genome.fa.s7.2.7.7.80.10.50.1000.19.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  19  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)
6402864--6402913	22	2.3	22	83	10	66	22	2	2	74	1.03
6406839--6406890	19	2.8	18	83	11	61	53	7	0	38	1.30
6411089--6411114	6	4.3	6	100	0	52	19	19	46	15	1.85
6417561--6417585	7	3.6	7	100	0	50	64	0	0	36	0.94
6428433--6428591	78	2.0	78	86	4	223	26	20	16	36	1.94
6433874--6433997	45	2.8	45	83	3	153	26	13	16	43	1.85
6436405--6436569	63	2.6	61	82	4	170	21	21	29	26	1.99
6438295--6438411	45	2.6	45	91	0	189	41	16	18	23	1.89
6438294--6438436	45	3.2	45	84	0	169	42	14	19	23	1.88
6438511--6438633	13	9.4	13	76	11	90	43	1	17	38	1.59
6438502--6438577	39	1.9	40	81	2	91	42	1	19	36	1.60
6442638--6442673	15	2.4	15	90	0	54	27	13	22	36	1.92
6448894--6448978	42	2.0	43	97	2	163	44	14	14	27	1.83
6460616--6461086	50	9.5	50	66	12	216	33	23	19	23	1.97
6460565--6461683	99	11.3	99	87	2	1523	34	23	19	22	1.97
6460555--6461671	298	3.8	298	90	1	1568	34	23	19	22	1.97
6463479--6463514	3	12.0	3	87	0	54	36	2	0	61	1.11
6465664--6465773	40	2.8	40	80	2	123	15	16	26	41	1.88
6473891--6473984	37	2.5	37	73	13	86	27	14	17	40	1.89
6484426--6484472	23	2.0	23	95	0	85	19	34	14	31	1.92
6484765--6484805	21	2.0	21	85	9	57	46	2	0	51	1.14
6485860--6485905	23	2.0	24	83	12	60	39	6	2	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6490154--6490222	29	2.4	28	77	15	70	30	8	2	57	1.43
6491356--6491402	24	2.0	23	83	4	58	46	4	0	48	1.21
6492398--6492465	29	2.3	30	87	5	95	44	13	5	36	1.68
6493768--6493855	44	2.0	44	93	0	149	43	17	21	18	1.88
6501498--6501570	37	2.0	37	89	5	112	38	16	12	32	1.86
6504586--6504637	20	2.5	22	87	6	72	57	1	1	38	1.21
6504585--6504641	22	2.8	20	78	17	64	56	3	3	36	1.34
6505914--6505961	19	2.5	19	83	10	53	12	16	27	43	1.84
6506500--6506610	44	2.5	44	76	2	116	23	25	20	30	1.99
6507239--6507664	87	4.9	86	83	6	441	27	25	18	28	1.98
6507239--6507798	175	3.2	174	81	5	522	27	24	18	28	1.98
6507523--6507774	44	5.8	44	75	3	204	26	25	18	29	1.98
6507261--6507753	87	5.7	86	79	8	351	27	24	19	28	1.98
6507779--6508078	89	3.4	89	88	0	447	23	22	23	30	1.99
6509424--6509479	5	11.8	5	83	9	55	0	10	3	85	0.71
6509420--6509478	13	4.6	13	83	12	68	0	11	3	84	0.73
6509423--6509480	24	2.4	24	88	2	80	0	10	3	86	0.69
6509421--6509480	14	4.3	13	80	14	66	0	10	3	86	0.67
6510206--6510375	80	2.1	80	93	2	286	38	14	20	27	1.90
6515059--6515127	35	2.0	35	88	0	102	56	1	10	31	1.41
6524636--6524677	21	2.0	21	90	0	66	38	11	26	23	1.90
6532177--6532201	9	2.8	9	100	0	50	88	0	0	12	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6532169--6532470	150	2.0	151	99	0	597	50	6	10	31	1.62
6532801--6532842	18	2.3	19	87	4	59	38	0	4	57	1.20
6533126--6533167	21	2.0	21	85	0	57	21	0	0	78	0.75
6533133--6533157	6	4.2	6	100	0	50	16	0	0	84	0.63
6533419--6533453	6	5.8	6	93	0	61	14	2	0	82	0.77
6536971--6537262	151	2.0	146	88	4	433	24	16	14	44	1.85
6537641--6537992	41	8.6	41	95	0	625	20	21	28	28	1.98
6542918--6543209	128	2.3	129	92	1	471	21	18	33	26	1.96
6542918--6543209	43	6.8	43	91	1	471	21	18	33	26	1.96
6542918--6543254	128	2.6	128	85	4	369	21	18	32	27	1.97
6542919--6543254	171	2.0	171	85	2	451	21	19	32	27	1.97
6543261--6543344	42	2.0	42	97	0	159	17	14	27	40	1.88
6545786--6545845	29	2.1	29	81	12	70	38	5	0	56	1.21
6547262--6547321	29	2.1	29	81	12	70	38	5	0	56	1.21
6547297--6547586	145	2.0	145	100	0	580	35	14	11	38	1.83
