genome.fa.s8.2.7.7.80.10.50.1000.40.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:  48574783

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   

This is table  40  of  135  ( 16172 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)
15795517--15795570	21	2.5	22	80	11	60	25	5	20	48	1.71
15796210--15796268	25	2.4	25	76	0	64	54	3	6	35	1.44
15796887--15796977	19	4.8	19	90	1	148	36	15	9	38	1.81
15796864--15796977	38	2.9	38	87	6	149	38	14	8	37	1.78
15797974--15798142	92	1.9	90	82	5	214	30	22	13	33	1.93
15803986--15804048	24	2.6	24	82	12	67	61	31	3	3	1.27
15805888--15805922	17	2.1	17	94	0	61	34	17	17	31	1.93
15808521--15809020	250	2.0	250	100	0	1000	37	10	8	44	1.69
15813069--15813177	29	3.8	29	75	11	98	28	23	19	28	1.98
15813129--15813206	28	2.7	29	76	9	79	32	25	14	28	1.94
15813159--15813449	61	4.8	60	75	7	230	28	26	13	31	1.93
15813157--15813449	122	2.4	121	77	5	295	28	26	12	32	1.93
15820240--15820270	15	2.1	15	100	0	62	32	6	19	41	1.77
15821685--15821754	27	2.7	26	82	6	81	28	31	12	27	1.93
15823977--15824036	28	2.2	28	82	11	72	21	16	18	43	1.88
15824066--15824183	30	3.9	29	81	10	130	27	20	14	37	1.91
15824053--15824173	60	2.1	58	82	6	145	27	22	14	35	1.93
15829352--15829461	41	2.7	41	89	0	175	31	19	24	24	1.98
15835507--15835629	47	2.6	46	79	2	129	39	5	14	39	1.70
15835651--15835788	47	2.9	49	80	4	181	39	7	15	37	1.76
15835502--15835824	157	2.1	158	90	2	508	39	6	15	38	1.74
15835892--15836037	41	3.6	41	87	1	213	16	19	30	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15835895--15836067	82	2.1	82	82	2	204	17	18	28	35	1.94
15841100--15841190	27	3.4	27	76	3	94	29	18	17	34	1.94
15842034--15842070	3	12.0	3	94	5	65	64	0	35	0	0.94
15850126--15850194	31	2.2	31	81	0	84	44	2	2	49	1.32
15850841--15850902	27	2.3	27	91	0	97	16	33	35	14	1.89
15850958--15850992	18	1.9	18	88	0	52	74	0	22	2	0.95
15850960--15851075	44	2.6	44	87	2	171	69	0	25	3	1.09
15850956--15851047	10	8.5	11	70	16	50	68	1	26	4	1.15
15851637--15852089	226	2.0	225	95	1	809	49	6	13	30	1.67
15851862--15852425	287	2.0	287	94	1	997	51	6	11	31	1.63
15855389--15855433	18	2.5	18	92	0	72	15	48	4	31	1.65
15856425--15856486	27	2.3	27	94	0	106	14	32	33	19	1.92
15859200--15859241	16	2.6	16	92	0	66	42	7	2	47	1.43
15859420--15859481	27	2.3	27	97	0	115	14	33	22	29	1.94
15859542--15859573	12	2.8	12	86	13	50	71	0	0	28	0.86
15863290--15863319	15	1.9	16	93	6	53	13	13	0	73	1.10
15869714--15869892	43	4.2	43	89	1	261	29	30	17	22	1.97
15873163--15873228	22	3.0	22	75	2	62	27	3	45	24	1.68
15874616--15874894	41	6.8	41	85	0	324	30	27	20	21	1.98
15875453--15875511	30	2.1	29	81	12	70	55	3	1	38	1.26
15875517--15875780	128	2.1	129	97	2	505	37	10	10	42	1.74
15880327--15880375	22	2.2	21	79	10	53	22	26	0	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15882177--15882220	18	2.4	18	88	0	61	18	27	9	45	1.79
15882641--15882860	49	4.5	49	96	0	386	41	3	9	45	1.52
15885899--15886280	125	3.1	125	90	0	595	31	18	17	32	1.94
15887726--15887768	23	2.0	22	81	9	52	34	4	9	51	1.55
15889466--15889511	9	5.2	9	81	5	58	54	30	0	15	1.41
15889464--15889511	17	2.8	17	96	3	87	52	31	0	16	1.45
15894881--15894916	3	12.0	3	100	0	72	66	0	0	33	0.92
15897822--15897865	21	2.0	23	86	8	65	36	0	2	61	1.09
15904358--15904488	68	1.9	69	88	1	201	51	6	3	38	1.45
15913935--15913997	29	2.2	28	79	15	76	50	1	0	47	1.10
15915929--15915996	31	2.3	30	79	5	75	26	13	11	48	1.76
15928315--15928348	15	2.3	15	100	0	68	50	14	11	23	1.76
15929872--15929901	12	2.4	12	94	5	51	73	3	16	6	1.18
15931036--15931084	22	2.3	22	78	3	55	40	26	10	22	1.86
15932242--15932288	20	2.3	20	88	0	67	34	21	34	10	1.88
