genome.fa.s7.2.7.7.80.10.50.1000.25.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  25  of  37  ( 4421 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)
4339681--4339734	21	2.6	21	79	2	56	48	5	7	38	1.55
4339760--4339798	20	2.0	20	89	0	60	51	0	0	48	1.00
4339758--4339802	22	2.0	22	87	8	65	51	0	0	48	1.00
4339877--4339920	22	2.0	22	86	0	61	38	0	0	61	0.96
4340197--4340224	2	14.0	2	100	0	56	50	0	0	50	1.00
4340421--4340454	17	1.9	17	88	5	50	35	38	2	23	1.70
4340450--4340491	3	14.0	3	90	9	68	0	35	0	64	0.94
4342746--4342803	2	29.0	2	96	0	107	0	48	1	50	1.11
4351231--4351379	52	2.9	51	88	4	226	30	17	18	33	1.94
4351368--4351392	13	1.9	13	100	0	50	36	16	16	32	1.90
4351433--4351499	33	2.0	33	88	0	98	40	14	11	32	1.83
4351455--4351479	13	1.9	13	100	0	50	32	16	16	36	1.90
4352240--4352451	52	4.2	52	76	12	208	33	16	25	24	1.96
4352347--4352436	43	2.1	43	93	0	153	31	17	24	26	1.97
4352442--4352610	85	2.0	86	82	6	209	20	17	30	30	1.96
4352715--4352801	27	3.1	27	82	9	84	22	16	29	31	1.96
4352441--4352827	30	12.9	29	75	11	228	26	16	29	28	1.97
4354269--4354413	1	145.0	1	75	0	110	3	2	7	86	0.78
4354269--4354413	27	5.5	26	85	11	163	3	2	7	86	0.78
4354269--4354414	28	5.3	28	80	15	162	3	2	8	85	0.80
4364104--4364140	10	3.7	10	100	0	74	78	21	0	0	0.75
4368269--4368417	52	2.9	51	88	4	226	30	17	18	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4368406--4368430	13	1.9	13	100	0	50	36	16	16	32	1.90
4370906--4370961	20	2.7	21	86	5	78	28	17	14	39	1.89
4371769--4371807	19	2.1	19	90	0	60	76	0	7	15	0.99
4372325--4372360	17	2.2	16	95	5	63	63	0	36	0	0.94
4372325--4372378	14	4.2	13	81	11	58	72	0	27	0	0.85
4372356--4372384	9	3.2	9	100	0	58	89	0	10	0	0.48
4378719--4378790	22	3.5	20	72	22	60	69	15	11	4	1.32
4380208--4380410	28	7.2	28	84	2	237	22	31	13	32	1.92
4380210--4380527	28	11.1	29	81	7	188	25	30	15	29	1.95
4380208--4380383	57	3.1	55	85	4	219	22	31	12	32	1.91
4380210--4380410	85	2.4	85	84	2	253	22	30	13	32	1.93
4380369--4381100	28	25.8	28	82	7	795	30	28	16	24	1.97
4381086--4381153	32	2.1	34	83	10	88	27	26	16	29	1.97
4382386--4382444	29	2.0	30	86	3	84	74	0	23	1	0.91
4382393--4382444	6	9.0	6	79	8	54	76	0	21	1	0.87
4382393--4382444	11	4.5	11	83	11	61	76	0	21	1	0.87
4382393--4382439	23	2.0	23	91	0	76	78	0	21	0	0.75
4384658--4384696	21	1.9	21	89	5	62	74	7	5	12	1.20
4386962--4387114	50	3.1	50	81	11	199	30	19	18	32	1.96
4391170--4391279	50	2.2	50	93	0	193	28	20	20	30	1.97
4398229--4398298	28	2.5	28	90	4	106	25	22	20	31	1.98
4398257--4398445	78	2.4	79	82	9	237	27	21	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4401895--4402100	102	2.0	102	90	0	322	31	20	9	37	1.85
4402953--4402990	20	1.9	20	100	0	76	26	15	13	44	1.83
4402977--4403001	13	1.9	13	100	0	50	32	16	16	36	1.90
4405591--4405667	28	2.8	28	88	4	111	25	18	31	24	1.97
4405658--4405758	51	2.0	51	86	3	141	32	10	25	30	1.90
4405702--4405996	79	3.8	79	82	5	348	33	12	25	28	1.92
4405936--4406061	51	2.5	51	84	7	159	33	11	26	28	1.92
4408353--4408426	20	3.7	19	87	7	103	41	13	16	28	1.86
4408453--4408509	20	2.8	20	97	0	105	47	15	12	24	1.80
4408442--4408471	13	2.3	13	94	0	51	43	13	13	30	1.82
4409256--4409489	61	3.9	61	78	6	253	27	19	26	26	1.99
4422966--4423082	51	2.3	51	80	4	128	31	12	24	30	1.93
4423018--4423312	79	3.8	79	84	4	375	31	14	26	27	1.95
4423042--4423312	78	3.5	78	85	4	359	32	14	25	27	1.94
4423255--4423368	51	2.2	51	86	6	160	31	12	26	29	1.92
