genome.fa.s6.2.7.7.80.10.50.1000.96.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  96  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)
30635189--30635386	83	2.4	83	89	1	299	14	25	26	33	1.94
30635332--30635428	41	2.4	41	80	0	104	15	25	24	34	1.95
30636277--30636307	16	1.9	16	93	0	53	19	0	51	29	1.47
30637321--30637359	16	2.6	15	84	11	53	23	35	5	35	1.77
30637581--30637648	33	2.1	33	94	0	118	32	2	29	35	1.73
30637888--30637925	17	2.2	17	90	0	58	13	36	10	39	1.79
30651186--30651228	22	1.9	23	90	4	70	44	23	20	11	1.84
30652508--30652547	20	2.1	19	86	13	55	2	7	17	72	1.19
30655164--30655215	24	2.2	24	89	0	77	55	9	1	32	1.43
30656901--30656952	24	2.2	24	89	0	77	55	9	1	32	1.43
30657892--30657943	24	2.2	24	85	0	68	48	9	3	38	1.54
30659489--30659525	17	2.2	17	90	0	56	16	5	0	78	0.93
30660793--30660844	24	2.2	24	89	0	77	50	9	3	36	1.54
30662108--30662148	20	2.0	20	95	0	73	34	12	4	48	1.62
30666099--30666367	49	5.5	49	100	0	538	24	20	18	36	1.95
30666346--30666476	50	2.6	49	79	3	136	23	28	21	26	1.99
30670688--30670721	17	2.0	17	88	0	50	50	11	20	17	1.77
30671520--30671639	41	2.9	41	87	0	150	27	20	25	27	1.99
30671919--30671943	13	1.9	13	100	0	50	24	8	20	48	1.76
30671955--30671984	2	15.0	2	100	0	60	50	0	0	50	1.00
30672990--30673041	24	2.2	24	89	0	77	50	9	3	36	1.54
30682694--30682721	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30684192--30684228	18	2.0	19	85	15	51	32	2	2	62	1.23
30684800--30684834	18	2.0	18	94	5	63	40	17	25	17	1.90
30691313--30691393	22	3.7	21	80	11	92	62	4	3	28	1.33
30691313--30691391	23	3.6	22	80	11	83	63	5	3	27	1.33
30691313--30691393	21	3.7	21	80	16	94	62	4	3	28	1.33
30711896--30711934	12	3.2	12	85	7	60	10	33	5	51	1.58
30742196--30742327	41	3.3	41	71	18	141	37	8	3	50	1.51
30742171--30742286	41	2.9	39	68	20	105	35	9	6	49	1.60
30742171--30742329	79	2.0	80	98	1	311	37	8	5	49	1.56
30742182--30742308	38	3.3	38	68	18	116	37	9	4	48	1.57
30759459--30759549	43	2.1	43	85	2	121	43	9	12	34	1.75
30762685--30762714	15	1.9	16	93	6	53	63	0	3	33	1.11
30763987--30764055	36	1.9	36	96	0	129	28	17	24	28	1.97
30767240--30767291	16	3.4	16	81	5	54	76	9	1	11	1.09
30768550--30768583	8	4.2	8	92	0	50	14	2	2	79	0.97
30782336--30782369	9	3.9	9	84	7	52	23	0	8	67	1.18
30782336--30782368	17	1.9	17	93	0	57	24	0	9	66	1.20
30784590--30784696	47	2.3	47	80	3	126	45	14	7	31	1.73
30786676--30786785	56	2.0	56	90	0	175	50	7	4	37	1.50
30786828--30786886	27	2.1	28	87	3	84	62	1	0	35	1.05
30787623--30787671	13	3.6	14	83	8	66	46	6	0	46	1.27
30789287--30789317	9	3.4	9	90	0	53	41	22	9	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30789420--30789454	18	1.9	18	100	0	70	8	0	51	40	1.33
30789421--30789468	23	2.1	23	88	0	69	10	2	45	41	1.50
30789991--30790072	30	2.7	31	85	5	89	54	7	2	35	1.41
30790007--30790072	30	2.2	30	91	2	105	59	4	3	33	1.33
30794523--30794552	14	2.1	14	100	0	60	70	6	0	23	1.11
30795068--30795300	111	2.1	111	98	0	448	41	11	18	28	1.86
30802740--30803187	151	3.0	150	89	2	727	27	18	24	29	1.98
30804331--30804427	51	1.9	51	82	4	124	29	18	14	37	1.91
30804641--30804695	28	2.0	27	82	13	67	25	34	10	29	1.90
30808986--30809045	30	2.0	31	86	3	86	40	0	40	20	1.52
30809490--30809527	20	1.9	20	100	0	76	42	10	10	36	1.74
30809502--30809569	34	2.0	34	82	5	84	45	8	10	35	1.69
30809579--30809706	18	7.2	18	68	9	75	45	9	13	32	1.75
30809577--30809706	35	3.7	35	77	4	136	44	9	13	33	1.75
30809812--30809853	21	2.0	20	86	13	59	38	9	16	35	1.81
30810205--30810253	11	4.5	11	75	14	57	0	18	0	81	0.69
