genome.fa.s71.2.7.7.80.10.50.1000.31.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   

This is table  31  of  33  ( 3929 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)
5264709--5264738	2	15.0	2	100	0	60	50	0	0	50	1.00
5274118--5274161	22	2.0	22	81	0	52	11	6	4	77	1.11
5274158--5274222	31	2.1	31	82	5	78	16	7	6	69	1.33
5274502--5274530	2	14.5	2	100	0	58	48	0	0	51	1.00
5276089--5276131	2	22.0	2	90	4	70	48	0	2	48	1.14
5283961--5284003	18	2.2	20	84	15	56	53	6	2	37	1.41
5284083--5284218	21	6.5	21	70	1	76	48	5	8	37	1.57
5284183--5284236	21	2.6	21	82	5	65	50	1	3	44	1.30
5286654--5286973	165	1.9	165	95	1	579	19	21	16	42	1.89
5287832--5287857	2	13.0	2	100	0	52	0	50	0	50	1.00
5294863--5294904	12	3.4	12	83	6	57	28	2	19	50	1.60
5295700--5296108	202	2.0	201	97	0	773	22	20	15	41	1.90
5299512--5299555	21	2.1	21	82	0	52	9	11	4	75	1.19
5299542--5299586	22	2.0	23	82	4	56	20	11	0	68	1.19
5304569--5304596	12	2.3	12	100	0	56	14	0	7	78	0.95
5305660--5305698	21	1.9	21	84	5	53	25	12	10	51	1.71
5306779--5306866	41	2.1	42	93	2	151	42	2	0	55	1.12
5306779--5306899	41	3.0	41	83	7	131	42	4	0	52	1.26
5307578--5307630	16	3.3	16	77	15	56	15	9	1	73	1.17
5310665--5310713	26	1.9	25	84	12	64	32	2	2	63	1.17
5312798--5312991	102	1.9	102	88	2	291	24	12	18	44	1.84
5327249--5327521	141	1.9	142	96	1	503	34	11	7	46	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5328275--5328345	35	2.0	35	94	0	124	32	9	15	42	1.80
5332992--5333063	19	4.2	18	75	18	64	55	0	0	44	0.99
5333014--5333067	11	5.2	11	76	17	53	53	0	0	46	1.00
5333025--5333063	19	2.1	19	95	0	69	56	0	0	43	0.99
5332998--5333067	30	2.4	30	83	9	83	54	0	0	45	0.99
5333063--5333111	10	5.0	10	80	14	57	61	0	0	38	0.96
5333067--5333111	9	4.7	9	83	10	54	60	0	0	40	0.97
5333063--5333102	18	2.2	18	95	0	71	60	0	0	40	0.97
5335582--5335629	2	24.0	2	100	0	96	50	0	0	50	1.00
5338528--5338556	2	14.5	2	100	0	58	51	48	0	0	1.00
5345024--5345074	17	2.8	19	77	14	54	60	0	0	39	0.97
5345144--5345204	29	2.1	29	81	6	70	62	4	8	24	1.43
5345729--5345779	22	2.3	21	83	12	59	68	0	0	31	0.90
5346114--5346139	3	8.7	3	100	0	52	30	0	0	69	0.89
5347630--5347789	56	2.9	56	98	0	304	42	10	14	32	1.80
5353215--5353354	70	2.0	70	97	0	262	21	8	24	45	1.79
5353378--5353421	2	22.0	2	95	0	79	47	2	0	50	1.13
5353847--5353885	2	19.5	2	100	0	78	48	0	0	51	1.00
5360330--5360358	2	14.5	2	100	0	58	51	0	48	0	1.00
5360764--5360801	3	12.7	3	94	0	67	28	34	0	36	1.58
5368520--5368647	65	2.0	65	84	6	170	39	21	14	25	1.91
5369241--5369271	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5369184--5369384	105	1.9	105	80	4	233	43	13	8	34	1.74
5371241--5371298	28	2.0	29	83	9	75	46	0	1	51	1.11
5371253--5371325	30	2.5	28	79	16	85	41	1	2	54	1.23
5371464--5371523	18	3.3	18	73	15	52	58	6	0	35	1.24
5372469--5372520	26	1.9	28	84	7	72	44	1	0	53	1.11
5372511--5372561	22	2.4	21	81	12	59	45	0	0	54	0.99
5373710--5373750	17	2.4	17	84	11	57	46	2	0	51	1.14
5374169--5374203	5	7.2	5	87	6	54	57	0	0	42	0.99
5374169--5374203	15	2.4	14	95	4	61	57	0	0	42	0.99
5374240--5374297	30	1.9	30	85	3	80	41	8	1	48	1.44
5378975--5379000	2	13.0	2	100	0	52	50	0	0	50	1.00
5379515--5379565	23	2.2	23	96	0	93	54	3	15	25	1.58
5381315--5381380	12	5.7	12	71	18	50	51	0	0	48	1.00
5381846--5381873	2	14.0	2	100	0	56	50	0	0	50	1.00
5385246--5385279	7	4.9	7	85	0	50	50	0	0	50	1.00
