genome.fa.s6.2.7.7.80.10.50.1000.18.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  18  of  109  ( 13028 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)
5996495--5996558	33	1.9	33	84	12	87	26	4	1	67	1.19
5999330--5999361	15	2.1	15	100	0	64	37	12	0	50	1.41
6007857--6007977	56	2.2	56	95	2	219	17	5	28	47	1.70
6013712--6013755	17	2.6	17	82	3	63	70	0	27	2	0.99
6014464--6014513	22	2.3	22	82	10	66	14	24	18	44	1.86
6018255--6018332	24	3.3	23	70	22	56	34	3	1	60	1.23
6020475--6020503	15	2.0	15	93	6	51	3	20	0	75	0.94
6031637--6031672	16	2.1	17	90	10	56	55	0	0	44	0.99
6033717--6033754	20	1.9	20	88	0	58	52	0	10	36	1.36
6034615--6034840	42	5.4	42	98	0	434	38	8	25	27	1.84
6034933--6034983	18	2.8	18	79	11	50	39	19	19	21	1.93
6035882--6035940	23	2.6	22	81	5	64	25	16	20	37	1.93
6035978--6036023	25	1.9	25	82	8	60	32	13	17	36	1.88
6036954--6036992	19	2.1	19	85	4	53	46	15	0	38	1.46
6037453--6037511	31	1.9	30	89	3	91	32	20	0	47	1.50
6037613--6037779	25	6.9	25	85	6	202	34	16	27	21	1.95
6063668--6063710	20	2.2	20	95	0	77	48	0	11	39	1.40
6065051--6065097	2	23.5	2	100	0	94	0	0	48	51	1.00
6065684--6066590	453	2.0	453	98	0	1762	28	13	23	34	1.93
6067049--6067094	22	2.1	22	84	8	58	43	0	4	52	1.21
6067062--6067106	22	2.1	21	84	12	56	44	0	0	55	0.99
6072580--6072613	18	1.9	17	88	5	50	55	2	0	41	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6073182--6073231	10	5.1	10	75	4	57	30	6	12	52	1.62
6073177--6073231	20	2.8	19	86	5	83	30	7	10	50	1.64
6074356--6074389	17	2.1	17	88	5	52	35	2	11	50	1.54
6077986--6078017	2	16.0	2	100	0	64	50	0	0	50	1.00
6078628--6078712	31	2.8	30	77	5	82	40	12	11	35	1.80
6082046--6082153	57	1.9	57	90	0	171	22	25	14	37	1.92
6085137--6085167	2	15.5	2	100	0	62	51	0	0	48	1.00
6087461--6087495	2	17.5	2	100	0	70	51	0	0	48	1.00
6088505--6088557	21	2.5	21	84	0	61	32	33	9	24	1.87
6088840--6088883	22	2.0	23	86	4	63	54	4	6	34	1.47
6092850--6093266	227	1.8	225	84	3	568	46	18	8	26	1.76
6095868--6095917	16	2.8	18	73	14	50	46	0	2	52	1.12
6102738--6102777	20	2.0	21	85	9	57	40	0	2	57	1.12
6108112--6108172	27	2.3	26	83	13	79	50	1	1	45	1.21
6108524--6108581	30	2.0	29	93	3	98	58	8	3	29	1.44
6110999--6111031	13	2.4	14	85	10	50	42	24	9	24	1.83
6119392--6119422	15	2.0	16	93	6	55	29	6	6	58	1.48
6126929--6126955	2	13.5	2	100	0	54	48	0	0	51	1.00
6130422--6131201	418	1.9	418	100	0	1560	36	7	17	38	1.78
6131509--6131547	20	2.0	20	90	5	62	5	25	0	69	1.09
6134831--6135021	99	1.9	101	97	2	368	30	16	25	28	1.96
6149314--6149420	19	5.7	19	84	4	137	39	14	11	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6149314--6149420	56	1.9	56	88	0	160	39	14	11	34	1.82
6161646--6161695	23	2.3	21	90	10	82	40	18	6	36	1.75
6162059--6162175	51	2.3	51	96	0	216	28	24	13	33	1.93
6164677--6164748	32	2.2	33	82	7	85	44	1	2	51	1.24
6170047--6170086	3	13.3	3	100	0	80	67	0	0	32	0.91
6170380--6170430	26	1.9	27	88	4	77	50	11	0	37	1.39
6182077--6182109	16	2.0	17	88	5	50	45	9	0	45	1.35
6183094--6183162	25	2.7	25	80	13	70	52	2	2	42	1.31
6187852--6187902	18	2.8	18	88	5	68	50	0	0	49	1.00
6195979--6196025	24	2.0	24	91	0	76	31	17	31	19	1.94
6196076--6196144	26	2.7	25	82	10	70	34	20	26	18	1.96
6199278--6199452	85	2.0	86	98	1	343	46	16	3	34	1.63
6206979--6207350	185	2.0	185	98	1	728	25	17	16	40	1.90
6219654--6219755	21	4.9	21	70	10	66	19	20	15	44	1.87
6219628--6219783	42	3.8	41	72	10	120	17	21	16	45	1.85
