genome.fa.s7.2.7.7.80.10.50.1000.40.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  40  of  79  ( 9388 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)
13064931--13064964	17	2.1	17	88	5	52	41	11	0	47	1.40
13070748--13070808	22	2.8	22	92	0	95	42	29	13	14	1.84
13074398--13074483	25	3.4	25	77	0	73	25	20	23	30	1.99
13074866--13074898	17	2.0	17	88	5	50	33	15	0	51	1.43
13079998--13080071	36	2.1	36	92	0	121	48	20	2	28	1.63
13083406--13083532	24	5.2	24	73	11	91	17	22	20	39	1.92
13088974--13089021	24	2.0	24	100	0	96	41	20	16	20	1.90
13090472--13090520	20	2.5	20	81	15	66	12	24	6	57	1.58
13090723--13090859	49	2.8	50	81	6	154	24	24	21	29	1.99
13092170--13092210	21	2.0	21	85	0	55	48	19	17	14	1.81
13095739--13095875	68	2.0	68	97	0	256	34	27	10	27	1.90
13100851--13100886	5	7.2	5	96	0	63	58	38	0	2	1.13
13104862--13104986	49	2.5	48	82	7	126	18	24	23	33	1.97
13104862--13104940	25	3.2	24	80	8	88	17	29	21	31	1.96
13104900--13104977	25	3.1	26	78	16	92	15	25	23	35	1.94
13115171--13115302	45	3.0	44	84	6	153	21	15	27	36	1.93
13127289--13127476	25	7.6	25	69	16	90	19	27	19	33	1.96
13127357--13127464	24	4.5	24	73	9	76	18	27	18	35	1.94
13127418--13127501	25	3.4	25	79	14	93	21	28	17	32	1.96
13127421--13127532	25	4.5	24	79	8	84	21	27	18	32	1.97
13132472--13132517	22	2.0	23	91	4	76	47	36	4	10	1.58
13136263--13136436	48	3.6	48	85	3	217	34	27	12	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13142350--13142392	7	5.7	7	79	15	50	30	0	0	69	0.88
13142348--13142392	17	2.9	15	81	15	56	31	0	0	68	0.89
13146914--13147067	53	2.8	55	80	5	186	46	15	7	30	1.74
13148412--13148453	16	2.6	16	84	0	57	38	2	28	30	1.70
13158002--13158029	14	2.0	14	100	0	56	57	0	7	35	1.26
13163772--13163796	11	2.3	11	100	0	50	40	8	16	36	1.77
13163737--13163896	73	2.2	73	94	0	275	35	16	18	30	1.93
13182352--13182384	15	2.2	15	94	0	57	30	6	6	57	1.47
13182388--13182426	18	2.2	18	86	9	53	30	0	7	61	1.24
13183652--13183722	13	5.4	13	69	15	56	36	15	4	43	1.66
13189170--13189232	26	2.3	26	83	5	72	31	30	15	22	1.95
13189190--13189318	29	4.7	29	79	5	108	32	23	16	27	1.96
13189538--13189599	30	2.1	30	84	0	79	27	17	17	37	1.93
13192002--13192064	27	2.3	27	81	5	83	34	30	15	19	1.93
13192628--13192698	27	2.6	28	82	6	83	19	43	21	15	1.87
13195996--13196040	23	2.0	23	87	8	67	77	2	4	15	1.02
13196412--13196465	28	1.9	28	92	7	92	55	7	0	37	1.28
13202154--13203013	430	2.0	430	100	0	1720	28	28	15	27	1.96
13211509--13211561	26	2.0	26	100	0	106	30	15	7	47	1.73
13211659--13211686	6	4.7	6	100	0	56	17	0	0	82	0.68
13234272--13234389	25	4.8	25	75	7	89	33	19	24	22	1.97
13234466--13234520	26	2.1	26	89	0	83	34	21	25	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13234470--13234548	26	3.1	26	80	14	76	36	18	22	21	1.95
13235156--13235196	20	2.0	20	90	0	64	31	12	2	53	1.51
13236420--13236462	21	2.0	21	100	0	86	53	18	13	13	1.73
13259134--13259185	17	3.0	17	81	10	61	61	0	0	38	0.96
13259134--13259185	18	3.0	18	77	5	54	61	0	0	38	0.96
13259137--13259175	9	4.4	9	83	3	53	64	0	0	35	0.94
13259137--13259189	27	2.0	26	82	10	63	64	0	0	35	0.94
13259630--13259661	7	4.6	7	92	0	55	78	0	0	21	0.76
13259630--13259664	14	2.5	14	95	0	61	77	0	0	22	0.78
13259867--13259920	20	2.5	22	74	14	60	27	9	0	62	1.25
13267244--13267291	2	24.0	2	100	0	96	50	0	50	0	1.00
13268516--13268557	12	3.5	12	81	12	50	38	0	0	61	0.96
13272779--13272893	53	2.2	53	93	1	194	54	21	13	9	1.67
13275180--13275254	33	2.3	33	83	4	89	36	14	22	26	1.93
13276016--13276058	23	1.9	22	85	4	59	69	2	27	0	1.00
13282562--13282623	30	2.1	30	84	0	79	56	4	6	32	1.46
