genome.fa.s1.2.7.7.80.10.50.1000.9.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:  37323695

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   

This is table  9  of  93  ( 11113 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)
4734338--4734430	46	2.0	46	85	4	125	50	18	11	19	1.77
4736561--4736590	7	4.3	7	95	0	51	13	33	43	10	1.77
4739792--4739872	39	2.1	39	95	0	144	25	7	22	44	1.79
4753874--4753906	16	2.1	15	94	5	57	12	15	0	72	1.12
4753966--4754022	18	3.2	18	71	0	60	19	17	24	38	1.93
4754031--4754130	26	3.9	26	70	8	80	35	12	12	41	1.79
4754040--4754137	51	1.9	51	87	0	142	38	10	12	38	1.77
4754238--4754397	53	2.9	54	80	4	169	26	14	16	42	1.87
4756787--4756817	2	15.5	2	93	0	53	51	3	0	45	1.17
4763646--4763691	2	23.0	2	95	0	83	47	0	0	52	1.00
4766058--4766087	8	3.8	8	100	0	60	76	13	10	0	1.01
4779314--4779437	59	2.1	59	95	0	221	40	12	12	33	1.82
4782014--4782123	55	2.0	54	82	8	134	44	2	1	50	1.26
4790436--4790467	16	2.0	16	93	0	55	46	0	0	53	1.00
4796813--4796851	20	2.0	20	84	0	51	41	12	2	43	1.56
4799973--4800019	24	2.0	24	95	0	85	19	57	2	21	1.51
4801252--4801332	36	2.3	35	81	12	94	40	11	13	34	1.80
4809254--4809306	22	2.4	22	74	0	52	22	7	18	50	1.72
4809270--4809329	22	2.7	22	84	5	68	20	3	25	51	1.62
4809505--4809591	22	4.0	22	80	5	104	47	17	8	27	1.75
4809505--4809613	44	2.5	44	83	5	123	45	17	8	28	1.77
4809562--4809634	22	3.3	22	74	11	60	45	16	8	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4818093--4818157	12	5.1	12	73	14	58	3	18	3	75	1.07
4818142--4818294	75	2.0	75	97	2	290	27	16	9	45	1.78
4822842--4822941	22	4.5	22	82	0	101	31	12	11	46	1.76
4822858--4823008	22	6.8	22	71	8	63	29	9	15	44	1.79
4823059--4823098	21	1.9	21	100	0	80	50	30	5	15	1.65
4825548--4825617	36	1.9	36	85	5	97	47	5	10	37	1.61
4825567--4825655	37	2.4	36	80	7	99	50	5	6	37	1.52
4830832--4830887	28	2.0	28	86	6	78	57	1	0	41	1.09
4830983--4831180	28	7.2	28	69	17	112	56	1	1	41	1.15
4830736--4831180	161	2.7	159	82	9	499	53	2	2	40	1.28
4831079--4831165	36	2.2	40	82	9	101	50	0	1	48	1.08
4830988--4831291	137	2.2	137	83	9	395	56	1	0	40	1.17
4831116--4831165	18	2.8	17	77	19	57	54	0	0	46	1.00
4831117--4831177	29	2.1	29	85	8	81	57	0	0	42	0.98
4831165--4831197	16	2.1	16	94	5	59	66	0	0	33	0.92
4831218--4831282	20	3.2	20	68	18	53	52	1	1	44	1.19
4831216--4831316	42	2.3	43	81	9	109	57	0	0	40	1.12
4833257--4833887	335	1.9	338	79	7	730	40	9	12	38	1.75
4845072--4845172	51	2.0	51	92	0	166	59	9	19	10	1.59
4845072--4845151	26	3.1	26	63	22	69	58	7	22	11	1.57
4881514--4881541	2	14.0	2	100	0	56	50	0	0	50	1.00
4882656--4882695	19	2.0	20	85	4	55	45	27	12	15	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4883006--4883044	20	2.0	20	85	10	53	46	17	5	30	1.70
4891776--4891801	10	2.6	10	100	0	52	0	42	7	50	1.31
4896610--4896649	2	20.0	2	89	0	62	45	0	5	50	1.23
4897859--4897922	29	2.2	30	81	13	80	45	1	1	51	1.20
4897913--4897947	11	3.2	11	92	8	54	34	0	0	65	0.93
4898443--4898487	23	2.0	23	86	0	63	26	31	13	28	1.94
4898440--4898495	23	2.4	23	78	3	58	28	32	12	26	1.93
4898519--4898576	22	2.6	22	86	0	71	48	13	12	25	1.77
4898726--4898769	19	2.2	21	84	8	56	54	22	4	18	1.61
4920819--4920844	2	13.0	2	100	0	52	50	0	0	50	1.00
4938800--4938847	2	26.0	2	76	16	50	41	0	58	0	0.98
4941366--4941392	4	6.8	4	100	0	54	51	22	0	25	1.48
4945778--4945802	2	12.5	2	100	0	50	52	0	48	0	1.00
4949432--4949492	2	30.0	2	80	3	68	54	3	1	40	1.27
