genome.fa.s1.2.7.7.80.10.50.1000.8.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  8  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)
4267088--4267138	26	1.9	27	84	11	70	45	11	13	29	1.79
4267145--4267194	24	2.1	23	82	10	57	46	10	12	32	1.74
4267088--4267279	82	2.3	82	83	1	233	43	8	12	35	1.74
4267088--4267305	82	2.7	80	80	7	215	42	9	12	35	1.75
4267252--4267333	29	2.9	29	79	1	76	36	10	13	39	1.80
4272038--4272099	31	2.0	31	93	0	106	33	8	4	53	1.52
4298584--4298628	23	1.9	23	86	4	63	37	15	8	37	1.79
4298596--4298639	23	1.9	23	90	0	70	36	13	11	38	1.81
4314263--4314303	20	2.0	20	90	0	64	34	2	12	51	1.52
4315099--4315152	17	3.2	16	76	7	54	7	12	7	72	1.28
4317693--4317802	57	1.9	56	87	1	157	38	15	12	33	1.85
4321997--4322077	36	2.4	34	79	10	94	34	29	9	25	1.88
4322702--4322753	22	2.4	22	87	3	70	46	15	3	34	1.64
4322796--4322861	21	3.1	21	84	4	87	51	15	4	28	1.63
4322808--4322868	22	2.9	21	85	4	86	52	16	1	29	1.53
4326191--4326265	25	3.0	25	94	0	123	18	34	6	40	1.77
4326201--4326284	25	3.4	25	88	3	89	21	40	4	33	1.74
4327685--4327726	17	2.5	17	81	11	52	2	21	2	73	1.06
4327700--4327766	7	9.9	7	74	18	52	1	22	2	73	1.06
4328293--4328358	6	11.2	6	71	19	50	1	19	0	78	0.82
4335892--4336030	69	2.0	69	88	2	208	42	9	8	39	1.68
4344000--4344078	21	3.7	21	81	1	77	21	10	24	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4344050--4344123	22	3.3	22	79	7	78	28	12	20	39	1.88
4344116--4344174	23	2.6	23	80	0	73	27	13	23	35	1.92
4352653--4352753	9	11.4	9	81	13	95	21	0	0	78	0.76
4352676--4352739	4	15.5	4	82	14	69	25	0	0	75	0.81
4352654--4352761	28	3.8	28	85	7	121	23	0	0	76	0.78
4364082--4364113	2	16.0	2	100	0	64	0	50	0	50	1.00
4366861--4366915	25	2.2	24	80	3	65	1	43	1	52	1.22
4367521--4367553	13	2.5	13	90	9	50	6	30	0	63	1.18
4369721--4369887	7	23.4	7	67	18	60	65	0	3	30	1.14
4369733--4369841	50	2.2	49	78	8	112	65	0	4	29	1.19
4369727--4369833	55	1.9	56	84	7	146	64	0	4	29	1.20
4369723--4369880	29	5.4	29	73	14	94	65	0	3	30	1.15
4369744--4369847	55	1.9	55	82	7	131	66	0	3	28	1.16
4369821--4369928	42	2.6	41	77	2	117	62	0	3	33	1.12
4369867--4370066	100	2.0	99	99	0	391	56	2	8	33	1.40
4370190--4370244	15	3.7	15	75	0	56	36	9	3	50	1.51
4370826--4370858	15	2.1	16	88	5	50	48	0	0	51	1.00
4371086--4371164	24	3.0	24	70	21	68	41	15	12	30	1.84
4371043--4371174	55	2.4	55	87	2	185	44	14	10	30	1.79
4371175--4371272	29	3.3	29	78	7	92	39	14	11	34	1.81
4385983--4386063	3	25.0	3	74	20	58	28	3	0	67	1.07
4385987--4386060	7	11.0	7	79	16	77	27	4	0	68	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4386015--4386063	19	2.6	18	87	9	71	28	2	0	69	1.00
4389560--4389584	3	8.3	3	100	0	50	36	0	0	64	0.94
4390326--4390375	25	2.0	25	96	0	91	50	0	2	48	1.12
4391530--4391560	16	1.9	16	93	0	53	54	0	0	45	0.99
4391586--4391618	8	4.0	8	92	7	57	36	3	0	60	1.12
4391586--4391618	17	2.0	16	94	5	57	36	3	0	60	1.12
4394549--4394608	15	4.2	15	71	18	56	51	1	0	46	1.10
4394974--4395032	15	3.5	17	71	21	52	55	0	0	44	0.99
4394911--4394997	41	2.0	43	84	6	115	42	2	0	55	1.12
4395546--4395818	139	2.0	139	85	2	370	23	18	24	33	1.97
4400960--4401107	45	3.3	44	80	3	170	30	19	18	31	1.96
4401094--4401221	45	2.8	45	84	2	159	33	15	14	35	1.89
4401070--4401222	24	6.6	24	66	17	81	32	15	15	37	1.88
4403228--4403332	51	2.1	51	96	3	194	41	13	19	25	1.87
4406832--4406919	29	3.0	29	79	0	95	44	6	27	21	1.77
