genome.fa.s9.2.7.7.80.10.50.1000.12.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_A09
Parameters: 2 7 7 80 10 50 1000
Length:  77927517

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   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   

This is table  12  of  250  ( 29906 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)
3435310--3435361	21	2.5	21	93	6	88	42	5	1	50	1.37
3435580--3435661	11	7.8	10	71	20	51	36	2	1	59	1.18
3435595--3435646	16	3.2	16	71	28	56	40	1	1	55	1.22
3435592--3435659	32	2.2	31	91	2	109	39	1	1	57	1.17
3435660--3435736	9	8.2	9	70	22	52	46	1	1	50	1.17
3437208--3437315	51	2.1	51	89	0	162	36	14	4	44	1.66
3437968--3438009	12	3.5	12	81	9	50	21	0	4	73	1.01
3439904--3439938	17	2.1	16	89	5	52	60	0	8	31	1.27
3440960--3440985	12	2.2	12	100	0	52	46	15	0	38	1.46
3448228--3448565	87	3.9	86	78	6	306	42	12	13	32	1.80
3448266--3448565	87	3.5	85	79	5	307	40	12	14	33	1.83
3451574--3451603	11	2.6	12	94	5	53	0	10	0	90	0.47
3457718--3457747	9	3.2	9	95	4	51	76	0	23	0	0.78
3466595--3466619	13	1.9	13	100	0	50	52	0	0	48	1.00
3467699--3467744	24	1.9	25	86	8	69	32	0	0	67	0.91
3479758--3479830	21	3.5	21	75	1	67	38	26	6	28	1.82
3479855--3479946	41	2.2	41	83	11	116	33	28	8	29	1.87
3484672--3484880	101	2.1	102	92	4	354	42	5	6	45	1.51
3484853--3484911	31	1.9	31	96	0	109	45	11	0	42	1.41
3484968--3485029	32	2.0	31	87	3	88	37	12	0	50	1.41
3485215--3485307	41	2.3	42	80	10	95	38	32	3	25	1.72
3485366--3485456	21	4.3	21	85	0	119	39	20	3	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3485384--3485461	7	11.3	7	94	1	104	41	20	1	37	1.61
3487725--3487772	3	16.3	3	80	4	53	0	27	0	72	0.84
3490249--3490331	41	2.0	41	92	0	139	45	16	4	32	1.69
3491038--3491225	96	2.0	96	81	2	225	32	21	20	25	1.98
3492223--3492600	133	2.8	132	79	12	427	41	7	4	46	1.52
3492385--3492446	32	1.9	32	90	6	99	45	6	0	48	1.28
3495098--3495130	14	2.3	15	89	5	50	78	0	0	21	0.75
3496727--3496766	21	1.9	21	85	10	55	30	5	0	65	1.14
3496727--3496799	10	7.2	10	72	18	53	32	5	0	61	1.19
3496817--3496852	7	5.0	7	86	6	54	30	2	0	66	1.06
3496817--3496857	15	2.8	14	82	10	55	31	2	2	63	1.20
3508671--3509265	44	13.5	44	85	1	753	32	15	24	27	1.96
3510867--3510919	18	2.9	18	81	13	56	32	1	0	66	1.03
3511185--3511220	7	5.0	7	86	6	54	30	2	0	66	1.06
3511185--3511225	15	2.8	14	82	10	55	31	2	2	63	1.20
3513028--3513061	16	2.1	16	100	0	68	29	0	14	55	1.40
3515814--3515863	21	2.4	21	86	6	66	22	6	6	66	1.36
3515921--3515995	27	2.8	27	83	4	80	41	21	2	34	1.67
3517586--3517844	68	3.9	64	77	7	218	29	16	29	24	1.96
3519664--3519736	7	10.6	7	75	8	51	47	23	1	27	1.59
3519662--3519868	14	15.2	13	64	16	53	40	31	3	24	1.72
3523129--3523166	16	2.4	16	86	0	58	42	13	15	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3523516--3523565	26	1.9	26	84	8	66	60	14	4	22	1.51
3525444--3525511	7	9.9	7	75	12	52	8	0	38	52	1.33
3525445--3525516	14	5.2	14	80	9	58	9	0	38	51	1.35
3525529--3525631	28	3.7	28	72	12	79	19	2	27	50	1.62
3525542--3525664	21	5.9	21	67	14	65	17	4	26	51	1.65
3526318--3526402	35	2.4	35	80	9	100	28	7	29	35	1.83
3528179--3528238	31	2.0	31	83	9	79	33	0	0	66	0.92
3528677--3528742	19	3.6	18	76	17	64	24	3	1	71	1.09
3528664--3528737	36	2.1	35	82	10	87	27	2	4	66	1.23
3529209--3529257	15	3.2	15	88	8	55	38	0	0	61	0.96
3529209--3529242	5	6.8	5	100	0	68	38	0	0	61	0.96
3529293--3529347	27	2.0	27	96	0	101	54	0	3	41	1.18
3532678--3532801	47	2.6	47	78	10	135	23	16	25	34	1.95
3535254--3535286	17	1.9	17	88	11	50	33	42	9	15	1.78