6219754--6219798	21	2.2	21	88	7	67	8	20	22	48	1.76
6228041--6228076	18	2.0	18	89	10	56	11	13	0	75	1.06
6236846--6236995	21	6.8	22	88	4	205	90	0	9	0	0.45
6236846--6236993	40	3.7	40	88	3	197	91	0	8	0	0.43
6236847--6236999	44	3.2	45	85	9	191	90	0	9	0	0.46
6236846--6236971	1	126.0	1	87	0	180	93	0	6	0	0.34
6236847--6236999	38	4.1	39	88	8	196	90	0	9	0	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6237881--6238585	44	15.8	44	72	13	399	30	19	20	29	1.97
6237881--6238091	86	2.4	88	81	3	257	31	19	19	29	1.96
6238055--6238679	226	2.8	226	96	0	1151	30	19	20	29	1.97
6240245--6240285	20	2.0	20	85	0	55	34	2	2	60	1.23
6242293--6242565	134	2.0	134	97	0	519	35	11	19	33	1.87
6243949--6244391	219	2.0	219	98	0	850	39	11	20	27	1.87
6244478--6244914	216	2.0	216	98	0	838	31	14	21	31	1.94
6246746--6246771	1	26.0	1	100	0	52	0	0	0	100	0.00
6251600--6251654	3	18.3	3	80	14	60	61	1	5	30	1.29
6255453--6255513	21	2.9	21	95	0	113	45	18	26	9	1.80
6262054--6262132	20	3.5	22	70	25	67	46	6	17	29	1.73
6262074--6262132	27	2.2	27	82	11	68	49	6	16	27	1.71
6263777--6263814	16	2.3	17	90	4	60	34	2	0	63	1.09
6264699--6264753	28	1.9	29	81	3	67	41	5	1	50	1.36
6264697--6264760	29	2.2	29	77	5	67	43	4	1	50	1.32
6264709--6265520	405	2.0	407	99	0	1610	38	12	8	41	1.72
6272843--6272922	42	1.9	42	81	0	97	16	5	38	40	1.70
6275032--6275077	20	2.3	21	82	14	62	28	2	4	65	1.23
6280590--6280624	18	1.9	18	94	0	61	40	0	2	57	1.14
6280595--6280636	18	2.3	19	84	8	52	45	0	0	54	0.99
6282304--6282334	15	2.1	15	93	0	53	83	6	9	0	0.79
6282956--6283017	30	2.1	29	87	3	88	59	3	8	29	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6282956--6283041	15	5.6	14	72	15	55	59	4	6	29	1.44
6283487--6283623	41	3.4	41	77	8	145	43	15	24	16	1.87
6285181--6285325	43	3.4	43	68	11	116	29	20	19	31	1.97
6285378--6285438	32	1.9	32	100	0	122	36	18	9	36	1.84
6287091--6287212	37	3.1	40	74	9	126	28	17	20	33	1.95
6289164--6289235	30	2.3	31	75	17	78	38	5	5	50	1.49
6291451--6291559	3	36.3	3	83	3	130	60	1	5	32	1.30
6292731--6292763	13	2.6	13	90	4	50	15	0	36	48	1.45
6292739--6292782	13	3.3	13	83	3	52	13	2	36	47	1.56
6293106--6293209	51	2.0	51	84	0	136	44	17	8	29	1.78
6293855--6293905	18	2.8	18	84	0	75	45	21	7	25	1.79
6293855--6293935	36	2.2	36	82	4	92	45	22	7	24	1.77
6298608--6298653	24	1.9	24	100	0	92	13	47	4	34	1.62
6299130--6300304	586	2.0	586	97	0	2242	33	18	14	33	1.91
6302655--6302697	18	2.4	18	80	7	52	55	0	2	41	1.12
6303096--6303154	29	2.0	30	86	3	84	33	8	15	42	1.77
6303084--6303275	90	2.1	90	83	2	242	33	10	12	43	1.77
6310981--6311134	41	3.8	41	88	1	229	19	22	32	25	1.97
6311334--6311510	88	2.0	88	96	0	327	36	1	14	48	1.51
6311473--6311503	14	2.2	14	94	0	53	29	0	22	48	1.51
6311553--6311585	14	2.3	15	94	5	59	30	0	33	36	1.58
6311605--6311648	14	3.1	14	76	0	52	25	0	36	38	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6311845--6311932	14	6.1	14	70	9	61	25	1	37	36	1.63
6311849--6311941	29	3.2	29	74	8	91	22	1	38	37	1.62
6312289--6312420	15	7.5	15	70	29	77	54	0	2	43	1.12
6312287--6312463	35	4.9	35	71	23	120	53	0	3	42	1.17
6312275--6312469	58	3.5	57	88	9	303	54	0	3	42	1.16
6312330--6312438	16	6.2	16	72	26	64	54	0	2	43	1.15
6312282--6312448	51	3.1	51	86	12	246	53	0	3	43	1.18
6316641--6316723	43	1.9	43	87	0	121	32	8	12	46	1.71
6316997--6317219	43	5.3	42	82	3	286	26	15	28	28	1.96
6317011--6317249	43	5.6	43	81	4	277	25	16	29	28	1.97

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