4407131--4407245	35	3.3	33	76	9	104	22	9	21	46	1.80
4407545--4407601	24	2.4	24	81	0	78	42	17	10	29	1.83
4407564--4407723	45	3.6	45	78	8	173	35	15	17	31	1.91
4407496--4407635	69	2.0	70	81	1	165	36	16	15	32	1.90
4407758--4407802	21	2.1	21	87	0	63	26	13	24	35	1.92
4407686--4407869	90	2.0	90	84	2	235	36	14	16	32	1.90
4411337--4411361	3	8.3	3	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4416526--4416567	21	2.0	20	90	4	66	38	7	21	33	1.81
4424116--4424157	21	2.0	21	85	0	57	45	26	4	23	1.73
4424182--4424259	22	3.6	21	76	10	77	50	20	1	28	1.56
4424533--4424567	17	2.1	17	88	0	52	34	2	17	45	1.63
4433119--4433160	14	2.9	15	82	13	52	47	4	4	42	1.45
4452207--4452392	91	2.0	91	84	6	243	50	3	10	35	1.55
4462143--4462190	20	2.4	21	86	6	64	66	0	0	33	0.92
4462134--4462190	18	3.1	18	78	14	62	68	0	0	31	0.90
4462285--4462338	17	3.1	17	75	17	56	29	3	1	64	1.21
4468433--4468470	18	2.1	18	100	0	76	26	23	15	34	1.95
4473876--4473902	2	13.5	2	100	0	54	48	0	0	51	1.00
4473976--4474001	2	13.0	2	100	0	52	50	0	0	50	1.00
4479125--4479174	25	2.0	27	88	11	79	62	16	10	12	1.55
4479781--4479858	31	2.5	31	79	6	79	26	17	32	23	1.97
4480297--4480506	108	1.9	108	95	0	375	37	17	3	41	1.67
4513627--4513659	15	2.2	15	100	0	66	60	15	6	18	1.54
4521142--4521184	18	2.4	19	80	11	54	55	0	4	39	1.20
4530602--4530631	6	5.0	6	100	0	60	66	0	33	0	0.92
4530602--4530640	18	2.2	18	86	9	53	66	0	30	2	1.05
4546077--4546107	2	15.5	2	100	0	62	48	0	51	0	1.00
4546145--4546175	2	15.5	2	100	0	62	48	0	51	0	1.00
4546044--4546175	68	2.0	67	100	0	255	39	6	33	19	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4550430--4550456	2	13.5	2	100	0	54	51	0	0	48	1.00
4552916--4552962	20	2.4	20	85	3	60	29	2	4	63	1.25
4553039--4553078	10	4.3	9	84	15	55	50	0	2	47	1.14
4553034--4553090	20	2.8	20	82	15	64	45	0	3	50	1.18
4553042--4553087	15	3.2	15	78	6	51	47	0	4	47	1.21
4561370--4561475	46	2.3	46	96	0	194	13	20	22	43	1.86
4577472--4577515	22	2.0	22	81	0	52	54	2	18	25	1.55
4579716--4579756	17	2.2	20	84	16	54	31	12	2	53	1.51
4586938--4587437	231	2.2	230	80	5	528	37	12	28	22	1.91
4598825--4598852	14	2.0	14	100	0	56	42	7	14	35	1.73
4609365--4609391	14	1.9	14	100	0	54	44	7	14	33	1.73
4620870--4620922	26	2.0	26	100	0	106	33	22	15	28	1.94
4621034--4621241	104	2.0	104	92	0	344	35	18	20	26	1.95
4622289--4622337	7	6.7	7	84	9	62	53	2	0	44	1.12
4622289--4622337	15	3.4	14	83	8	62	53	2	0	44	1.12
4635041--4635103	23	2.8	22	78	2	63	60	4	3	31	1.33
4635846--4635909	25	2.6	25	90	2	94	20	21	14	43	1.87
4636617--4636654	15	2.5	15	84	16	51	55	2	0	42	1.14
4639520--4639564	22	2.1	23	88	12	69	62	8	0	28	1.25
4647690--4647718	2	14.5	2	100	0	58	48	0	0	51	1.00
4657131--4657161	16	2.0	15	100	0	53	45	51	0	0	1.01
4675114--4675189	28	2.7	28	83	6	100	30	1	27	40	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4686449--4686517	25	2.8	24	80	10	68	63	0	0	36	0.94
4686477--4686535	27	2.1	29	87	6	86	62	0	0	37	0.95
4686514--4686556	17	2.5	18	77	7	54	55	0	0	44	0.99
4690827--4690851	8	3.1	8	100	0	50	88	0	12	0	0.53
4693067--4693121	26	2.2	25	84	12	69	41	1	1	54	1.21
4694826--4694922	50	1.9	50	93	0	167	30	9	3	56	1.46
4711081--4711114	2	18.0	2	88	11	54	52	0	0	47	1.00
4711081--4711114	9	3.9	9	96	3	61	52	0	0	47	1.00
4721481--4721529	2	24.5	2	87	0	62	40	0	53	6	1.26
4729596--4730157	277	2.0	279	87	2	806	32	17	20	29	1.95

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