genome.fa.s1.2.7.7.80.10.50.1000.40.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  40  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)
15421522--15421557	3	12.3	3	88	5	56	36	0	0	63	0.94
15425376--15425435	31	1.9	31	83	6	77	10	35	0	55	1.34
15428533--15428603	23	3.1	23	70	8	72	40	2	2	53	1.30
15428641--15428734	45	2.1	45	83	0	116	44	5	5	44	1.49
15438761--15438808	22	2.2	22	92	0	78	35	12	25	27	1.92
15440215--15440785	42	13.7	42	65	22	212	44	7	8	39	1.63
15440213--15440427	86	2.5	86	86	0	313	45	7	7	39	1.61
15440324--15440536	110	2.0	108	85	2	293	45	7	7	39	1.61
15440243--15440622	195	2.0	194	88	1	564	44	7	7	39	1.62
15440438--15440785	86	4.0	86	92	2	565	44	8	8	39	1.63
15442224--15442287	27	2.5	26	80	11	71	34	6	10	48	1.64
15449530--15449561	15	2.1	15	100	0	64	56	12	12	18	1.67
15452502--15452569	35	2.0	34	91	2	109	29	14	25	30	1.95
15455903--15456034	66	2.0	66	96	0	246	33	23	14	28	1.94
15455921--15456029	34	3.2	36	67	24	108	33	23	14	28	1.94
15461031--15461137	50	2.1	50	100	0	214	24	13	28	33	1.93
15472733--15472765	16	2.0	17	88	5	50	63	0	30	6	1.18
15472729--15472757	13	2.3	13	94	5	51	65	0	31	3	1.09
15475230--15475272	15	2.9	14	80	13	50	0	69	2	27	1.00
15481713--15481745	16	2.0	17	94	5	59	36	6	0	57	1.23
15481714--15481754	16	2.4	17	88	8	57	36	7	2	53	1.42
15481779--15481823	7	6.3	7	82	5	54	33	0	2	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15481772--15481824	14	3.8	13	79	16	52	35	1	1	60	1.19
15484836--15484882	16	3.0	16	75	12	53	34	2	0	63	1.06
15487213--15487260	25	1.9	25	86	0	69	33	2	18	45	1.61
15492084--15492229	72	2.1	70	80	7	161	35	16	20	27	1.94
15494793--15494925	42	3.2	42	80	4	160	24	21	32	22	1.98
15494779--15494937	84	1.9	84	85	0	219	25	19	31	23	1.98
15494966--15495014	10	4.9	10	94	0	80	51	14	0	34	1.43
15494966--15495047	10	8.4	10	81	5	78	46	12	3	37	1.59
15494966--15495158	20	9.4	20	71	8	102	41	11	7	38	1.70
15495008--15495123	32	3.5	33	78	11	112	36	8	12	42	1.74
15494996--15495115	38	3.4	36	81	6	122	36	9	12	41	1.75
15495022--15495119	36	2.8	35	85	3	126	34	7	14	43	1.72
15495061--15495106	24	1.9	24	90	0	74	32	6	17	43	1.75
15495057--15495110	28	1.9	28	100	0	108	33	7	16	42	1.76
15495100--15495156	4	14.8	4	83	7	55	50	17	0	31	1.46
15495099--15495159	14	4.4	14	87	0	86	49	18	0	32	1.48
15495100--15495159	24	2.6	24	94	5	106	50	18	0	31	1.47
15495104--15495152	10	5.1	10	80	9	66	51	16	0	32	1.45
15498169--15498237	17	3.5	20	77	18	65	52	2	1	43	1.25
15498777--15498808	14	2.1	16	88	11	50	12	9	0	78	0.97
15500168--15500251	41	2.0	41	88	0	123	28	11	22	36	1.90
15505126--15505159	4	8.5	4	86	0	50	26	2	23	47	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15506161--15506691	57	9.2	57	76	4	384	32	24	14	28	1.95
15506161--15506691	116	4.6	116	79	2	516	32	24	14	28	1.95
15510193--15510231	20	2.0	20	85	10	53	51	5	7	35	1.53
15533843--15533901	30	2.0	30	86	6	84	42	5	5	47	1.47
15537905--15538399	254	1.9	254	91	0	812	23	14	21	41	1.89
15550980--15551064	27	3.1	27	89	0	134	43	15	17	23	1.87
15552299--15552380	22	3.5	23	71	22	80	30	7	14	47	1.71
15552298--15552372	27	3.0	25	72	20	77	30	6	14	48	1.70
15552715--15552754	19	2.0	20	95	4	73	30	0	27	42	1.56
15557312--15557390	28	2.8	28	92	3	124	35	12	20	31	1.90
15560038--15560080	22	2.0	22	86	13	63	30	6	20	41	1.79
15560115--15560150	5	7.2	5	90	0	54	38	2	22	36	1.69
15568121--15568163	21	2.0	21	81	0	50	30	9	34	25	1.87
15575794--15575826	11	3.0	11	100	0	66	63	9	27	0	1.24
15576808--15576906	42	2.4	42	96	0	180	20	25	33	21	1.97
