genome.fa.s71.2.7.7.80.10.50.1000.27.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: 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  27  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)
4478674--4478722	25	2.0	25	88	8	73	48	0	0	51	1.00
4478671--4478731	25	2.4	26	76	13	72	52	0	0	47	1.00
4481894--4481938	19	2.2	19	84	11	54	57	4	0	37	1.19
4482832--4482861	2	15.0	2	100	0	60	50	0	0	50	1.00
4483101--4483144	23	1.9	23	90	9	72	47	0	18	34	1.49
4483180--4483226	16	2.9	16	78	21	53	63	0	2	34	1.06
4496749--4496842	46	2.0	46	100	0	188	23	22	8	45	1.79
4497698--4497757	29	2.1	29	84	6	77	50	0	0	50	1.00
4498057--4498152	11	8.7	11	75	19	85	37	1	1	60	1.11
4498598--4498667	28	2.5	28	85	0	95	22	2	17	57	1.53
4498641--4498700	26	2.4	25	80	5	68	25	5	23	46	1.72
4501236--4501281	21	2.1	22	84	4	58	30	19	30	19	1.97
4502648--4502702	28	2.0	28	96	0	101	20	10	20	49	1.78
4503607--4503658	14	3.6	15	80	14	65	46	0	0	53	1.00
4510517--4510544	14	2.0	14	100	0	56	42	28	7	21	1.79
4511204--4511228	1	25.0	1	100	0	50	0	100	0	0	0.00
4513609--4513657	21	2.3	21	86	6	64	48	2	2	46	1.25
4513594--4513653	21	3.2	19	78	19	56	51	1	1	45	1.21
4514010--4514090	43	2.0	42	92	7	139	62	8	4	23	1.43
4514303--4514327	3	8.3	3	100	0	50	68	0	0	32	0.90
4515277--4515378	29	3.4	28	78	17	100	54	0	0	43	1.13
4515371--4515404	3	11.3	3	100	0	68	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4515281--4515378	30	3.3	29	80	9	108	56	1	1	41	1.13
4515700--4515778	23	3.2	24	80	13	90	36	0	0	63	0.95
4515710--4515765	6	9.3	6	75	13	53	39	0	0	60	0.97
4515700--4515779	27	3.2	25	80	16	87	37	0	0	62	0.95
4515714--4515782	17	3.7	20	77	16	67	37	0	0	62	0.96
4515901--4515926	2	13.0	2	100	0	52	50	0	50	0	1.00
4516190--4516230	20	2.0	21	90	9	66	65	0	0	34	0.93
4517894--4517949	24	2.4	24	73	11	62	57	0	0	42	0.99
4519378--4519409	2	16.0	2	93	0	55	0	46	0	53	1.00
4523364--4523409	2	23.0	2	100	0	92	50	0	0	50	1.00
4523762--4523803	2	21.0	2	100	0	84	0	50	0	50	1.00
4523887--4523959	17	4.4	16	73	14	58	53	0	2	43	1.15
4523957--4523999	21	2.0	21	81	0	50	39	2	4	53	1.34
4528108--4528148	16	2.6	16	92	0	64	51	0	0	48	1.00
4528571--4528627	20	2.8	21	78	21	68	47	0	0	52	1.00
4528595--4528644	16	2.9	18	80	17	61	48	0	2	50	1.12
4528641--4528696	19	2.9	19	82	10	69	35	0	0	64	0.94
4528640--4528687	18	2.8	17	85	14	64	35	0	0	64	0.94
4528577--4528702	19	5.9	21	66	28	63	42	0	0	56	1.05
4534334--4534414	18	4.6	18	66	15	62	50	0	0	49	1.00
4534338--4534408	25	2.7	26	76	19	76	50	0	0	49	1.00
4534334--4534438	13	8.8	12	71	21	62	49	0	0	49	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4534422--4534474	16	3.4	15	78	14	54	56	0	0	43	0.99
4535371--4535400	14	2.1	14	93	0	51	83	3	13	0	0.77
4538614--4538655	16	2.6	16	81	7	50	40	0	2	57	1.12
4539305--4539341	2	18.5	2	100	0	74	48	0	0	51	1.00
4550439--4550478	20	2.0	21	85	5	55	40	0	0	60	0.97
4550540--4550604	27	2.5	24	76	13	67	46	1	4	47	1.32
4551132--4551182	16	2.9	17	81	16	68	60	0	5	33	1.21
4556689--4556759	25	3.0	23	78	11	72	52	0	0	47	1.00
4557132--4557176	2	22.5	2	93	0	72	46	2	2	48	1.26
4557265--4557297	2	16.5	2	100	0	66	48	0	51	0	1.00
4558449--4558473	3	8.3	3	100	0	50	36	32	0	32	1.58
4562341--4562384	22	2.0	22	95	0	79	38	4	20	36	1.73
4566296--4566338	13	3.2	13	80	6	59	48	13	27	9	1.73
4571733--4571807	32	2.3	32	93	0	123	20	13	37	29	1.90
