genome.fa.s160.2.7.7.80.10.50.1000.27.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  27  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)
4452422--4452495	20	3.7	20	92	0	121	36	18	10	33	1.86
4452585--4452621	18	2.0	18	89	5	56	27	16	21	35	1.94
4452691--4452731	22	2.0	21	90	9	66	34	9	9	46	1.70
4453333--4453374	22	2.0	22	86	13	61	21	14	14	50	1.78
4463797--4463864	19	3.9	18	76	23	83	36	16	11	35	1.85
4463819--4463843	13	1.9	13	100	0	50	32	16	16	36	1.90
4463800--4463862	32	2.0	32	96	0	117	34	17	12	34	1.88
4464439--4465040	92	6.6	92	96	0	1062	31	18	24	25	1.98
4465126--4465178	20	2.6	21	93	3	90	28	20	11	39	1.87
4466034--4466077	20	2.2	20	88	8	63	2	15	0	81	0.78
4466034--4466077	10	4.4	10	80	8	54	2	15	0	81	0.78
4466545--4466611	27	2.5	26	90	7	107	38	0	17	43	1.50
4466550--4466600	15	3.6	15	84	12	72	35	0	21	43	1.53
4466545--4466679	27	5.0	26	78	13	94	42	3	14	38	1.64
4466545--4466677	54	2.4	53	81	6	149	42	3	14	39	1.63
4467243--4467284	18	2.2	20	83	8	52	71	2	23	2	1.10
4468263--4468300	2	19.0	2	88	0	58	47	2	2	47	1.30
4468593--4468631	20	1.9	21	85	15	55	33	12	15	38	1.85
4470391--4470427	14	2.4	16	86	8	51	40	0	0	59	0.97
4477175--4477480	79	3.9	79	99	0	594	29	13	18	39	1.88
4479670--4479714	20	2.2	20	96	0	81	48	4	0	46	1.22
4487994--4488019	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4487976--4488039	32	2.0	33	90	3	103	42	15	14	28	1.86
4492080--4492110	15	2.1	15	93	0	53	48	16	22	12	1.80
4494180--4494217	13	2.9	13	92	0	58	34	15	15	34	1.90
4496757--4496782	13	2.0	13	100	0	52	38	15	15	30	1.88
4496741--4496802	32	1.9	33	90	3	99	43	16	12	27	1.84
4498673--4498713	20	2.0	20	85	0	55	43	4	0	51	1.23
4504562--4504690	52	2.5	52	94	0	231	28	17	17	35	1.93
4504562--4504709	52	2.8	52	83	6	192	29	17	18	34	1.94
4504711--4504768	21	2.8	21	100	0	116	32	10	17	39	1.83
4504790--4504891	32	3.2	32	92	0	168	37	15	13	33	1.87
4504829--4504892	19	3.7	19	74	23	77	35	17	14	32	1.89
4504848--4504872	13	1.9	13	100	0	50	32	16	16	36	1.90
4506400--4506445	19	2.5	18	83	13	58	41	0	0	58	0.98
4507313--4507354	21	2.0	22	85	4	59	47	11	9	30	1.72
4509497--4509587	46	2.0	46	95	0	164	41	18	7	31	1.79
4509575--4509709	50	2.7	50	86	2	182	24	15	16	43	1.86
4514662--4514836	87	2.0	87	98	0	341	28	14	26	31	1.95
4515095--4515187	20	4.7	20	91	0	159	43	11	13	31	1.81
4516127--4516523	78	5.1	78	82	6	455	27	24	12	35	1.92
4516127--4516498	79	4.7	78	84	5	466	28	24	11	35	1.91
4516127--4516523	157	2.5	156	85	6	534	27	24	12	35	1.92
4518410--4518603	78	2.5	79	81	6	225	34	7	27	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4521142--4522113	155	6.3	155	83	4	1059	39	18	16	25	1.91
4523420--4523454	11	3.1	11	87	4	52	2	20	0	77	0.90
4523425--4523457	17	1.9	17	93	0	57	3	24	0	72	0.98
4523750--4523783	14	2.5	13	86	13	50	64	0	0	35	0.94
4523996--4524397	163	2.4	165	81	6	451	46	10	11	31	1.74
4526759--4527014	78	3.3	77	74	13	247	29	13	28	28	1.94
4528477--4528525	16	3.0	16	87	3	71	14	2	8	75	1.12
4528478--4528515	9	4.4	9	80	12	53	10	2	7	78	1.04
4529153--4529246	43	2.2	43	82	0	116	32	14	25	26	1.95
4529258--4529593	61	5.5	63	79	8	333	36	14	24	23	1.93
4529305--4529586	62	4.7	59	78	10	182	37	14	24	23	1.92
4529267--4529593	183	1.8	179	83	4	440	36	14	24	23	1.93
4529608--4529680	32	2.3	31	86	9	103	19	16	34	30	1.94
4529667--4530265	28	21.1	28	79	7	455	23	19	29	28	1.98
4529608--4530188	84	6.8	84	78	6	496	23	18	29	28	1.98
4529667--4530276	84	7.2	83	80	4	506	23	18	29	28	1.98