15941819--15941864	23	2.0	23	86	0	65	23	8	21	45	1.80
15945203--15945236	17	2.0	17	88	0	50	35	23	11	29	1.90
15952129--15952266	72	1.9	74	92	3	235	41	7	5	45	1.56
15953918--15954125	114	1.8	114	82	8	271	29	18	20	31	1.97
15954743--15954788	21	2.2	21	88	7	67	21	0	34	43	1.53
15954796--15954847	7	7.4	7	76	8	52	21	1	46	30	1.62
15955015--15955061	21	2.2	22	84	3	60	17	0	44	38	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15955011--15955076	29	2.3	29	86	2	89	16	0	43	39	1.48
15955011--15955068	14	4.1	14	82	8	73	17	0	43	39	1.49
15954977--15955073	7	13.7	7	73	6	52	21	1	42	35	1.60
15956889--15956944	30	2.0	29	82	10	71	30	3	14	51	1.59
15960236--15960525	41	7.0	40	78	12	307	25	20	22	31	1.98
15960236--15960518	126	2.3	125	91	3	453	26	21	22	30	1.99
15960236--15960518	84	3.4	83	82	8	276	26	21	22	30	1.99
15962166--15962231	31	2.1	31	86	5	89	43	9	13	33	1.76
15977398--15977473	38	2.0	38	94	2	136	32	14	13	39	1.85
15984415--15984475	26	2.3	26	97	0	113	11	27	0	60	1.31
15984852--15984897	22	2.0	25	87	12	71	54	4	19	21	1.61
15989104--15989485	45	8.5	45	89	0	539	37	15	21	24	1.93
15989104--15989543	90	4.9	89	86	1	479	38	15	21	24	1.93
15989466--15989668	46	4.5	44	82	4	201	41	13	22	22	1.89
15989466--15989668	91	2.2	91	82	6	243	41	13	22	22	1.89
15991093--15991122	8	3.6	8	95	4	51	20	3	10	66	1.35
15994372--15994439	20	3.4	20	76	8	75	20	25	19	35	1.96
15994368--15994466	40	2.5	40	86	3	128	24	25	18	32	1.97
15994383--15994447	20	3.3	19	70	12	51	26	26	20	27	1.99
15994393--15994480	20	4.4	20	71	8	63	23	23	17	35	1.95
15995592--15995625	4	8.5	4	100	0	68	23	0	0	76	0.79
15996530--15996660	25	5.2	25	74	3	102	38	23	12	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15996523--15996661	50	2.8	50	86	0	179	38	24	12	24	1.91
15996575--15996681	25	4.5	22	69	23	58	37	27	13	22	1.91
16001640--16001696	27	2.1	27	90	3	89	45	19	17	17	1.86
16006006--16006044	20	2.0	20	100	0	78	23	41	5	30	1.76
16026374--16026597	42	5.3	41	75	10	168	36	25	14	23	1.93
16026370--16026633	85	3.1	84	86	3	370	38	25	13	22	1.91
16026404--16026639	43	5.5	42	71	15	171	37	25	13	22	1.91
16029904--16029985	42	2.0	42	85	4	112	29	24	15	30	1.96
16032484--16032624	43	3.3	43	72	7	137	34	24	19	21	1.96
16033011--16033069	30	2.0	30	82	0	73	32	23	5	38	1.77
16040107--16040133	13	2.1	13	100	0	54	7	25	29	37	1.83
16041208--16041234	12	2.2	12	100	0	54	14	22	33	29	1.94
16042087--16042126	21	2.0	21	85	5	55	27	22	12	37	1.90
16045315--16045341	14	1.9	14	100	0	54	29	0	25	44	1.54
16055539--16055907	103	3.6	103	87	1	488	31	28	20	18	1.97
16063754--16063872	50	2.4	51	82	2	125	26	23	18	31	1.97
16063792--16063871	25	3.2	25	67	22	60	26	26	16	31	1.96
16074033--16074069	19	2.0	19	89	5	58	54	0	18	27	1.44
16074107--16074158	27	1.9	27	84	7	70	53	3	9	32	1.51
16075601--16075642	22	1.9	22	85	9	59	7	19	2	71	1.20
16075945--16075983	20	2.0	21	85	10	55	35	0	2	61	1.10
16077642--16077674	15	2.3	15	89	5	50	57	0	12	30	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16077728--16077771	18	2.4	18	88	11	63	15	6	4	72	1.22
16077728--16077773	17	2.5	18	82	13	58	17	6	4	71	1.24
16081893--16081917	9	2.8	9	100	0	50	24	32	8	36	1.84
16090579--16090634	19	2.9	19	94	0	103	37	16	8	37	1.80
16090556--16090634	38	2.0	40	87	9	117	39	16	7	36	1.77
16090572--16090643	38	2.0	36	86	10	103	37	15	9	37	1.80
16094062--16094119	3	19.3	3	100	0	116	67	0	0	32	0.91
16097581--16097610	16	1.9	15	93	6	51	20	6	0	73	1.05
16102580--16102627	2	24.0	2	100	0	96	50	50	0	0	1.00
16103305--16103336	5	6.4	5	100	0	64	40	0	0	59	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