13286061--13286101	18	2.3	19	80	16	52	65	12	0	21	1.25
13286182--13286241	30	2.0	30	93	0	102	56	13	3	26	1.52
13292315--13292360	23	2.0	23	83	8	58	43	8	19	28	1.80
13301809--13301864	21	2.8	19	79	10	67	28	1	5	64	1.26
13301809--13301867	19	3.0	19	80	9	73	28	1	5	64	1.24
13302962--13303018	25	2.3	25	93	3	98	29	21	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13305766--13305801	18	2.0	18	100	0	72	33	27	0	38	1.57
13306200--13306320	62	2.0	59	80	7	136	38	4	9	47	1.57
13309450--13309518	28	2.5	27	80	4	75	24	14	8	52	1.70
13309478--13309782	125	2.4	124	87	3	407	27	15	16	40	1.89
13309871--13309958	28	2.8	32	71	16	85	37	15	1	45	1.54
13309896--13309974	28	2.9	28	84	1	97	35	13	1	49	1.51
13318412--13318526	25	4.6	25	79	6	117	25	22	20	32	1.98
13318412--13318526	50	2.3	50	83	5	135	25	22	20	32	1.98
13321750--13321863	59	1.9	58	87	1	165	35	16	14	34	1.89
13330829--13330853	6	4.2	6	100	0	50	84	0	0	16	0.63
13343692--13343789	20	4.8	20	80	1	106	40	23	25	10	1.86
13351475--13351578	40	2.7	40	86	3	140	36	4	8	50	1.55
13362366--13362425	28	2.1	29	84	9	79	65	5	1	28	1.23
13362368--13362423	17	3.1	17	74	20	51	67	5	1	25	1.21
13371582--13371737	73	2.2	73	91	3	253	59	2	8	28	1.41
13372965--13373022	13	4.6	13	73	14	50	63	1	3	31	1.21
13375630--13375673	23	1.9	23	90	0	70	27	2	9	61	1.38
13377281--13377333	21	2.5	22	79	14	58	5	7	20	66	1.38
13382468--13382500	15	2.1	16	88	5	50	45	6	21	27	1.75
13390177--13390212	18	2.0	18	88	0	54	69	11	16	2	1.29
13391046--13391304	74	3.5	75	82	4	310	22	18	22	35	1.95
13392344--13392423	25	3.2	25	91	3	126	21	25	35	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13403673--13403731	30	2.0	30	83	6	75	28	15	25	30	1.96
13426129--13426179	21	2.4	21	80	6	59	23	31	15	29	1.95
13441906--13441945	12	3.3	12	82	0	53	60	2	22	15	1.47
13442902--13443142	80	3.0	80	100	0	482	26	16	19	37	1.93
13451050--13451100	20	2.6	19	76	14	50	19	7	15	56	1.63
13458295--13458347	17	3.0	16	78	15	52	43	0	32	24	1.55
13459665--13459698	16	2.1	16	88	0	50	23	23	50	2	1.63
13460226--13460261	6	6.0	6	100	0	72	33	0	0	66	0.92
13460570--13460605	6	6.0	6	100	0	72	33	0	0	66	0.92
13462637--13462664	2	14.0	2	100	0	56	50	0	0	50	1.00
13463115--13463319	106	1.9	106	85	5	281	29	19	20	31	1.96
13463556--13463809	126	2.0	127	99	0	501	33	23	13	29	1.93
13465163--13465407	69	3.6	69	75	6	264	50	14	11	23	1.75
13465169--13465431	136	1.9	136	88	1	393	48	14	12	25	1.77
13465515--13465592	39	2.0	39	84	0	102	55	7	12	24	1.63
13471743--13471782	20	2.0	21	85	5	55	40	32	0	27	1.57
13481403--13481435	14	2.4	14	94	0	57	36	9	27	27	1.87
13486479--13486521	21	2.0	21	95	0	77	53	4	0	41	1.21
13500779--13500892	59	1.9	59	94	0	201	29	28	9	31	1.89
13502881--13502913	15	2.1	16	88	5	50	27	0	45	27	1.54
13506669--13506892	67	3.3	66	79	8	211	33	16	25	24	1.96
13513936--13514132	44	4.5	44	71	12	161	28	25	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13513928--13514228	132	2.3	132	94	0	512	27	23	17	31	1.97
13514631--13515932	100	13.2	100	80	5	1025	23	20	23	32	1.98
13514631--13515647	498	2.0	499	84	3	1321	23	20	23	32	1.98
13514765--13515640	50	17.6	49	66	12	318	22	20	24	32	1.98
13515608--13515934	95	3.4	95	89	0	458	25	21	21	31	1.98
13515657--13515922	50	5.5	50	75	9	266	25	22	21	30	1.99
13517039--13517081	8	5.4	8	81	10	52	11	11	0	76	1.02
13517045--13517095	21	2.3	22	86	10	68	15	13	0	70	1.17
13517048--13517084	16	2.5	15	87	12	58	16	13	0	70	1.17
13517894--13517922	6	5.0	6	91	8	51	0	17	0	82	0.66

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