genome.fa.s160.2.7.7.80.10.50.1000.25.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   

This is table  25  of  30  ( 3592 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)
4135196--4135221	13	2.0	13	100	0	52	38	7	15	38	1.76
4139185--4139220	13	2.8	13	100	0	72	30	19	16	33	1.94
4141035--4141152	58	2.0	58	80	6	132	37	4	25	33	1.75
4141711--4141775	34	2.0	32	84	6	85	44	16	12	26	1.83
4147529--4147636	22	4.9	21	81	12	78	2	18	13	64	1.40
4147531--4147617	44	2.0	44	84	8	115	3	19	11	65	1.39
4147531--4147617	22	4.0	22	85	8	99	3	19	11	65	1.39
4148877--4148919	3	15.0	3	85	9	54	25	0	0	74	0.82
4148878--4148921	8	5.2	8	84	10	61	22	0	0	77	0.77
4148884--4148927	20	2.2	20	88	8	63	18	0	2	79	0.83
4152490--4152967	166	2.9	165	83	5	532	32	11	7	48	1.66
4153560--4153605	10	4.4	10	88	5	65	84	0	15	0	0.62
4153559--4153598	11	3.6	12	77	16	50	87	0	12	0	0.54
4153569--4153613	20	2.2	20	92	8	72	80	0	17	2	0.82
4154476--4154514	19	2.1	19	85	4	53	46	15	0	38	1.46
4158826--4158894	21	3.4	20	74	18	63	79	2	14	2	0.96
4158826--4158894	13	5.1	13	77	15	52	79	2	14	2	0.96
4158830--4158894	27	2.4	26	80	14	69	80	3	13	3	0.96
4159481--4159697	112	1.9	111	80	5	249	34	16	12	36	1.87
4160059--4160100	20	2.2	20	87	8	61	23	9	9	57	1.60
4160709--4161181	90	5.2	90	84	2	565	29	28	14	27	1.95
4160709--4161218	180	2.8	179	84	5	627	29	29	14	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4161314--4161433	35	3.5	35	79	7	138	26	20	11	40	1.87
4161395--4161841	48	9.4	48	76	5	341	22	19	18	38	1.93
4161958--4162093	42	3.2	40	69	16	105	17	24	14	43	1.87
4162058--4162225	85	2.0	85	83	2	212	20	32	14	32	1.93
4162298--4162797	85	5.9	85	80	3	499	20	30	14	34	1.93
4162252--4162787	169	3.2	168	79	4	549	21	29	14	34	1.93
4163837--4164417	164	3.5	162	80	8	563	33	9	7	48	1.64
4168276--4168350	34	2.3	34	88	4	100	53	1	6	38	1.36
4168303--4168356	10	5.2	10	84	4	54	51	1	3	42	1.30
4168279--4168340	11	5.5	11	75	11	63	54	1	6	37	1.36
4168358--4168675	72	4.4	72	75	10	245	31	3	12	53	1.55
4169450--4169502	13	4.5	13	71	26	55	37	15	13	33	1.86
4169450--4169518	33	2.1	33	89	5	104	37	17	13	31	1.88
4169569--4169623	28	1.9	29	88	3	85	32	14	20	32	1.92
4170257--4170330	23	3.2	23	72	1	76	28	24	2	44	1.67
4172186--4172248	20	3.5	20	66	28	59	39	9	17	33	1.82
4172171--4172248	33	2.4	33	91	0	129	39	10	16	33	1.83
4172204--4172229	13	2.0	13	100	0	52	38	7	15	38	1.76
4178382--4178435	20	2.7	20	91	5	83	38	18	11	31	1.86
4178458--4178520	19	3.3	18	81	12	72	34	12	14	38	1.84
4179011--4179082	16	4.4	16	67	10	56	48	2	2	45	1.31
4179007--4179093	23	3.6	24	73	15	90	45	3	3	47	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4178991--4179089	49	2.0	49	100	0	198	46	4	2	47	1.32
4180226--4180276	26	2.0	26	88	3	77	35	1	0	62	1.06
4181096--4181121	13	2.0	13	100	0	52	38	15	15	30	1.88
4183339--4183383	21	2.1	21	84	8	56	53	4	20	22	1.63
4185187--4185217	15	2.1	15	93	0	53	48	16	22	12	1.80
4187223--4187302	20	3.8	20	75	15	79	26	15	15	43	1.85
4187291--4187326	13	2.8	13	91	0	54	36	19	11	33	1.87
4191922--4191985	16	4.0	16	72	8	58	42	29	14	14	1.84
4193372--4193427	18	3.1	18	80	10	69	53	3	0	42	1.18
4204076--4204116	12	3.6	12	83	9	59	2	21	0	75	0.92
4206806--4206844	18	2.1	18	85	9	51	28	2	10	58	1.44
4207692--4207748	5	11.8	5	75	19	50	63	0	1	35	1.05
4207700--4207742	18	2.5	17	88	7	61	67	0	0	32	0.91
4208603--4208665	27	2.3	27	83	2	81	31	12	7	47	1.70
4211949--4212030	28	2.9	28	80	7	96	26	17	31	24	1.97
4212013--4212183	51	3.3	51	79	4	198	32	11	26	29	1.92