6553220--6553262	18	2.4	18	88	0	59	20	25	9	44	1.81
6556545--6557063	126	4.1	126	87	1	673	31	16	15	36	1.90
6556545--6557041	251	2.0	251	86	1	692	29	17	15	37	1.90
6557122--6557238	34	3.5	32	70	16	96	45	15	0	39	1.46
6558490--6558539	17	2.9	17	90	0	82	46	6	26	22	1.74
6562356--6562409	17	3.2	17	83	0	81	50	3	22	24	1.65
6567478--6567522	21	2.1	21	87	0	63	60	2	2	35	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6567952--6568007	17	3.2	17	80	12	69	78	1	12	7	1.02
6570716--6570764	17	2.8	17	81	12	55	2	26	2	69	1.10
6570716--6570766	16	3.1	16	83	11	50	1	27	1	68	1.11
6570712--6570785	26	2.8	25	75	6	67	1	24	2	71	1.07
6575017--6575068	20	2.6	20	90	0	77	34	21	5	38	1.77
6594494--6594651	78	2.0	79	98	1	309	41	8	2	47	1.48
6595825--6595891	34	1.9	35	87	3	100	34	8	11	44	1.73
6599928--6600098	44	3.8	46	75	9	165	23	21	12	42	1.87
6599882--6600090	45	4.7	44	72	8	152	24	22	15	37	1.93
6601339--6601468	67	2.0	66	89	4	199	28	30	16	23	1.97
6602348--6602387	2	20.0	2	100	0	80	50	50	0	0	1.00
6603514--6603572	30	1.9	31	86	3	84	30	22	1	45	1.62
6607390--6607443	17	3.1	18	78	10	58	20	14	5	59	1.55
6611068--6611136	24	2.8	25	80	12	72	42	0	4	53	1.20
6616505--6616570	27	2.5	26	77	18	66	3	30	3	63	1.24
6616605--6616636	5	6.8	5	86	13	50	56	0	0	43	0.99
6616605--6616636	9	3.4	9	95	4	55	56	0	0	43	0.99
6617419--6617460	21	2.0	21	100	0	84	61	4	0	33	1.17
6617509--6617548	9	4.4	9	90	0	62	27	10	25	37	1.88
6617509--6617557	18	2.7	18	87	0	71	28	8	22	40	1.82
6617966--6618099	62	2.2	59	84	7	173	42	3	4	49	1.41
6624289--6624483	97	2.0	98	98	1	383	55	7	3	33	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6629324--6629370	10	4.6	10	75	15	51	59	2	2	36	1.21
6629339--6629389	23	2.3	23	86	6	70	54	5	0	39	1.24
6635616--6635673	29	2.0	29	100	0	116	41	6	20	31	1.79
6635978--6636030	26	2.0	26	88	0	79	28	1	3	66	1.20
6637687--6637809	61	2.0	61	96	0	228	32	25	15	26	1.95
6644420--6644456	18	2.1	17	90	5	56	51	16	2	29	1.58
6646813--6646907	44	2.2	44	82	3	120	28	15	24	31	1.96
6646823--6646984	43	3.8	43	71	16	113	25	16	27	30	1.97
6650325--6650371	13	3.5	13	77	13	51	53	10	17	19	1.72
6655170--6655209	16	2.5	17	76	15	50	52	5	2	40	1.37
6655427--6655617	57	3.4	57	88	4	287	23	16	17	42	1.88
6663767--6663934	57	2.9	57	96	0	300	43	17	19	20	1.88
6663997--6664656	326	2.0	326	99	0	1311	38	14	10	36	1.79
6664657--6664748	37	2.4	36	79	15	98	54	4	2	39	1.32
6666349--6666383	16	2.2	16	89	0	52	68	8	2	20	1.29
6681809--6681871	25	2.5	26	75	15	60	52	3	1	42	1.27
6687771--6687832	29	2.1	29	85	11	83	35	4	0	59	1.19
6696549--6696575	14	1.9	14	100	0	54	48	0	0	51	1.00
6697258--6697290	17	1.9	17	88	11	50	30	3	0	66	1.06
6697923--6697975	22	2.5	22	81	3	63	49	0	0	50	1.00
6698413--6698477	28	2.4	27	76	7	69	32	1	3	63	1.19
6698888--6698957	29	2.4	29	87	0	95	47	12	4	35	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6699343--6699426	29	2.8	29	89	3	114	41	2	0	55	1.12
6699983--6700033	24	2.2	23	82	10	59	45	1	0	52	1.12
6702157--6702208	20	2.6	20	81	0	50	15	21	19	44	1.87
6708247--6708345	9	10.8	9	77	17	80	56	2	1	40	1.17
6708247--6708345	29	3.6	28	76	16	93	56	2	1	40	1.17
6709047--6709090	19	2.2	21	88	8	65	31	0	6	61	1.22
6709597--6709640	21	2.1	21	95	0	79	36	9	15	38	1.80
6709596--6709651	21	2.8	19	84	10	76	33	12	19	33	1.89
6715752--6715791	17	2.5	17	92	8	66	5	15	0	80	0.88
6720956--6721007	25	2.1	25	85	3	70	21	19	7	51	1.71

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