genome.fa.s2.2.7.7.80.10.50.1000.30.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: Chr10
Parameters: 2 7 7 80 10 50 1000
Length:  48586650

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   

This is table  30  of  145  ( 17348 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)
9658885--9658941	6	9.2	6	78	14	53	73	5	5	15	1.19
9660071--9660115	12	3.8	12	84	0	63	31	2	15	51	1.56
9660064--9660122	24	2.5	24	86	5	77	28	1	16	52	1.54
9660256--9660309	15	3.1	18	74	17	60	57	1	0	40	1.09
9660310--9660389	9	8.9	9	70	15	58	37	1	16	45	1.55
9660342--9660372	16	1.9	16	100	0	62	32	0	22	45	1.53
9663214--9663248	7	5.1	7	86	6	54	45	42	0	11	1.40
9663216--9663240	13	1.9	13	100	0	50	48	44	0	8	1.32
9663995--9664247	74	3.4	73	84	1	326	27	23	22	26	2.00
9664155--9664362	115	1.8	116	86	2	303	29	25	19	25	1.98
9664262--9664430	74	2.3	74	84	4	218	27	24	19	28	1.99
9664081--9664548	187	2.5	187	86	4	638	27	25	21	26	1.99
9664332--9664769	114	3.9	113	88	3	639	24	26	22	26	2.00
9671728--9671771	23	1.9	23	86	9	63	36	13	11	38	1.81
9675171--9675219	25	2.0	24	92	4	80	61	2	0	36	1.08
9675435--9675975	269	2.0	270	99	0	1075	35	13	15	34	1.88
9676419--9676461	16	2.5	17	88	7	61	51	0	0	48	1.00
9677709--9677757	25	2.0	24	92	4	80	61	2	0	36	1.08
9681908--9681940	2	16.5	2	100	0	66	48	0	0	51	1.00
9683184--9683241	23	2.5	23	82	2	71	51	1	3	43	1.28
9683238--9683314	38	2.0	39	97	2	147	44	14	7	33	1.74
9684257--9684302	22	2.2	20	84	11	56	43	0	6	50	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9685099--9685129	2	15.5	2	100	0	62	48	0	0	51	1.00
9705070--9705347	40	6.9	40	81	0	304	19	28	16	35	1.94
9705070--9705347	120	2.3	120	82	0	340	19	28	16	35	1.94
9717493--9717659	33	5.1	33	80	5	178	21	46	4	27	1.69
9717493--9717659	66	2.5	65	84	2	201	21	46	4	27	1.69
9717648--9717729	42	2.0	42	85	4	112	37	30	3	28	1.74
9734846--9734876	6	5.0	6	92	7	53	48	16	16	19	1.81
9740843--9740881	21	1.9	19	85	10	51	61	5	5	28	1.39
9744989--9745030	21	2.0	21	85	0	57	35	0	26	38	1.57
9747813--9747891	39	2.0	39	100	0	158	43	10	17	29	1.82
9765681--9765864	9	20.1	9	67	18	87	31	2	18	47	1.63
9765670--9765832	25	6.2	25	73	12	123	29	3	19	47	1.64
9765741--9765806	34	1.9	34	87	0	96	31	3	18	46	1.64
9766612--9766782	47	3.8	47	76	14	214	43	3	15	36	1.64
9767435--9767483	19	2.9	16	77	16	62	38	18	12	30	1.87
9769370--9769452	21	4.2	21	72	18	70	39	36	4	19	1.73
9769338--9769452	59	1.9	59	84	3	151	37	38	3	20	1.70
9770540--9770638	7	13.7	7	70	16	60	41	39	1	18	1.57
9770851--9771423	114	5.0	112	80	7	505	26	25	23	24	2.00
9770859--9771405	228	2.4	227	80	5	577	26	25	23	24	2.00
9772560--9772654	44	2.2	44	84	0	118	35	14	28	21	1.93
9772560--9772654	22	4.3	23	78	9	90	35	14	28	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9790161--9790427	43	6.2	43	80	1	203	38	19	17	23	1.93
9793139--9793205	35	1.9	35	87	6	100	40	34	10	14	1.81
9805414--9805480	35	1.9	35	90	0	107	49	4	8	37	1.55
9810305--9810383	23	3.4	23	75	0	77	30	15	22	31	1.95
9810311--9810422	46	2.6	41	83	10	129	33	15	21	30	1.94
9810608--9810653	22	2.1	22	91	0	74	32	26	17	23	1.97
9812549--9812636	30	3.0	30	81	1	115	25	15	21	37	1.93
9825809--9825854	22	2.1	22	100	0	92	26	30	13	30	1.93
9826149--9826225	32	2.4	32	80	4	93	24	24	6	44	1.77
9851988--9852073	27	3.3	26	79	6	102	41	34	4	18	1.71
9865135--9865221	25	3.5	25	87	1	122	34	21	21	21	1.97
9865155--9865240	25	3.4	25	88	3	102	34	19	20	24	1.96
9868307--9868417	27	4.1	27	84	0	132	35	16	24	24	1.95
9873877--9874041	54	3.1	54	83	1	206	38	16	19	25	1.92
