genome.fa.s9.2.7.7.80.10.50.1000.90.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   

This is table  90  of  97  ( 11551 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)
35454999--35455078	26	3.1	26	90	1	126	45	5	11	38	1.62
35455267--35455291	3	8.3	3	100	0	50	32	0	0	68	0.90
35458503--35458528	2	13.0	2	100	0	52	0	0	50	50	1.00
35458528--35458623	2	50.0	2	79	12	94	42	0	53	4	1.20
35467532--35467767	72	3.3	72	80	3	181	41	10	29	18	1.83
35467639--35467794	72	2.2	72	84	2	224	38	8	33	19	1.83
35467639--35467824	72	2.6	72	82	5	189	39	8	33	18	1.81
35475949--35476020	25	3.0	24	84	6	83	58	1	0	40	1.07
35478692--35478743	8	6.1	8	78	12	50	21	1	0	76	0.87
35478691--35478742	18	3.0	17	80	5	59	23	1	0	75	0.91
35478682--35478753	31	2.5	30	80	13	80	25	2	0	72	0.98
35478750--35478887	69	2.0	70	88	4	208	34	12	2	50	1.52
35484175--35484209	2	17.5	2	100	0	70	0	0	48	51	1.00
35486072--35486096	13	1.9	13	100	0	50	52	0	0	48	1.00
35491983--35492020	19	2.0	19	100	0	76	10	26	36	26	1.89
35499522--35499577	12	4.5	12	84	8	67	51	10	0	37	1.37
35499536--35499576	6	6.8	6	94	0	73	51	12	0	36	1.40
35499524--35499576	18	2.9	18	91	0	79	52	11	0	35	1.37
35499567--35499602	16	2.2	16	90	0	54	36	2	13	47	1.58
35499575--35499613	10	3.9	10	89	0	51	33	0	15	51	1.44
35499573--35499609	16	2.3	16	100	0	74	32	0	16	51	1.45
35500798--35500827	12	2.5	12	100	0	60	30	16	16	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35504931--35504967	3	12.3	3	88	0	56	32	2	0	64	1.07
35514107--35514149	2	23.0	2	86	13	65	51	0	0	48	1.00
35514107--35514149	19	2.3	19	92	4	70	51	0	0	48	1.00
35514531--35514575	23	1.9	24	86	4	65	51	2	0	46	1.13
35514708--35514736	2	14.5	2	100	0	58	48	0	0	51	1.00
35520886--35520928	22	1.9	23	85	4	61	39	0	0	60	0.97
35546956--35546980	5	5.0	5	100	0	50	40	0	20	40	1.52
35557688--35557739	2	26.0	2	100	0	104	50	0	0	50	1.00
35558565--35558632	27	2.4	28	85	9	84	55	14	13	16	1.69
35562085--35562136	2	26.0	2	100	0	104	50	0	50	0	1.00
35576234--35576361	64	2.0	63	84	4	168	40	23	4	31	1.75
35577116--35577282	85	2.0	85	83	4	212	41	8	35	13	1.75
35577759--35577810	22	2.3	23	90	3	79	13	7	7	71	1.31
35582458--35582497	19	2.1	19	90	0	62	30	15	20	35	1.93
35594027--35594064	19	2.0	19	85	10	51	5	5	7	81	0.98
35602594--35602623	7	4.3	7	100	0	60	13	0	13	73	1.10
35629714--35629738	2	12.5	2	100	0	50	0	0	48	52	1.00
35629959--35629985	4	6.8	4	100	0	54	77	0	22	0	0.76
35636776--35636800	4	6.2	4	100	0	50	24	0	0	76	0.80
35637870--35637903	3	10.7	3	87	12	50	32	0	0	67	0.91
35645425--35645450	2	13.0	2	100	0	52	50	0	0	50	1.00
35650506--35650578	38	1.9	37	94	0	110	43	5	26	24	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35656191--35656245	19	2.9	19	81	7	67	47	0	0	52	1.00
35660136--35660349	84	2.5	84	81	5	254	30	10	37	21	1.86
35672881--35672918	19	2.0	20	84	5	51	42	2	5	50	1.39
35681080--35681234	42	3.7	42	78	0	148	23	25	27	23	2.00
35684514--35684581	28	2.5	27	83	4	82	20	1	22	55	1.51
35702170--35702251	41	2.0	41	95	0	146	45	18	23	13	1.84
35715579--35715620	21	2.0	21	86	9	59	59	2	4	33	1.31
35718210--35718272	23	2.8	23	75	15	60	44	0	3	52	1.17
35722574--35722646	22	3.3	22	90	3	103	50	1	0	47	1.09
35722605--35722651	16	3.0	16	78	12	53	46	0	0	53	1.00
35731396--35731453	30	1.9	30	92	0	98	31	27	8	32	1.87
35752988--35753014	2	13.5	2	100	0	54	51	0	0	48	1.00
35755686--35755761	37	2.0	38	97	2	145	35	10	21	32	1.87
35757390--35757479	20	4.8	20	69	15	75	60	2	1	36	1.17
35760668--35760699	2	15.5	2	93	6	55	46	3	0	50	1.17
35773358--35773391	17	2.0	17	94	0	59	44	8	35	11	1.72