15576926--15576987	26	2.4	26	97	0	115	22	3	41	32	1.70
15586963--15587010	22	2.1	23	85	11	64	50	14	6	29	1.67
15591897--15591981	43	2.0	43	90	0	134	21	14	12	51	1.75
15599928--15599986	29	2.1	28	81	9	66	55	15	5	23	1.59
15604209--15604233	13	1.9	13	100	0	50	48	8	0	44	1.32
15605474--15605510	19	1.9	19	94	0	65	43	27	2	27	1.68
15608726--15608750	13	1.9	13	100	0	50	48	8	0	44	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15609991--15610046	19	2.9	19	89	0	94	41	28	0	30	1.57
15613862--15613915	25	2.2	26	80	16	69	14	35	14	35	1.88
15613917--15613956	11	3.6	11	83	9	55	0	12	0	87	0.54
15613919--15613954	16	2.4	15	86	13	56	0	11	0	88	0.50
15614016--15614161	59	2.7	51	76	17	150	1	39	3	55	1.25
15614264--15614312	3	16.7	3	82	16	50	0	26	0	73	0.83
15614251--15614313	20	3.1	20	76	17	67	0	23	0	76	0.79
15614264--15614312	25	2.1	24	88	11	75	0	26	0	73	0.83
15614255--15614317	15	4.5	15	77	18	73	0	25	0	74	0.82
15614260--15614316	10	5.9	10	72	15	57	0	26	0	73	0.83
15616589--15616648	30	2.1	29	81	6	68	31	8	21	38	1.83
15619833--15619861	15	1.9	15	100	0	58	34	6	6	51	1.55
15627125--15627307	2	91.5	2	94	0	321	47	0	2	49	1.15
15628271--15628319	25	2.0	25	83	0	62	30	8	28	32	1.86
15636033--15636076	20	2.1	21	91	4	72	47	13	18	20	1.82
15637478--15637564	39	2.2	39	79	0	102	29	21	12	35	1.91
15637513--15637560	19	2.5	20	82	6	62	25	29	10	35	1.89
15640599--15640676	37	2.2	35	86	6	104	43	15	7	33	1.75
15640607--15640682	37	2.1	37	89	0	116	42	13	10	34	1.78
15647507--15647656	2	76.0	2	82	5	153	49	42	2	6	1.38
15647518--15647680	84	2.0	83	98	1	317	47	38	3	9	1.54
15650052--15650112	24	2.5	24	94	0	104	60	1	34	3	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15652239--15652278	19	2.0	20	85	4	55	37	5	0	57	1.21
15658492--15658616	43	2.9	43	82	5	146	25	16	36	20	1.94
15662063--15662152	43	2.1	43	89	0	135	12	15	28	43	1.83
15666872--15666974	35	3.0	33	76	9	107	27	32	12	28	1.93
15674177--15674224	22	2.2	22	88	0	69	12	29	2	56	1.48
15674178--15674246	24	3.0	24	81	8	63	13	28	1	56	1.45
15681072--15681174	38	2.6	40	87	3	147	23	42	15	18	1.88
15694486--15694528	22	2.0	22	90	0	68	30	9	20	39	1.84
15701590--15701731	42	3.4	41	86	5	194	20	21	33	25	1.97
15708981--15709005	2	12.5	2	100	0	50	52	0	0	48	1.00
15709199--15709286	41	2.1	41	85	8	117	37	4	17	40	1.70
15710239--15710281	22	1.9	23	85	4	61	0	18	0	81	0.69
15710807--15711048	117	2.0	120	92	4	409	39	16	14	29	1.88
15713770--15713833	31	2.1	31	100	0	128	12	20	6	60	1.53
15713803--15713847	23	2.0	23	86	0	63	13	20	6	60	1.55
15714259--15714403	26	5.3	26	68	21	91	34	15	11	38	1.84
15714264--15714323	32	2.0	30	87	9	86	38	13	8	40	1.75
15714268--15714331	32	2.1	30	82	8	76	31	15	7	45	1.75
15714381--15714475	45	2.1	45	84	0	118	29	21	14	34	1.93
15715591--15715684	42	2.2	43	82	1	118	23	18	35	23	1.96
15715714--15715741	2	14.0	2	100	0	56	0	0	50	50	1.00
15717012--15717281	45	6.0	45	88	1	371	25	20	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15723217--15723305	16	6.0	15	75	16	87	44	2	1	51	1.21
15723206--15723308	42	2.5	42	84	10	135	43	1	0	53	1.18
15723684--15723750	29	2.2	30	79	12	75	44	4	11	38	1.62
15723808--15723842	17	2.1	17	88	0	52	45	0	2	51	1.16
15723821--15723885	15	4.0	16	71	16	53	41	1	0	56	1.08
15723822--15723889	34	2.2	33	82	15	83	45	1	0	52	1.09
15727645--15727682	19	2.0	19	94	0	67	42	28	0	28	1.56
15728651--15728731	31	2.6	31	82	5	103	27	16	3	53	1.60
15730017--15730226	108	1.9	108	86	5	300	34	14	4	46	1.65
15732104--15732160	26	2.2	26	84	9	71	36	10	17	35	1.84

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