genome.fa.s7.2.7.7.80.10.50.1000.20.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  20  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)
6721829--6721868	18	2.2	18	95	0	71	52	5	7	35	1.51
6728045--6728136	38	2.5	38	82	7	109	18	13	36	31	1.89
6736073--6736108	18	2.0	18	100	0	72	33	0	27	38	1.57
6744178--6744262	23	3.7	23	93	0	125	34	0	17	48	1.48
6744230--6745523	29	44.6	29	99	0	2570	27	0	27	44	1.54
6747551--6747619	32	2.2	32	89	5	104	63	0	1	34	1.03
6747653--6747703	22	2.3	21	83	9	66	37	0	31	31	1.58
6747656--6747754	52	1.9	52	93	0	171	39	0	31	29	1.57
6747708--6747754	22	2.1	22	96	0	85	40	0	34	25	1.56
6755393--6755428	11	3.3	11	92	0	54	30	41	5	22	1.76
6757094--6757184	40	2.3	40	84	7	123	38	15	28	17	1.90
6757128--6757184	20	2.8	20	69	10	53	36	17	28	17	1.93
6766360--6766393	14	2.2	16	90	10	54	55	0	2	41	1.15
6771480--6771513	15	2.3	15	89	0	50	14	14	20	50	1.78
6776398--6776424	2	13.5	2	100	0	54	48	0	0	51	1.00
6776472--6776965	252	2.0	252	100	0	988	29	18	21	30	1.96
6783230--6783263	17	1.9	18	88	5	52	32	11	0	55	1.36
6784377--6784440	28	2.3	26	81	10	65	51	4	3	40	1.38
6785091--6785135	6	7.7	6	95	5	83	35	0	0	64	0.94
6786611--6786648	18	2.1	19	85	5	51	50	2	10	36	1.51
6786585--6786634	26	1.9	26	87	0	73	52	0	14	34	1.42
6786779--6786812	3	11.3	3	100	0	68	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6788729--6788753	3	8.3	3	100	0	50	36	32	0	32	1.58
6788752--6788790	3	13.0	3	100	0	78	33	0	0	66	0.92
6795585--6795637	21	2.5	22	84	6	74	30	35	5	28	1.80
6805426--6805611	92	2.0	93	98	1	365	43	7	5	44	1.55
6806412--6806448	17	2.2	17	90	0	56	72	0	2	24	0.97
6807216--6807261	20	2.3	20	84	0	65	54	13	0	32	1.39
6809240--6809272	13	2.4	14	95	5	59	21	3	27	48	1.64
6813154--6813251	45	2.2	45	88	3	153	42	19	16	21	1.89
6813451--6813538	40	2.2	41	85	2	115	40	19	7	31	1.80
6814229--6814295	34	1.9	35	90	3	109	34	8	10	46	1.70
6818704--6818746	20	2.3	18	84	8	50	48	4	6	39	1.51
6822215--6822261	24	2.0	24	95	0	85	10	4	38	46	1.58
6823054--6823847	175	4.5	175	89	2	1283	27	20	19	29	1.97
6823054--6823847	347	2.3	350	92	1	1319	27	20	19	29	1.97
6823070--6823860	44	18.1	45	67	12	296	27	20	19	29	1.97
6827327--6827679	46	8.1	45	68	16	219	28	21	20	30	1.98
6829665--6829695	13	2.5	13	94	5	55	0	16	0	83	0.64
6829665--6829695	6	5.0	6	92	7	53	0	16	0	83	0.64
6829710--6829782	9	8.3	9	76	23	68	12	0	9	78	0.98
6829691--6829746	27	2.1	26	86	6	76	10	3	7	78	1.06
6829710--6829786	34	2.1	37	86	13	108	12	0	10	76	1.02
6829715--6829786	12	5.8	12	73	20	58	12	0	9	77	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6832138--6832199	30	2.1	30	84	6	81	46	11	8	33	1.69
6834517--6834616	50	2.0	50	100	0	200	22	22	20	36	1.96
6843889--6844048	71	2.3	71	92	0	257	45	15	13	25	1.83
6870167--6870235	31	2.3	31	79	2	77	46	18	5	28	1.72
6870180--6870287	52	2.1	53	83	1	137	46	18	5	29	1.72
6870233--6870364	31	4.3	31	85	0	167	43	15	8	31	1.77
6884842--6884916	37	2.0	37	97	0	141	28	16	34	21	1.94
6887847--6887906	22	2.6	22	82	10	68	35	31	5	28	1.79
6891626--6891752	40	3.2	40	62	20	102	35	7	25	32	1.83
6891625--6891784	80	2.0	80	98	0	311	34	6	24	35	1.81
6896566--6896993	215	2.0	216	88	1	635	33	16	21	28	1.95
6897456--6897555	26	3.8	26	81	0	110	34	26	18	22	1.96
6904198--6904384	51	3.7	51	79	5	200	29	27	18	24	1.98
6904196--6904379	101	1.8	101	86	3	271	29	27	17	24	1.98
6912651--6912687	14	2.6	15	83	12	51	59	5	16	18	1.55
6932207--6932271	22	2.9	22	79	2	67	26	32	4	36	1.77