4950682--4950708	2	13.5	2	100	0	54	51	0	0	48	1.00
4955827--4955861	2	18.0	2	94	5	63	51	0	0	48	1.00
4956670--4956697	3	9.3	3	100	0	56	35	32	0	32	1.58
4971341--4971369	2	14.5	2	100	0	58	0	0	51	48	1.00
4979516--4979541	4	6.5	4	100	0	52	73	0	26	0	0.84
4982820--4982875	11	5.0	11	75	2	58	82	1	10	5	0.91
4988669--4988716	24	2.0	24	83	0	60	16	14	31	37	1.89
5015272--5015303	2	16.0	2	100	0	64	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5015361--5015390	2	15.0	2	100	0	60	50	0	50	0	1.00
5025889--5025958	31	2.2	32	80	14	83	21	12	25	40	1.89
5026620--5026696	40	1.9	40	89	0	118	44	10	10	35	1.73
5032602--5032699	33	3.0	33	83	3	117	34	12	32	20	1.90
5037467--5037665	98	2.0	99	93	0	337	23	31	19	26	1.98
5039321--5039346	2	13.0	2	100	0	52	50	0	0	50	1.00
5040269--5040302	9	3.7	9	84	7	50	20	0	0	79	0.73
5041958--5041996	19	2.0	20	85	5	53	35	0	5	58	1.20
5043394--5043477	44	1.9	44	95	0	150	35	5	19	39	1.76
5043690--5043873	21	9.4	19	65	18	67	40	1	1	56	1.16
5044191--5044238	14	3.5	14	78	13	55	35	4	2	58	1.29
5044211--5044253	15	2.7	15	83	13	52	44	0	4	51	1.22
5044211--5044252	17	2.7	15	88	7	57	42	0	4	52	1.22
5044245--5044307	20	3.3	20	79	20	73	42	0	0	57	0.99
5044245--5044313	17	3.6	19	79	16	72	42	0	0	57	0.98
5048518--5048568	25	2.0	25	85	7	68	11	7	15	64	1.48
5048692--5048725	17	2.0	17	100	0	68	41	5	23	29	1.78
5049198--5049226	15	2.0	15	93	6	51	82	0	17	0	0.66
5051272--5051319	25	1.9	25	91	0	78	12	6	16	64	1.46
5052208--5052259	16	3.4	15	82	10	52	65	15	1	17	1.36
5056768--5056805	7	5.6	7	85	14	53	26	0	0	73	0.83
5056764--5056805	21	2.0	20	95	4	75	26	0	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5057137--5057182	17	2.6	18	86	6	67	28	0	0	71	0.86
5057143--5057224	15	5.6	14	72	20	53	23	2	0	74	0.94
5057141--5057224	18	4.7	17	75	18	64	23	2	0	73	0.94
5057227--5057259	5	6.4	5	96	3	57	57	0	0	42	0.98
5057843--5057921	37	2.2	36	90	2	122	7	43	13	35	1.73
5057837--5057944	36	2.9	36	80	4	108	7	43	13	35	1.73
5058159--5058209	10	5.4	9	78	17	50	27	0	0	72	0.85
5058165--5058211	10	5.0	9	80	16	51	31	0	0	68	0.90
5064206--5064296	45	2.0	45	97	0	173	50	12	23	14	1.76
5070256--5070303	23	2.1	23	88	0	69	39	0	12	47	1.41
5070895--5071385	220	2.2	215	81	10	591	40	6	4	47	1.52
5075502--5075549	10	5.3	9	79	18	55	47	18	12	20	1.81
5075486--5075550	18	3.6	18	89	0	94	49	20	10	20	1.78
5075495--5075542	8	5.5	8	79	18	51	52	22	10	14	1.72
5085642--5085854	106	2.0	106	95	0	381	26	14	20	38	1.91
5087976--5088000	2	12.5	2	100	0	50	0	48	0	52	1.00
5096744--5096813	31	2.2	32	92	5	115	67	0	12	20	1.23
5099077--5099121	22	2.0	22	83	8	56	46	0	0	53	1.00
5099983--5100008	7	3.7	7	100	0	52	88	0	0	11	0.52
5104313--5104350	2	19.0	2	100	0	76	50	0	0	50	1.00
5104674--5104733	24	2.4	26	76	18	65	48	0	0	51	1.00
5104931--5104964	10	3.3	10	88	8	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)
5111480--5111504	11	2.3	11	100	0	50	8	16	20	56	1.65
5115186--5115222	12	3.2	12	77	14	51	45	0	0	54	1.00
5116516--5116554	18	2.2	18	86	9	53	41	15	10	33	1.81
5116889--5116947	31	1.9	31	92	0	100	30	11	20	37	1.89
5122782--5122818	18	2.1	18	90	10	58	54	0	0	45	1.00
5130718--5130757	2	20.0	2	89	0	62	55	0	0	45	0.99
5130715--5130756	10	4.2	10	96	0	75	57	0	0	42	0.99
5132399--5132447	25	2.0	25	87	0	71	12	6	18	63	1.48
5141661--5141691	14	2.2	14	100	0	62	25	25	16	32	1.96
5147530--5147554	8	3.1	8	100	0	50	24	28	12	36	1.91

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