5387925--5388452	263	2.0	264	90	1	828	36	16	20	26	1.94
5388565--5388662	41	2.4	41	84	3	126	33	16	14	35	1.89
5393725--5393758	17	1.9	18	94	5	61	32	0	0	67	0.91
5395028--5395073	23	2.0	24	82	4	58	60	2	0	36	1.09
5395314--5395353	3	13.3	3	100	0	80	65	0	0	35	0.93
5395619--5395643	3	8.3	3	100	0	50	32	0	0	68	0.90
5395977--5396068	46	2.1	45	93	6	161	20	18	8	52	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5396717--5396741	2	12.5	2	100	0	50	52	0	0	48	1.00
5399364--5399548	34	5.5	34	87	3	257	40	26	7	25	1.82
5403619--5403677	20	3.0	20	87	5	84	32	22	16	28	1.96
5403622--5403678	19	2.9	19	89	2	78	33	19	15	31	1.93
5403982--5404164	34	5.4	34	87	3	246	39	26	7	26	1.82
5404396--5404451	20	2.8	20	86	5	69	48	0	0	51	1.00
5404377--5404495	17	6.8	17	67	14	55	42	0	0	57	1.04
5404402--5404490	33	2.6	34	75	10	92	43	0	1	55	1.07
5405286--5405348	33	2.0	30	87	9	90	47	0	0	52	1.00
5409391--5409436	20	2.3	20	88	0	65	39	6	10	43	1.66
5414415--5414459	16	2.8	16	77	16	56	55	6	2	35	1.38
5422778--5422805	2	14.0	2	100	0	56	50	0	0	50	1.00
5425148--5426503	458	2.9	458	94	2	2292	34	20	12	33	1.90
5426852--5426895	2	22.0	2	95	0	79	2	0	50	47	1.13
5437137--5437163	2	13.5	2	100	0	54	51	0	48	0	1.00
5438359--5438406	24	2.0	24	91	0	78	29	0	0	70	0.87
5438350--5438405	29	2.0	27	86	6	76	26	0	0	73	0.84
5439246--5439419	86	2.0	86	85	2	233	35	17	14	31	1.91
5440491--5440529	20	2.0	20	100	0	78	35	20	23	20	1.96
5440696--5440734	17	2.2	18	86	4	53	41	0	0	58	0.98
5448746--5448801	13	4.0	14	73	15	53	55	0	0	44	0.99
5448745--5448781	14	2.6	15	83	12	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5448746--5448799	26	2.0	28	82	7	67	53	0	0	46	1.00
5450968--5451027	21	2.9	21	80	11	79	43	0	3	53	1.17
5458896--5458937	3	14.0	3	100	0	84	66	0	0	33	0.92
5458972--5459010	13	2.9	14	84	3	53	84	2	10	2	0.81
5464293--5464326	12	2.8	12	86	0	50	17	5	52	23	1.66
5468853--5468879	1	27.0	1	100	0	54	0	0	0	100	0.00
5471836--5471878	2	21.5	2	95	0	77	48	2	0	48	1.14
5471941--5471972	2	16.0	2	100	0	64	50	0	0	50	1.00
5473067--5473120	2	27.0	2	96	0	99	48	0	0	51	1.00
5474391--5474446	26	2.2	26	90	0	85	42	5	28	23	1.76
5476058--5476134	29	2.7	29	84	4	95	33	3	1	61	1.23
5478711--5478735	3	8.3	3	100	0	50	64	0	0	36	0.94
5479541--5479574	18	1.9	18	88	5	52	32	0	0	67	0.91
5479915--5479992	35	2.2	35	82	13	97	41	1	0	57	1.07
5479931--5480007	35	2.2	36	86	11	106	40	0	0	59	0.97
5479986--5480095	19	6.3	19	66	24	64	46	0	2	50	1.22
5480038--5480104	32	2.1	31	86	8	91	41	1	0	56	1.08
5480063--5480118	29	2.0	28	89	3	85	44	1	0	53	1.11
5480050--5480134	29	3.0	27	76	17	84	42	2	1	54	1.21
5480142--5480210	13	4.9	14	77	18	72	47	2	0	49	1.16
5481955--5481988	2	17.0	2	100	0	68	50	0	0	50	1.00
5486415--5486455	10	4.3	10	81	12	50	53	4	0	41	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5486415--5486455	4	10.2	4	86	0	55	53	4	0	41	1.22
5488313--5488516	112	1.9	110	85	8	276	38	22	12	26	1.90
5489930--5489959	15	2.0	15	93	0	51	50	26	13	10	1.73
5490247--5490312	2	33.0	2	100	0	132	50	0	0	50	1.00
5490345--5490384	22	1.9	19	85	14	53	40	2	2	55	1.27
5492297--5492322	8	3.2	8	100	0	52	15	0	0	84	0.62
5492634--5492773	16	9.1	16	70	16	84	59	0	0	39	1.08
5492636--5492772	20	7.6	18	69	17	63	58	0	0	40	1.09
5492635--5492708	23	3.3	22	71	12	62	56	0	1	41	1.07
5492636--5492728	22	4.6	20	70	16	59	56	0	1	41	1.06

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