6940654--6940726	23	3.2	23	84	0	92	13	16	28	41	1.87
6940829--6940952	30	4.2	30	72	5	72	19	16	30	33	1.94
6941415--6941454	20	2.0	21	90	5	64	30	2	22	45	1.66
6942805--6942870	30	2.2	29	84	7	80	36	12	21	30	1.90
6943826--6943870	21	2.1	21	84	8	56	66	6	4	22	1.33
6944069--6944155	8	10.8	8	71	22	58	68	1	12	17	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6944049--6944171	65	1.9	65	96	0	228	67	2	14	15	1.34
6944066--6944147	12	6.4	12	71	20	60	69	1	12	17	1.25
6944063--6944155	16	5.8	15	70	25	66	68	1	11	18	1.25
6945385--6945427	14	3.4	14	70	29	51	4	0	41	53	1.21
6945382--6945460	23	3.4	23	94	0	140	5	1	37	55	1.30
6945879--6946103	44	5.1	44	81	1	243	31	19	16	33	1.94
6946614--6946664	25	2.0	25	96	0	93	23	13	13	49	1.78
6951492--6951548	20	3.0	20	75	14	66	73	3	3	19	1.12
6952922--6952967	23	2.0	23	100	0	92	4	8	34	52	1.52
6955500--6955543	22	1.9	24	81	9	56	27	15	13	43	1.85
6955491--6955641	69	2.2	69	97	0	284	33	17	15	32	1.92
6962864--6962900	18	2.1	18	94	0	65	40	8	27	24	1.83
6968115--6968140	2	13.0	2	100	0	52	50	0	50	0	1.00
6971240--6971267	6	4.7	6	100	0	56	17	32	17	32	1.94
6971418--6971660	135	1.8	134	94	0	432	27	18	14	38	1.90
6976534--6976585	21	2.4	21	80	3	59	21	11	25	42	1.86
6991657--6991717	21	2.9	21	92	0	104	18	27	14	39	1.90
6994470--6994514	21	2.1	22	84	12	58	22	15	13	48	1.79
6998028--6998077	25	2.0	26	88	11	77	44	0	2	54	1.11
7006268--7006355	44	2.0	43	88	2	131	23	23	2	50	1.61
7015218--7015275	17	3.4	17	100	0	116	22	29	17	31	1.96
7015580--7015682	51	2.1	50	81	3	118	30	9	12	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7020437--7020527	23	3.7	25	79	13	109	40	4	0	54	1.20
7020443--7020524	27	3.2	27	68	19	84	41	4	0	53	1.22
7020437--7020534	50	2.0	50	93	4	171	41	4	0	54	1.19
7020843--7020924	15	5.5	15	70	17	55	37	40	0	21	1.54
7020843--7020951	14	7.6	14	69	9	58	36	40	0	22	1.60
7022147--7022203	12	4.9	11	76	18	53	45	5	0	49	1.24
7022138--7022226	35	2.5	35	81	3	117	42	5	1	50	1.33
7022159--7022476	58	5.8	57	86	10	441	41	4	0	53	1.24
7022200--7022482	50	5.3	50	85	10	350	42	4	0	53	1.24
7022252--7022332	23	3.3	24	73	20	87	43	2	0	54	1.13
7022200--7022476	108	2.6	108	95	1	493	41	4	0	53	1.25
7022275--7022357	23	3.4	23	78	12	94	40	6	0	53	1.26
7022360--7022466	23	4.5	22	78	14	99	40	4	0	55	1.21
7022739--7022825	14	6.1	14	74	12	61	34	37	2	25	1.69
7022967--7023022	27	2.1	27	89	0	85	37	42	1	17	1.60
7022922--7023015	35	2.7	36	73	12	97	39	43	1	15	1.54
7022992--7023157	74	2.1	74	82	7	188	46	25	1	27	1.60
7023239--7023271	14	2.3	15	94	5	59	36	33	0	30	1.58
7023615--7023973	41	8.7	41	83	6	406	30	26	20	22	1.98
7023615--7023974	123	2.9	122	84	2	461	30	26	20	22	1.98
7023615--7023974	82	4.4	82	85	2	454	30	26	20	22	1.98
7031257--7031310	19	2.9	18	83	10	74	74	1	18	5	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7031255--7031309	24	2.3	24	84	6	76	74	1	18	5	1.10
7031258--7031312	6	9.0	6	80	11	51	74	1	18	5	1.10
7033473--7033512	20	2.0	20	90	0	62	22	22	22	32	1.98
7041990--7042022	14	2.4	14	100	0	66	42	18	0	39	1.50
7047006--7047132	37	3.4	36	80	6	123	33	13	15	37	1.87
7047034--7047148	37	3.1	37	80	6	110	30	13	19	36	1.91
7048544--7048628	41	2.1	40	86	4	118	51	1	31	15	1.51
7053146--7053668	126	4.2	126	91	1	782	28	16	16	38	1.91
7053767--7053851	34	2.4	35	92	3	145	47	15	0	37	1.46
7053831--7053890	28	2.2	28	93	3	104	40	16	0	43	1.48

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