30810205--30810253	19	2.6	18	84	9	62	0	18	0	81	0.69
30810395--30810445	13	3.6	14	84	12	61	1	7	9	80	0.98
30810549--30810640	6	14.5	6	81	10	69	1	25	0	73	0.89
30810549--30810593	8	5.8	8	82	12	58	0	20	0	80	0.72
30810555--30810591	17	2.2	17	90	9	58	0	18	0	81	0.70
30810585--30810639	3	17.3	3	85	10	74	1	29	0	69	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30810989--30811103	29	4.0	28	80	10	115	41	6	18	33	1.75
30811306--30811342	9	4.1	9	89	0	56	32	10	10	45	1.74
30813719--30813758	21	1.9	21	84	0	53	45	20	2	32	1.64
30815813--30815864	25	2.1	25	92	7	88	25	26	9	38	1.86
30820030--30820057	14	2.0	14	100	0	56	57	0	0	42	0.99
30820156--30820195	20	2.0	20	90	0	62	50	10	10	30	1.69
30820144--30820210	34	1.9	35	87	3	100	46	11	8	32	1.72
30820179--30820218	14	2.9	14	84	0	53	42	15	7	35	1.75
30821119--30821163	21	2.1	21	84	8	56	53	0	2	44	1.13
30829638--30829666	3	9.7	3	100	0	58	34	31	34	0	1.58
30831025--30831085	31	2.0	31	90	0	95	34	11	9	44	1.74
30831662--30831858	102	1.9	102	97	0	376	33	16	24	25	1.96
30835146--30835206	31	2.0	31	87	3	88	45	4	16	32	1.68
30843647--30843688	18	2.4	17	81	18	50	66	0	16	16	1.25
30845710--30845912	3	67.7	3	100	0	406	66	0	0	33	0.92
30846050--30846081	3	10.7	3	100	0	64	65	0	0	34	0.93
30845881--30846219	169	2.0	169	100	0	678	41	24	12	20	1.87
30848452--30848484	14	2.4	14	85	14	50	36	3	0	60	1.12
30851130--30851188	29	2.0	30	86	3	84	30	8	16	44	1.78
30853038--30853068	2	15.5	2	100	0	62	48	0	0	51	1.00
30860162--30860414	126	2.0	127	99	0	499	37	6	7	48	1.58
30867846--30868030	46	4.0	46	83	0	208	27	15	25	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30867862--30868030	92	1.8	92	84	2	232	27	14	26	32	1.94
30870998--30871033	13	2.8	13	86	0	54	33	8	36	22	1.84
30871924--30871954	16	1.9	16	93	0	53	6	19	0	74	1.03
30872099--30872153	27	2.0	27	100	0	110	34	18	14	32	1.91
30872841--30872900	25	2.5	24	76	12	61	50	1	0	48	1.11
30873686--30873712	2	13.5	2	100	0	54	51	0	0	48	1.00
30874125--30874176	19	2.7	19	79	11	61	38	0	3	57	1.17
30880194--30880220	7	3.9	7	100	0	54	44	0	25	29	1.54
30880492--30880540	11	4.0	11	78	21	53	57	0	0	42	0.99
30880497--30880553	26	2.2	25	90	3	87	57	1	0	40	1.09
30881432--30881716	146	2.0	146	100	0	570	22	18	12	46	1.83
30887316--30887433	58	2.0	58	98	0	227	29	11	17	40	1.86
30887687--30887725	17	2.2	18	90	4	62	41	17	10	30	1.83
30891989--30892097	42	2.6	43	85	1	139	27	18	22	32	1.97
30892651--30892808	48	3.3	48	90	0	244	23	14	17	44	1.85
30892651--30892780	25	5.3	26	65	14	80	23	14	16	44	1.85
30895548--30895593	21	2.1	21	92	8	74	63	0	0	36	0.95
30907086--30907171	28	3.1	27	74	15	86	25	6	1	66	1.24
30908809--30908885	14	5.0	15	71	20	52	42	14	9	33	1.77
30908825--30908864	20	2.0	20	90	0	62	50	12	10	27	1.72
30908813--30908879	34	1.9	35	90	3	109	46	13	8	31	1.74
30912697--30912735	19	2.1	19	100	0	78	23	30	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30919202--30919236	2	17.5	2	100	0	70	0	0	48	51	1.00
30922688--30922766	28	2.7	30	78	7	92	35	17	5	41	1.72
30923709--30923754	22	2.0	24	87	8	69	43	0	6	50	1.28
30924495--30924571	16	4.5	17	73	15	61	35	29	16	18	1.93
30932568--30932593	7	3.7	7	100	0	52	15	0	0	84	0.62
30938830--30938868	19	2.1	19	100	0	78	20	10	20	48	1.78
30942024--30942068	22	2.0	22	100	0	90	26	17	22	33	1.96
30948396--30948420	1	25.0	1	100	0	50	100	0	0	0	0.00
30949247--30949288	21	1.9	23	85	9	61	40	26	0	33	1.56
30951599--30951650	26	2.0	26	100	0	104	53	15	23	7	1.67

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