11	8	33	1.70
3277212--3277269	26	2.2	26	90	6	91	18	22	24	34	1.96
3279374--3279418	22	2.0	22	86	0	63	40	2	4	53	1.33
3284857--3284901	22	2.0	22	86	0	63	40	2	4	53	1.33
3292731--3292790	2	31.5	2	86	9	72	43	0	0	56	0.99
3293174--3293206	2	16.5	2	100	0	66	48	0	0	51	1.00
3294245--3294355	55	2.0	55	100	0	222	24	25	23	27	2.00
3295997--3296054	21	2.8	20	75	10	55	25	3	12	58	1.49
3300300--3300365	24	2.7	24	76	2	60	24	10	12	53	1.69
3301711--3301756	19	2.3	20	82	10	60	34	2	4	58	1.30
3311926--3311952	7	3.9	7	100	0	54	70	0	0	29	0.88
3313997--3314021	2	12.5	2	100	0	50	48	0	0	52	1.00
3316206--3316238	15	2.2	15	89	10	50	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321076--3321125	25	2.0	25	96	0	91	26	0	18	56	1.42
3323836--3323913	28	2.8	27	81	12	79	39	1	3	55	1.26
3324549--3324577	6	4.8	6	100	0	58	17	17	48	17	1.82
3325952--3325978	5	5.4	5	100	0	54	40	18	0	40	1.51
3331632--3331760	60	2.2	60	83	5	154	37	12	12	37	1.81
3333116--3333149	17	2.0	17	88	0	50	70	2	2	23	1.15
3334703--3334873	85	2.0	86	97	1	326	19	15	16	48	1.81
3337870--3337896	13	2.1	13	100	0	54	51	0	7	40	1.30
3349958--3349992	4	8.8	4	100	0	70	77	0	0	22	0.78
3353836--3353894	31	1.9	31	85	0	82	40	8	13	37	1.75
3362356--3362462	31	3.6	31	65	21	84	41	12	22	24	1.88
3363455--3363513	26	2.2	27	84	3	75	61	0	1	37	1.07
3370620--3370671	22	2.4	22	75	15	54	30	7	3	57	1.45
3379044--3379089	24	2.0	23	86	4	65	54	4	2	39	1.32
3379240--3379278	3	12.7	3	89	5	60	33	2	0	64	1.08
3379867--3380055	94	2.0	94	100	0	378	29	6	17	46	1.73
3389183--3389243	32	1.9	33	83	9	83	29	14	14	40	1.86
3395594--3395637	11	4.0	11	82	17	56	54	0	2	43	1.12
3396248--3396327	31	2.5	32	88	10	119	30	10	6	53	1.58
3404583--3404646	27	2.4	27	89	0	92	31	0	40	28	1.57
3428952--3429011	25	2.4	24	86	10	77	53	15	1	30	1.51
3432433--3432470	18	2.1	18	85	9	51	15	15	7	60	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3432450--3432499	27	2.0	24	81	18	57	24	12	2	62	1.40
3432537--3432586	12	4.1	12	76	5	55	32	16	6	46	1.71
3435734--3435771	18	2.1	18	85	9	51	15	15	7	60	1.57
3435838--3435887	12	4.1	12	76	5	55	32	16	6	46	1.71
3449084--3449133	25	1.9	26	88	8	75	42	4	2	52	1.31
3450698--3450756	30	2.0	29	83	3	73	55	11	11	20	1.67
3459660--3459730	28	2.5	29	76	2	72	32	12	8	46	1.72
3460994--3461117	37	3.1	42	68	15	136	45	1	4	48	1.33
3460985--3461140	77	2.0	78	97	1	296	47	2	5	44	1.38
3462339--3462406	34	2.0	34	100	0	136	32	20	23	23	1.98
3464030--3464210	79	2.3	79	89	1	265	35	28	11	24	1.90
3467267--3467308	15	2.7	16	82	14	52	52	2	0	45	1.13
3467276--3467317	15	2.9	15	82	10	52	52	0	0	47	1.00
3467679--3467827	47	3.2	47	70	16	157	48	4	2	44	1.35
3467667--3467806	44	3.1	44	69	17	142	49	2	2	45	1.31
3467667--3467846	91	2.0	92	96	1	335	48	4	2	44	1.37
3469853--3469926	36	2.1	36	94	0	130	55	10	24	9	1.64
3473780--3473809	9	3.4	9	90	9	53	63	0	0	36	0.95
3473831--3473887	24	2.3	24	77	11	62	54	5	1	38	1.33
3474241--3474306	24	2.7	24	95	4	114	63	3	0	33	1.10
3473835--3474650	431	1.9	431	87	3	1194	32	15	22	29	1.95