3536441--3536474	17	1.9	17	88	5	50	35	0	2	61	1.11
3536748--3536799	17	3.2	17	72	8	54	32	7	1	57	1.38
3536705--3536823	15	7.4	15	70	24	59	31	7	1	59	1.35
3539627--3539671	22	2.0	22	83	8	56	51	0	6	42	1.28
3540972--3541018	15	3.1	15	76	14	51	48	2	2	46	1.25
3542261--3542445	98	1.9	98	95	2	336	19	33	23	23	1.97
3543826--3543875	17	3.0	17	82	8	50	48	4	0	48	1.20
3544032--3544064	2	16.5	2	100	0	66	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3545821--3545858	16	2.5	15	87	8	58	42	0	0	57	0.98
3552266--3552330	22	3.2	22	62	20	59	40	10	6	43	1.65
3552265--3552343	39	2.0	39	100	0	158	37	12	5	44	1.65
3560329--3560526	27	7.4	27	84	5	224	29	27	15	27	1.96
3560346--3560526	82	2.2	80	84	6	233	29	27	15	27	1.96
3568419--3568599	27	6.8	27	85	2	240	29	28	15	27	1.96
3568419--3568599	79	2.3	81	86	2	249	29	28	15	27	1.96
3568409--3568598	106	1.8	105	91	1	317	29	27	15	27	1.96
3571825--3571877	18	2.9	17	83	10	61	50	7	1	39	1.41
3572890--3572932	19	2.3	19	88	4	61	37	2	9	51	1.47
3574532--3574569	18	2.1	19	85	5	51	26	13	7	52	1.67
3574863--3574918	17	3.3	17	78	9	69	19	8	3	67	1.32
3575227--3575261	17	2.1	16	89	5	52	28	2	0	68	1.04
3576442--3576482	18	2.4	17	84	8	55	29	4	4	60	1.38
3577063--3577129	30	2.3	30	84	5	84	50	1	0	47	1.10
3580994--3581059	34	2.0	34	85	8	91	24	16	19	39	1.92
3586503--3586707	27	7.6	27	86	3	259	30	27	15	26	1.96
3589985--3590038	18	2.9	18	86	8	65	51	7	1	38	1.41
3590993--3591026	17	2.0	17	88	0	50	76	0	2	20	0.92
3591053--3591097	21	2.3	19	85	11	56	40	2	8	48	1.47
3592762--3592802	14	2.9	15	82	17	52	29	9	0	60	1.28
3592732--3592843	42	2.6	44	77	12	115	30	10	1	57	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3592777--3592886	3	36.7	3	72	10	73	30	6	2	60	1.36
3592717--3592840	18	7.1	18	68	18	73	29	11	3	56	1.50
3592776--3592860	44	2.0	42	84	9	109	31	9	2	56	1.44
3593049--3593131	3	27.3	3	71	11	62	22	7	2	67	1.27
3593431--3593469	3	13.0	3	84	10	53	28	2	0	69	1.02
3593430--3593464	18	1.9	18	94	0	61	25	2	0	71	1.00
3594641--3594682	18	2.3	18	84	8	59	28	4	4	61	1.36
3599098--3599163	33	2.0	33	93	0	114	27	16	19	36	1.93
3601055--3601079	3	8.3	3	100	0	50	32	0	0	68	0.90
3603080--3603151	36	2.0	36	100	0	144	25	25	8	41	1.83
3604425--3604519	34	2.8	34	80	7	104	30	23	27	18	1.98
3609644--3609888	40	6.2	40	90	2	318	26	26	21	24	1.99
3616517--3616598	22	3.7	22	73	20	71	19	4	2	73	1.13
3616495--3616587	45	2.0	48	85	10	131	19	6	2	72	1.17
3619068--3619145	34	2.3	34	80	4	104	25	20	23	30	1.98
3630336--3630378	21	2.0	21	86	0	59	51	9	20	18	1.74
3637456--3637498	21	2.0	21	86	0	59	51	9	20	18	1.74
3639878--3640126	50	4.8	50	83	4	266	20	29	24	26	1.99
3639877--3640126	100	2.4	104	86	6	339	20	29	24	26	1.99
3640221--3640252	13	2.5	13	94	0	55	56	12	0	31	1.37
3645494--3645741	49	4.8	50	84	5	275	20	29	23	26	1.99
3645493--3645734	99	2.3	104	87	7	343	21	29	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3645836--3645867	13	2.5	13	94	0	55	56	12	0	31	1.37
3646079--3646135	30	1.9	30	88	0	87	31	22	3	42	1.71
3651316--3651341	13	2.0	13	100	0	52	76	0	23	0	0.78
3657591--3657628	16	2.4	16	95	4	69	28	13	26	31	1.93
3660219--3660318	45	2.3	44	78	14	109	51	11	5	33	1.59
3660659--3660713	17	3.4	16	80	9	67	60	0	3	36	1.15
3660858--3660959	12	9.0	11	68	14	55	58	0	2	37	1.20
3670565--3670602	17	2.5	15	80	19	51	39	10	15	34	1.82
3670544--3670634	19	4.9	19	88	8	143	37	10	15	36	1.83
3670926--3670959	18	1.9	17	88	5	50	29	2	0	67	1.05

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   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250