genome.fa.s72.2.7.7.80.10.50.1000.32.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  32  of  39  ( 4596 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)
4565986--4566040	28	2.0	28	82	7	67	40	1	5	52	1.35
4567354--4567399	22	2.1	22	84	8	58	41	4	2	52	1.33
4568412--4568475	24	2.9	23	76	17	64	37	0	0	62	0.95
4569647--4569682	17	2.2	16	90	5	54	44	2	2	50	1.31
4570079--4570192	27	4.3	25	69	26	67	42	1	0	55	1.10
4570113--4570164	20	2.6	21	85	11	65	44	0	0	55	0.99
4570199--4570239	19	2.1	20	90	4	66	24	0	4	70	1.06
4570203--4570266	28	2.3	27	81	7	76	32	0	3	64	1.10
4571467--4571526	14	4.1	15	73	14	54	36	1	0	61	1.06
4571499--4571540	20	2.1	20	86	8	59	40	0	0	59	0.97
4571569--4571618	12	4.3	12	82	7	59	30	0	0	70	0.88
4571569--4571601	17	1.9	17	100	0	66	30	0	0	69	0.88
4571566--4571624	29	2.0	29	90	6	93	30	0	1	67	1.00
4571965--4572384	201	2.1	201	96	0	777	42	6	3	46	1.48
4575188--4575271	32	2.6	33	83	7	93	53	1	1	44	1.16
4580038--4580123	20	4.1	22	72	20	69	46	1	0	52	1.08
4580061--4580138	19	4.1	18	72	19	68	47	2	0	50	1.15
4580094--4580138	17	2.6	17	85	3	54	51	2	0	46	1.13
4591691--4592031	123	2.8	124	94	2	591	36	14	15	34	1.87
4592770--4593050	136	2.1	137	88	3	415	50	7	10	31	1.64
4596940--4596964	13	1.9	13	100	0	50	68	0	0	32	0.90
4606414--4606482	8	8.6	8	93	0	84	52	4	43	0	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4606422--4606486	2	32.5	2	93	0	112	50	3	46	0	1.17
4608174--4608222	23	2.2	23	85	3	64	51	4	0	44	1.20
4609894--4609937	18	2.5	17	81	3	52	70	0	0	29	0.88
4611076--4611148	32	2.3	32	79	15	80	43	0	2	53	1.15
4611168--4611213	20	2.3	21	82	14	62	41	2	0	56	1.11
4611188--4611227	14	2.9	14	81	3	55	47	0	0	52	1.00
4611188--4611244	14	4.4	14	70	17	50	49	0	0	50	1.00
4611172--4611249	24	3.0	25	77	20	81	44	1	0	53	1.08
4611184--4611265	33	2.5	33	82	11	96	45	0	0	54	0.99
4611195--4611257	24	2.7	23	79	16	67	49	0	0	50	1.00
4611185--4611284	33	2.9	33	75	11	94	46	0	0	54	1.00
4611185--4611288	34	2.9	35	73	11	97	47	0	0	52	1.00
4611716--4611765	27	2.0	26	81	14	61	52	10	0	38	1.35
4611835--4611894	19	2.9	20	75	18	52	41	1	5	51	1.33
4612514--4612549	2	18.5	2	88	5	56	47	0	2	50	1.15
4613812--4613878	28	2.5	26	73	22	66	52	0	0	47	1.00
4614331--4614358	14	2.0	14	100	0	56	64	0	0	35	0.94
4615717--4615791	24	3.2	24	74	9	73	41	1	0	57	1.07
4616082--4616139	23	2.4	23	78	18	57	44	1	1	51	1.21
4616839--4616879	19	2.2	19	86	4	57	48	0	0	51	1.00
4617213--4617260	17	2.9	17	76	14	55	45	2	0	52	1.12
4618125--4618161	2	18.5	2	94	0	65	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4619088--4619141	26	2.1	26	85	0	72	37	0	0	62	0.95
4622207--4622231	2	12.5	2	100	0	50	52	0	0	48	1.00
4624605--4624674	36	1.9	36	94	0	122	24	1	41	32	1.64
4624604--4624681	36	2.2	36	88	0	120	25	1	41	32	1.64
4627795--4627863	7	9.6	7	74	16	52	33	1	0	65	1.02
4628213--4628280	27	2.5	28	83	4	86	66	17	2	13	1.37
4628818--4628866	23	2.1	23	85	7	64	24	0	2	73	0.94
4628966--4629019	19	3.0	17	81	8	54	62	1	0	35	1.06
4629215--4629271	20	2.8	20	89	5	80	61	0	0	38	0.96
4629225--4629271	19	2.4	19	92	3	76	61	0	0	38	0.96
4629196--4629272	17	4.2	20	78	15	87	58	0	0	41	0.98
4629266--4629309	19	2.3	19	80	0	52	54	0	4	40	1.21
4629371--4629428	19	3.1	18	76	18	64	39	3	0	56	1.16
4629436--4629488	14	3.7	14	77	5	52	54	0	0	45	0.99
4629855--4629920	34	2.0	33	85	14	91	48	1	0	50	1.10