3498965--3499004	16	2.4	16	87	4	53	27	2	10	60	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3500013--3500057	23	2.0	22	82	4	54	42	4	0	53	1.21
3506200--3506443	118	2.1	114	93	6	373	59	6	3	31	1.38
3524660--3524737	33	2.5	31	91	6	122	55	0	2	42	1.13
3524711--3524746	10	3.3	11	88	11	56	47	0	2	50	1.15
3532901--3532942	21	2.0	22	85	4	59	40	0	2	57	1.12
3536743--3536772	2	15.0	2	100	0	60	50	0	0	50	1.00
3554662--3554695	17	2.0	17	100	0	68	11	35	0	52	1.38
3555404--3555450	18	2.6	17	83	9	58	55	2	4	38	1.31
3555404--3555450	19	2.6	18	81	15	53	55	2	4	38	1.31
3558094--3558159	32	2.1	31	82	2	78	24	10	18	46	1.80
3558438--3558499	30	2.1	30	93	0	106	43	24	17	14	1.86
3560338--3560366	8	3.8	8	90	9	51	13	0	0	86	0.58
3560338--3560366	15	1.9	15	100	0	58	13	0	0	86	0.58
3565658--3565698	17	2.3	19	79	12	50	4	17	0	78	0.93
3571157--3571189	5	6.6	5	100	0	66	0	18	0	81	0.68
3572563--3572661	39	2.3	42	76	16	114	47	28	4	20	1.68
3572785--3572847	17	3.5	17	75	12	72	33	1	14	50	1.52
3572802--3572856	17	3.0	18	70	15	58	34	1	16	47	1.57
3572777--3572856	37	2.2	37	95	0	142	33	2	15	48	1.58
3580231--3580405	95	1.8	95	89	4	273	34	10	14	40	1.81
3595880--3595913	17	1.9	17	88	5	50	76	2	0	20	0.92
3600451--3600479	4	7.2	4	100	0	58	27	0	24	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3601082--3601131	25	2.0	25	88	3	75	62	6	0	32	1.20
3621274--3621298	13	1.9	13	100	0	50	52	16	0	32	1.44
3629273--3629297	12	2.1	12	100	0	50	8	32	8	52	1.60
3638976--3639027	26	2.0	26	92	0	86	44	1	11	42	1.51
3639101--3639152	26	2.0	26	92	0	86	42	11	1	44	1.51
3648213--3648244	17	2.0	17	88	11	50	62	15	21	0	1.32
3648852--3648942	39	2.3	41	79	11	100	34	4	20	40	1.73
3649141--3649292	45	3.4	45	86	3	207	20	17	19	42	1.90
3653740--3653772	13	2.5	13	95	5	57	33	6	24	36	1.80
3660403--3660444	20	2.0	21	82	13	52	59	7	2	30	1.37
3669476--3669528	16	3.4	16	81	2	72	28	16	1	52	1.54
3671837--3671862	2	13.0	2	100	0	52	50	0	0	50	1.00
3678869--3679127	129	2.0	130	99	0	511	40	3	12	44	1.58
3679820--3679877	25	2.3	26	81	3	64	48	1	3	46	1.29
3680675--3680740	29	2.2	30	83	2	80	48	7	1	42	1.40
3681705--3681746	21	1.9	23	90	9	70	42	2	2	52	1.27
3698575--3698614	14	2.9	14	84	0	53	35	7	15	42	1.75
3698598--3698637	20	2.0	20	90	0	62	30	10	10	50	1.69
3698583--3698649	34	1.9	35	87	3	100	32	8	11	46	1.72
3698736--3698774	20	2.0	20	94	0	69	48	2	0	48	1.15
3708228--3708274	16	2.9	16	82	17	53	46	2	0	51	1.13
3708686--3708718	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3726354--3726382	4	7.5	4	92	7	51	51	0	0	48	1.00
3730767--3730823	26	2.2	26	83	0	69	28	8	3	59	1.44
3744795--3744852	30	1.9	30	86	6	82	46	1	6	44	1.40
3748853--3748885	2	16.5	2	93	0	57	45	0	3	51	1.16
3756909--3756959	10	5.0	10	83	4	66	9	9	9	70	1.34
3756909--3756959	21	2.5	20	83	3	66	9	9	9	70	1.34
3763012--3763072	31	2.0	30	81	12	72	44	3	0	52	1.17
3763899--3764858	476	2.0	476	99	0	1911	34	8	16	39	1.81
3765036--3765063	8	3.5	8	100	0	56	39	0	0	60	0.97
3766026--3766050	7	3.6	7	100	0	50	40	0	0	60	0.97

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