4212166--4212241	27	2.8	28	88	6	102	21	21	34	23	1.97
4214718--4214743	13	2.0	13	100	0	52	38	15	15	30	1.88
4214783--4214850	19	3.9	18	76	23	83	38	14	11	35	1.83
4214805--4214829	13	1.9	13	100	0	50	32	16	16	36	1.90
4214786--4214848	32	2.0	32	96	0	117	36	15	12	34	1.86
4215284--4215331	9	5.5	8	79	16	51	83	0	14	2	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4215284--4215333	27	2.0	25	88	11	75	84	0	14	2	0.72
4215423--4215457	17	2.1	17	88	0	52	20	11	34	34	1.88
4223728--4224158	152	2.8	151	79	6	429	37	17	18	26	1.93
4225560--4225725	11	14.4	11	68	18	79	2	15	25	56	1.51
4225560--4225683	23	5.4	22	75	9	97	3	16	25	54	1.56
4225572--4225659	45	2.0	45	88	0	131	4	15	23	55	1.59
4225668--4225759	23	4.0	22	77	9	85	1	13	22	63	1.36
4225700--4225797	43	2.2	44	85	5	126	2	11	20	66	1.33
4226016--4226081	23	2.8	24	82	8	75	63	0	1	34	1.04
4226028--4226074	14	3.2	14	80	14	51	65	0	0	34	0.93
4227079--4227132	19	2.7	21	82	5	76	40	11	14	33	1.82
4227163--4227203	13	3.2	13	100	0	82	29	14	17	39	1.89
4227188--4227238	20	2.5	20	100	0	102	25	13	15	45	1.83
4233787--4233821	18	1.9	18	88	0	52	57	8	2	31	1.44
4234855--4234888	13	2.6	14	86	13	54	82	0	0	17	0.67
4235043--4236612	44	35.9	44	70	8	591	22	23	14	40	1.90
4235323--4235697	175	2.1	175	83	4	461	22	26	15	36	1.93
4236736--4236854	42	2.9	41	77	13	127	15	27	15	40	1.89
4236736--4236956	83	2.6	84	76	7	234	16	27	14	41	1.88
4238103--4238572	167	2.8	166	85	4	558	30	12	8	48	1.71
4239059--4239113	13	4.2	13	79	4	58	80	0	16	3	0.86
4239059--4239123	25	2.5	27	85	7	82	78	0	16	4	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4239059--4239125	12	5.4	12	75	10	55	79	0	16	4	0.90
4240142--4240172	3	10.3	3	100	0	62	67	0	0	32	0.91
4242120--4242259	52	2.7	52	81	0	172	42	12	15	30	1.83
4243395--4243540	72	2.0	72	89	0	220	54	11	17	15	1.70
4243479--4243667	58	3.1	58	78	9	155	56	12	16	15	1.68
4243551--4243680	69	1.9	69	90	0	206	60	9	16	14	1.59
4243415--4243667	127	2.0	129	85	5	352	55	12	17	15	1.69
4243644--4243720	24	3.2	26	80	14	76	61	11	14	12	1.58
4249275--4249348	19	3.7	20	80	7	78	28	17	17	36	1.93
4249380--4249443	33	1.9	32	87	12	94	37	15	15	31	1.89
4251640--4251670	15	2.1	15	93	0	53	25	19	16	38	1.92
4258803--4259057	27	9.4	27	88	3	368	24	33	14	28	1.94
4258803--4259125	54	5.9	54	83	4	326	24	32	15	27	1.95
4259127--4259444	32	10.5	32	82	9	332	33	30	16	19	1.94
4259048--4260336	142	8.9	149	84	8	905	29	30	17	22	1.96
4258798--4260331	28	53.5	28	83	6	1417	28	31	16	23	1.96
4259048--4260277	256	4.7	254	85	6	1447	29	30	17	21	1.96
4259048--4260331	456	2.8	454	85	5	1573	29	30	17	22	1.96
4264425--4264461	12	3.1	12	88	0	56	21	29	10	37	1.88
4268083--4268248	90	1.8	90	83	5	219	30	23	12	33	1.92
4268847--4270382	42	37.2	42	69	11	501	18	25	15	41	1.89
4268847--4270382	168	9.3	165	71	11	677	18	25	15	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4270163--4270296	41	3.2	41	74	12	130	17	26	15	41	1.89
4271288--4271333	23	2.1	21	84	11	58	52	15	19	13	1.75
4271374--4271446	33	2.2	33	87	0	101	67	12	15	5	1.40
4271413--4271477	22	2.9	23	80	11	64	67	9	16	6	1.38
4279183--4279239	21	2.7	22	83	8	73	54	3	0	42	1.17
4279529--4279571	23	1.9	22	86	13	61	30	2	6	60	1.35
4280074--4280204	38	3.5	38	81	5	133	28	16	22	33	1.95
4280125--4280204	37	2.2	36	86	8	108	26	16	22	35	1.95
4280277--4280306	2	15.0	2	92	0	51	46	0	0	53	1.00
4286667--4286708	21	2.0	22	85	4	59	54	2	4	38	1.34

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