9873885--9874043	27	5.9	27	84	0	183	35	16	20	26	1.94
9878605--9878634	15	2.0	15	93	0	51	63	0	0	36	0.95
9880355--9880461	43	2.3	47	75	21	116	47	0	0	51	1.07
9880403--9880442	12	3.3	12	86	10	55	47	0	0	52	1.00
9880398--9880467	22	3.3	22	67	16	58	52	0	0	47	1.00
9881210--9881243	14	2.4	14	90	0	50	58	20	2	17	1.51
9882890--9882914	11	2.3	11	100	0	50	56	8	0	36	1.29
9883622--9883683	25	2.4	25	78	7	63	4	24	4	66	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9883662--9883692	16	1.9	16	100	0	62	9	12	12	64	1.50
9883714--9883792	27	2.8	31	74	20	82	49	2	2	45	1.29
9884111--9884145	13	2.6	14	81	9	54	48	14	17	20	1.81
9885341--9885382	3	14.0	3	94	0	75	69	0	30	0	0.89
9885381--9885406	3	8.7	3	100	0	52	34	0	34	30	1.58
9888953--9889012	15	4.0	15	86	0	93	41	23	6	28	1.79
9888957--9889022	30	2.2	30	89	5	98	45	22	7	24	1.78
9889578--9889619	16	2.6	16	84	0	57	50	19	2	28	1.60
9890008--9890067	21	2.9	21	89	0	93	31	26	15	26	1.95
9890104--9890173	31	2.3	31	80	7	81	22	8	21	47	1.78
9893865--9893999	31	4.4	30	69	17	91	25	18	11	43	1.84
9893898--9894008	60	1.9	60	83	3	145	22	18	13	45	1.85
9895654--9895705	26	2.0	27	84	3	70	75	1	1	21	1.00
9896316--9896356	21	2.0	21	95	0	73	34	0	0	65	0.93
9896316--9896383	21	3.3	21	76	17	63	33	2	0	63	1.10
9901641--9901783	49	2.9	49	81	9	130	38	21	22	17	1.93
9901647--9901783	25	5.6	24	75	9	91	37	21	22	17	1.94
9901670--9901783	24	4.7	24	76	11	106	38	21	24	15	1.92
9903090--9903130	17	2.4	17	100	0	82	24	24	4	46	1.72
9914305--9914333	12	2.3	13	94	5	51	17	0	6	75	1.01
9933920--9933971	28	1.9	27	84	7	70	38	19	0	42	1.51
9934132--9934256	57	2.2	57	87	9	175	28	20	6	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9942261--9942446	92	2.0	93	98	1	365	23	12	18	45	1.83
9943220--9943259	15	2.5	17	84	15	59	2	20	0	77	0.88
9945414--9945469	25	2.2	24	77	22	62	60	0	1	37	1.07
9949648--9949677	16	1.9	16	93	6	53	80	0	0	20	0.72
9950336--9950372	20	1.9	18	89	10	56	54	8	0	37	1.30
9954640--9954727	44	2.0	44	86	0	122	25	25	11	38	1.89
9956018--9956107	41	2.2	40	96	2	162	24	12	14	48	1.78
9958590--9958639	24	2.1	24	100	0	100	40	16	8	36	1.77
9961364--9961394	13	2.5	13	94	5	55	16	0	0	83	0.64
9961364--9961394	6	5.0	6	92	7	53	16	0	0	83	0.64
9963310--9963338	8	3.6	8	100	0	58	44	0	0	55	0.99
9964754--9964779	9	2.9	9	100	0	52	42	0	0	57	0.98
9965500--9965540	20	2.1	19	86	4	55	2	17	4	75	1.08
9965520--9965563	17	2.5	18	88	3	63	2	20	4	72	1.13
9966544--9966577	15	2.3	15	90	10	52	20	0	2	76	0.92
9974383--9974468	43	2.0	43	97	0	163	38	6	22	32	1.81
9974668--9974724	10	6.0	10	75	17	50	36	0	5	57	1.21
9974669--9974727	9	6.2	9	79	15	57	37	0	5	57	1.21
9974676--9974737	19	3.3	19	77	20	58	38	0	3	58	1.15
9980500--9980635	65	2.2	62	85	7	179	28	0	21	50	1.49
9980714--9980800	29	3.0	30	74	5	88	35	6	22	34	1.81
9982063--9982376	41	7.6	41	87	3	391	18	21	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9982063--9982376	83	3.8	82	83	3	382	18	21	28	32	1.96
9982063--9982371	124	2.5	123	84	3	386	18	20	28	33	1.96
9982853--9982913	29	2.1	29	81	6	70	26	1	36	36	1.66
9985151--9985192	12	3.7	11	87	12	59	73	0	0	26	0.83
9985151--9985185	4	8.8	4	87	12	54	74	0	0	25	0.82
9987371--9987407	9	4.1	9	85	0	56	48	13	8	29	1.71
9990272--9990358	43	2.0	43	86	4	122	34	11	10	43	1.75
9990631--9990828	43	4.6	43	85	0	236	26	15	30	27	1.96
9990625--9990848	86	2.6	85	79	0	259	25	16	29	28	1.97
9991884--9991955	30	2.4	31	80	17	89	65	0	0	34	0.93

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