4630186--4630228	21	2.0	21	86	0	59	51	0	0	48	1.00
4630190--4630241	27	1.9	27	88	7	79	51	0	1	46	1.12
4630192--4630241	21	2.3	21	82	3	55	52	0	2	46	1.12
4633714--4633992	33	8.5	33	95	0	441	27	35	11	24	1.91
4634608--4634641	9	3.8	9	84	0	50	29	0	0	70	0.87
4635087--4635113	4	6.8	4	100	0	54	25	0	22	51	1.48
4637187--4637635	223	2.0	223	92	1	749	27	10	17	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4643119--4643173	18	2.8	21	75	16	71	12	18	14	54	1.71
4643081--4643422	174	2.0	172	91	4	564	20	12	19	47	1.81
4653989--4654025	7	5.7	7	81	18	53	51	0	0	48	1.00
4653990--4654025	18	2.0	18	100	0	72	50	0	0	50	1.00
4655407--4655921	258	2.0	258	97	0	976	25	23	19	32	1.98
4659569--4659601	2	16.5	2	93	0	57	0	51	0	48	1.00
4659800--4659876	18	4.4	18	73	12	54	54	1	2	41	1.22
4661009--4661044	18	2.0	18	88	0	54	66	0	0	33	0.92
4661122--4661149	1	28.0	1	100	0	56	100	0	0	0	0.00
4661608--4661645	2	19.5	2	89	5	60	47	0	2	50	1.15
4667563--4667626	24	2.7	24	78	7	67	54	0	1	43	1.09
4669984--4670019	17	2.2	17	95	5	65	27	5	25	41	1.77
4674064--4674119	20	2.9	19	84	10	62	42	0	0	57	0.99
4674204--4674252	12	4.0	12	78	2	53	30	2	0	67	1.02
4678948--4679171	113	2.0	113	94	0	394	33	16	23	26	1.95
4683992--4684039	12	3.8	12	77	5	51	60	0	0	39	0.97
4690335--4690396	30	2.1	28	88	5	88	58	0	0	41	0.98
4690340--4690398	9	5.9	10	73	13	50	55	0	0	44	0.99
4693411--4693475	27	2.4	27	80	7	69	29	10	26	33	1.90
4693706--4693877	79	2.2	78	80	3	184	33	11	22	31	1.90
4696140--4696309	50	3.3	50	85	2	214	47	11	11	29	1.76
4697287--4697340	6	9.2	6	75	18	51	40	0	1	57	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4697292--4697344	17	3.1	17	76	7	54	43	0	1	54	1.11
4702953--4703006	24	2.2	24	80	6	65	16	7	53	22	1.67
4703014--4703062	21	2.3	21	89	0	80	8	4	63	24	1.40
4706557--4706605	13	3.6	14	83	10	66	32	0	0	67	0.91
4706799--4706825	2	13.5	2	100	0	54	48	0	0	51	1.00
4706980--4707013	2	17.0	2	100	0	68	50	0	0	50	1.00
4713013--4713047	12	2.8	13	91	8	56	37	0	0	62	0.95
4713965--4714109	64	2.2	67	74	15	151	53	0	1	44	1.14
4714260--4714298	18	2.1	19	90	4	62	33	0	0	66	0.92
4714264--4714339	10	7.7	10	78	19	72	30	1	0	68	0.98
4715692--4715730	17	2.2	18	90	4	62	48	0	0	51	1.00
4717160--4717184	10	2.5	10	100	0	50	0	8	0	92	0.40
4721066--4721100	18	1.9	18	88	0	52	34	20	17	28	1.95
4722751--4722788	18	2.1	19	85	5	51	52	0	0	47	1.00
4723309--4723358	22	2.3	23	83	10	70	56	0	0	44	0.99
4723309--4723373	22	3.1	20	76	22	62	50	0	0	49	1.00
4723337--4723406	31	2.2	35	75	19	80	47	1	1	50	1.19
4723475--4723572	30	3.2	28	75	24	85	39	2	4	54	1.31
4723489--4723573	28	2.8	29	74	22	86	38	2	3	55	1.30
4727702--4727738	2	18.5	2	100	0	74	51	0	0	48	1.00
4728567--4728597	3	10.3	3	100	0	62	32	0	0	67	0.91
4728818--4728847	13	2.2	14	94	5	53	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4729167--4729228	24	2.6	25	78	14	69	45	0	1	53	1.10
4729167--4729228	23	2.6	25	78	17	69	45	0	1	53	1.10
4733836--4733877	21	2.0	22	90	4	68	57	0	0	42	0.99
4733994--4734069	39	1.9	40	84	7	102	51	2	0	46	1.15
4734265--4734303	21	1.9	20	89	5	60	48	0	0	51	1.00
4738123--4738163	21	2.0	21	90	9	66	39	0	0	60	0.96
4742466--4742490	13	1.9	13	100	0	50	60	8	16	16	1.58
4742564--4742594	14	2.3	14	94	5	55	51	6	0	41	1.27
4742880--4742921	22	2.0	21	86	13	59	38	2	0	59	1.10
4744129--4744200	28	2.7	26	79	8	83	55	0	0	44	0.99

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