4423970--4424004	10	3.5	10	96	0	61	71	8	0	20	1.11
4425659--4425752	20	4.7	20	86	5	118	42	10	15	30	1.81
4425768--4425797	13	2.3	13	94	0	51	43	13	13	30	1.82
4426747--4426773	13	2.1	13	100	0	54	25	0	22	51	1.48
4434458--4434482	13	1.9	13	100	0	50	36	16	16	32	1.90
4434529--4434707	32	5.6	32	91	0	268	40	18	7	32	1.80
4437872--4437933	28	2.2	28	91	2	99	48	1	8	41	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4440069--4440095	6	4.5	6	100	0	54	51	33	0	14	1.43
4444834--4444858	13	1.9	13	100	0	50	56	8	12	24	1.62
4445928--4446008	40	2.0	40	95	0	144	32	19	13	34	1.91
4449364--4449481	20	5.8	20	80	4	101	37	13	10	38	1.79
4453013--4453064	2	26.0	2	88	0	77	50	0	5	44	1.26
4453006--4453064	16	3.8	16	88	8	95	47	0	8	44	1.33
4453609--4453702	20	4.6	20	80	4	98	38	13	19	28	1.90
4453627--4453702	21	3.7	21	82	3	109	40	13	18	27	1.88
4453609--4453702	41	2.3	41	98	0	179	38	13	19	28	1.90
4453741--4453766	13	2.0	13	100	0	52	38	15	15	30	1.88
4455980--4456024	21	2.1	21	84	8	56	53	4	20	22	1.63
4459010--4459041	15	2.1	15	94	0	55	46	21	12	18	1.82
4459816--4459895	20	3.8	20	75	15	79	26	15	15	43	1.85
4459881--4459919	13	3.0	13	96	0	69	30	17	15	35	1.91
4462350--4462443	20	4.6	20	80	4	98	38	13	19	28	1.90
4462368--4462443	21	3.7	21	82	3	109	40	13	18	27	1.88
4462350--4462443	41	2.3	41	98	0	179	38	13	19	28	1.90
4462482--4462507	13	2.0	13	100	0	52	38	15	15	30	1.88
4463369--4463590	86	2.7	82	89	6	274	36	9	4	50	1.56
4463412--4463590	86	2.1	86	100	0	358	37	8	5	48	1.56
4465128--4465169	13	3.0	15	86	13	63	76	0	7	16	1.00
4465128--4465168	12	3.0	14	89	10	59	75	0	7	17	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4465132--4465171	14	2.9	14	84	0	53	82	0	5	12	0.82
4465175--4465231	21	2.7	21	97	0	105	33	10	19	36	1.86
4465287--4465354	19	3.9	19	78	21	85	35	11	14	38	1.83
4465308--4465332	13	1.9	13	100	0	50	36	16	16	32	1.90
4465289--4465351	32	2.0	32	96	0	117	34	12	15	36	1.86
4465394--4465419	13	2.0	13	100	0	52	30	15	15	38	1.88
4465374--4465440	33	2.0	33	88	0	98	25	14	16	43	1.86
4467898--4467946	24	2.0	24	92	0	80	26	36	18	18	1.94
4468269--4468350	28	2.9	28	82	7	96	24	31	17	26	1.97
4480745--4480821	9	8.7	9	74	16	63	85	5	9	0	0.73
4480744--4480808	16	4.0	16	84	4	85	86	7	6	0	0.72
4480745--4480824	16	4.9	15	83	11	81	86	5	8	0	0.71
4480745--4480825	33	2.5	32	84	4	99	85	6	8	0	0.75
4480750--4480825	27	2.8	26	84	9	91	84	6	9	0	0.78
4480745--4480807	1	63.0	1	79	0	63	88	6	4	0	0.61
4481789--4482521	55	13.3	55	91	4	1092	28	29	20	21	1.98
4482302--4482449	29	5.3	29	59	18	71	28	31	18	21	1.97
4483122--4483164	13	3.0	15	86	13	72	79	0	6	13	0.93
4483177--4483229	21	2.5	21	93	0	88	32	13	16	37	1.88
4483285--4483352	19	3.9	19	78	21	85	35	11	14	38	1.83
4483306--4483330	13	1.9	13	100	0	50	36	16	16	32	1.90
4483287--4483349	32	2.0	32	96	0	117	34	12	15	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4483392--4483417	13	2.0	13	100	0	52	30	15	15	38	1.88
4483372--4483438	33	2.0	33	88	0	98	25	14	16	43	1.86
4485894--4485966	27	2.7	27	87	6	94	23	34	21	20	1.97
4485949--4486334	51	7.3	51	69	13	226	29	27	11	31	1.92
4486115--4486181	28	2.4	28	87	7	93	23	35	17	22	1.95
4485784--4486390	215	2.8	213	91	3	938	29	27	12	30	1.93
4486317--4486398	28	2.9	28	82	7	96	24	31	17	26	1.97
4488155--4488283	49	2.6	49	85	3	152	43	13	15	27	1.84
4489683--4489707	12	2.1	12	100	0	50	28	32	8	32	1.86
4491404--4491442	20	1.9	21	94	5	71	35	10	10	43	1.73

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