35780294--35780363	30	2.3	30	100	0	140	20	38	15	25	1.92
35780468--35780525	24	2.4	24	82	0	62	18	51	17	12	1.75
35793457--35793485	14	2.0	15	93	6	51	24	6	6	62	1.45
35803029--35803053	6	4.2	6	100	0	50	0	48	0	52	1.00
35819006--35819049	21	2.1	21	100	0	88	13	20	29	36	1.91
35820497--35820527	14	2.1	15	94	5	55	22	0	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35820824--35820855	17	1.9	16	93	6	55	37	3	0	59	1.13
35821920--35821980	21	2.8	21	73	16	61	55	0	0	44	0.99
35822974--35823023	24	2.0	25	84	3	66	22	2	8	68	1.26
35822743--35823462	361	2.0	361	93	0	1235	36	7	11	44	1.69
35830360--35830447	39	2.2	40	77	14	103	44	0	0	55	0.99
35830804--35830834	15	2.1	15	100	0	62	74	6	0	19	1.03
35836092--35836132	2	20.5	2	100	0	82	51	0	0	48	1.00
35840686--35840720	2	18.0	2	88	5	54	48	0	0	51	1.00
35841738--35842017	142	2.0	139	88	2	416	40	15	10	34	1.81
35841612--35842501	455	2.0	454	95	0	1591	38	12	9	39	1.75
35842193--35842472	142	2.0	139	91	2	452	38	15	10	35	1.81
35842862--35843022	80	2.0	80	96	0	295	34	8	16	40	1.78
35848617--35848647	2	16.0	2	93	6	55	48	0	0	51	1.00
35851512--35851539	2	14.0	2	100	0	56	50	0	0	50	1.00
35853119--35853374	35	7.3	35	79	5	277	43	14	7	33	1.74
35853119--35853367	107	2.4	105	81	4	308	43	14	7	34	1.74
35872501--35872571	31	2.3	31	90	2	108	33	2	5	57	1.37
35872804--35872860	29	2.0	29	85	0	78	66	5	1	26	1.22
35873598--35873655	31	1.9	31	96	3	109	34	27	15	22	1.94
35876895--35876919	13	1.9	13	100	0	50	48	0	32	20	1.50
35877138--35877207	29	2.4	29	87	0	104	45	7	24	22	1.77
35877157--35877219	14	4.4	14	73	13	56	46	6	25	22	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35877138--35877219	29	2.8	28	87	3	101	46	7	24	21	1.77
35877487--35877561	26	2.9	26	97	0	141	17	22	24	36	1.95
35877532--35877605	35	2.1	35	92	0	121	17	20	20	41	1.90
35908691--35908728	20	1.9	20	88	0	58	50	15	7	26	1.72
35912195--35912256	23	2.8	23	83	13	60	58	1	1	38	1.18
35912211--35912256	21	2.1	22	88	11	69	60	2	0	36	1.09
35920236--35920269	17	2.0	17	88	11	52	50	0	0	50	1.00
35921106--35921135	2	15.0	2	100	0	60	50	0	50	0	1.00
35926106--35926159	20	2.7	20	80	13	58	51	3	5	38	1.43
35928062--35928099	3	12.7	3	100	0	76	31	0	0	68	0.90
35933797--35933838	21	2.0	21	86	9	59	30	40	9	19	1.83
35934763--35934787	3	8.3	3	100	0	50	68	0	0	32	0.90
35934904--35935493	96	6.1	96	92	0	849	29	41	11	17	1.84
35935411--35935787	78	4.8	79	73	14	361	28	43	9	18	1.82
35935352--35935787	156	2.8	156	92	0	728	28	42	9	18	1.83
35936350--35936390	19	2.2	19	86	8	57	31	0	2	65	1.05
35946109--35946147	19	2.1	19	95	0	69	53	7	0	38	1.30
35953314--35953348	16	2.2	16	89	0	52	25	0	0	74	0.82
35954550--35955234	340	2.0	341	93	0	1174	39	13	10	36	1.79
35960233--35960271	19	2.1	19	85	9	53	53	2	0	43	1.14
35960259--35960315	29	1.9	30	85	3	80	40	0	3	56	1.17
35968362--35968420	31	1.9	31	82	6	75	66	11	0	22	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35968812--35968854	17	2.6	16	82	7	50	46	0	0	53	1.00
35971553--35971601	2	26.0	2	82	12	50	48	0	0	51	1.00
35971556--35971595	21	1.9	21	85	10	55	50	0	0	50	1.00
35971562--35971663	51	2.0	52	84	5	138	55	0	2	40	1.15
35973765--35973800	2	19.0	2	88	11	58	50	0	0	50	1.00
35974261--35974535	139	2.0	139	90	1	435	26	22	19	32	1.98
35978129--35978198	29	2.4	29	87	0	104	44	11	25	18	1.83
35978450--35978602	35	4.4	35	85	0	207	17	18	18	44	1.87
35979847--35979872	2	13.0	2	100	0	52	50	0	0	50	1.00
35980615--35980698	35	2.4	35	79	0	96	22	21	20	35	1.96

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