4530146--4530283	32	4.6	32	78	10	139	23	18	28	28	1.98
4530455--4530538	28	3.0	28	82	1	107	26	17	29	26	1.98
4545538--4545596	20	2.9	20	78	12	66	30	28	15	25	1.96
4546647--4546703	9	6.4	9	77	16	57	0	10	7	82	0.84
4560155--4560272	19	6.8	18	73	24	94	35	12	17	33	1.88
4560197--4560253	13	3.9	13	76	24	60	35	14	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4560178--4560280	32	3.2	32	95	0	188	33	12	19	33	1.89
4560324--4560351	13	2.2	13	100	0	56	28	14	17	39	1.89
4561835--4561860	13	2.0	13	100	0	52	38	15	15	30	1.88
4561817--4561880	32	2.0	33	90	3	103	42	15	14	28	1.86
4568026--4568062	13	2.8	13	87	0	56	32	13	16	37	1.87
4569684--4569726	23	2.0	21	81	9	50	13	9	16	60	1.58
4575660--4575836	80	2.2	80	83	2	212	33	10	28	28	1.89
4575750--4575802	26	2.0	27	85	7	72	22	9	37	30	1.86
4578216--4578288	20	3.7	19	85	7	76	28	16	15	39	1.89
4578317--4578410	20	4.7	20	90	2	145	38	9	18	34	1.83
4580857--4580881	13	1.9	13	100	0	50	36	16	16	32	1.90
4580837--4580902	32	2.0	33	94	2	116	34	12	16	36	1.86
4580943--4580967	13	1.9	13	100	0	50	32	16	16	36	1.90
4588030--4588127	20	5.6	20	65	30	80	29	18	13	38	1.89
4588032--4588144	33	3.4	33	100	0	226	30	17	12	38	1.87
4590641--4590667	13	2.1	13	100	0	54	29	14	14	40	1.86
4590651--4590707	19	2.9	19	86	2	78	31	17	14	36	1.89
4591134--4591158	13	1.9	13	100	0	50	32	16	16	36	1.90
4591146--4591198	21	2.5	22	82	11	67	39	16	15	28	1.89
4591258--4591283	13	2.0	13	100	0	52	38	15	15	30	1.88
4591240--4591303	33	2.0	32	87	9	94	37	18	14	29	1.90
4597211--4597236	8	3.2	8	100	0	52	15	0	23	61	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597439--4597476	13	2.9	13	92	0	58	31	13	18	36	1.89
4599317--4599348	16	2.0	16	93	0	55	34	6	18	40	1.76
4599898--4599936	20	2.0	19	95	5	69	35	23	10	30	1.88
4599946--4599970	13	1.9	13	100	0	50	32	16	16	36	1.90
4601760--4601810	20	2.5	19	84	12	66	33	25	15	25	1.95
4605386--4605438	26	2.0	26	96	0	97	24	11	20	43	1.85
4606159--4606210	26	2.0	26	96	0	95	51	7	17	23	1.70
4606169--4606224	26	2.2	26	83	0	67	50	8	23	17	1.74
4608897--4608954	21	2.8	21	92	2	100	32	13	13	39	1.85
4608974--4609025	13	3.5	13	73	26	50	36	17	13	32	1.89
4608982--4609044	19	3.7	18	76	24	73	36	17	12	33	1.88
4608974--4609044	32	2.2	32	97	0	133	36	18	12	32	1.88
4614524--4614548	12	2.1	12	100	0	50	52	8	0	40	1.31
4616512--4616801	106	2.7	107	77	4	277	42	14	22	20	1.88
4616980--4617066	41	2.1	41	82	4	104	47	18	19	14	1.83
4616874--4617208	147	2.3	145	83	4	397	44	16	20	18	1.87
4617370--4617714	106	3.3	105	79	3	343	43	17	21	17	1.88
4617869--4618334	65	7.2	65	81	2	409	44	14	19	21	1.86
4618097--4618202	34	3.2	33	70	17	94	49	14	17	18	1.80
4617872--4618334	130	3.6	129	82	1	487	44	14	20	20	1.86
4617880--4618334	195	2.3	194	83	2	554	44	14	20	21	1.86
4619485--4619798	165	1.9	165	84	2	425	45	14	18	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4619651--4619792	44	3.2	44	73	11	137	46	12	17	23	1.82
4620410--4620451	11	4.0	10	84	9	57	0	16	0	83	0.65
4620411--4620449	13	2.9	13	85	7	51	0	17	0	82	0.68
4620695--4620730	14	2.3	17	86	13	51	5	11	0	83	0.80
4620705--4620759	20	2.9	18	76	12	56	7	18	3	70	1.25
4623293--4623372	25	3.2	25	79	10	76	58	0	1	40	1.06
4623332--4623385	16	3.4	16	75	10	56	48	0	0	51	1.00
4623320--4623397	32	2.5	29	82	13	93	51	0	0	48	1.00
4623368--4623412	22	2.1	21	84	15	58	46	0	0	53	1.00
4623567--4623616	23	2.2	23	88	0	73	44	10	6	40	1.63

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