4577037--4577068	6	4.9	7	92	7	50	0	9	0	90	0.45
4583008--4583047	2	20.0	2	100	0	80	50	0	0	50	1.00
4585419--4585459	15	2.7	16	85	11	59	60	0	0	39	0.96
4585390--4585449	21	2.9	20	76	11	59	58	0	1	40	1.08
4585693--4585749	21	2.5	22	78	16	64	31	0	0	68	0.90
4585699--4585750	20	2.6	19	76	8	50	32	0	0	67	0.91
4586962--4587003	21	2.0	21	86	9	59	47	11	16	23	1.80
4588159--4588191	3	11.0	3	100	0	66	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4588936--4588986	2	25.5	2	100	0	102	49	0	0	50	1.00
4589322--4589427	26	3.7	27	74	18	81	53	0	0	45	1.06
4589375--4589437	27	2.3	27	83	13	83	55	0	0	44	0.99
4591366--4591393	2	14.0	2	100	0	56	50	0	0	50	1.00
4591569--4591625	27	2.1	28	80	9	64	38	1	1	57	1.19
4591757--4591904	59	2.5	59	85	0	197	51	8	2	37	1.46
4591773--4591925	59	2.6	58	83	2	171	50	7	1	40	1.41
4592163--4592227	20	3.2	21	69	20	57	41	0	6	52	1.26
4592290--4592325	2	18.0	2	100	0	72	50	0	0	50	1.00
4592420--4592828	96	4.1	98	86	7	576	43	9	11	35	1.73
4593584--4593611	2	14.0	2	100	0	56	50	0	0	50	1.00
4595241--4595315	20	3.8	20	78	0	87	34	13	12	40	1.81
4595241--4595318	40	2.0	39	87	2	111	34	12	12	39	1.82
4602380--4602413	14	2.4	14	85	0	50	76	0	14	8	1.01
4602380--4602422	15	3.0	14	83	10	52	69	2	18	9	1.26
4603773--4604236	27	17.0	27	88	1	676	23	33	14	28	1.94
4604219--4604758	32	18.0	31	87	6	567	29	34	17	18	1.94
4604056--4604768	28	24.4	29	87	3	550	28	34	17	19	1.95
4606187--4606244	27	2.2	26	82	14	66	48	8	3	39	1.51
4606374--4606426	2	26.5	2	100	0	106	50	0	0	49	1.00
4606296--4606384	41	2.2	41	93	0	151	53	5	3	37	1.41
4608085--4608147	26	2.5	26	84	2	83	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4608089--4608144	14	4.1	14	77	9	62	64	0	0	35	0.94
4614041--4614086	24	2.0	24	86	4	67	21	4	2	71	1.14
4614200--4614242	15	2.8	15	85	3	59	46	0	2	51	1.13
4614203--4614263	22	2.7	23	82	12	65	49	1	1	47	1.21
4614200--4614246	7	6.0	8	80	14	62	48	0	2	48	1.13
4624140--4624169	2	15.0	2	100	0	60	50	0	50	0	1.00
4637658--4637683	13	2.0	13	100	0	52	30	15	15	38	1.88
4649319--4649597	139	2.0	139	97	0	522	44	11	17	25	1.83
4653558--4653589	2	16.0	2	100	0	64	50	0	0	50	1.00
4654641--4654677	2	19.0	2	88	5	58	45	2	0	51	1.15
4655214--4655263	2	25.0	2	95	0	91	50	2	0	48	1.12
4658083--4658107	4	6.2	4	100	0	50	76	0	0	24	0.80
4659837--4659882	23	2.1	23	84	8	60	71	8	8	10	1.30
4668133--4668159	2	13.5	2	100	0	54	51	0	48	0	1.00
4681383--4681420	2	19.0	2	100	0	76	50	0	0	50	1.00
4681981--4682009	15	2.0	15	93	6	51	68	0	6	24	1.13
4683029--4683095	35	1.9	34	84	3	89	28	14	5	50	1.66
4686088--4686138	20	2.3	22	80	16	61	70	9	9	9	1.34
4687152--4687261	56	1.9	57	96	1	204	28	20	13	37	1.91
4691188--4691220	2	16.5	2	100	0	66	48	0	0	51	1.00
4699757--4699790	3	11.3	3	93	0	59	67	0	32	0	0.91
4702089--4702174	21	4.1	21	70	18	63	51	1	0	47	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4703663--4703694	15	2.1	16	94	5	57	65	0	0	34	0.93
4703939--4703973	17	2.1	16	89	5	52	54	5	0	40	1.24
4707419--4707450	15	2.3	15	89	10	50	46	0	0	53	1.00
4707526--4707576	23	2.3	23	80	10	61	64	1	0	33	1.05
4712916--4713010	15	6.3	15	68	19	56	60	0	0	40	0.97
4712941--4712996	24	2.3	24	81	6	60	60	0	0	39	0.97
4712955--4713021	19	3.4	19	77	16	57	56	1	0	41	1.08
4714896--4714947	2	26.0	2	100	0	104	50	0	0	50	1.00
4715129--4715167	19	2.1	19	85	0	51	48	0	2	48	1.15
4715412--4715449	11	3.5	11	78	7	51	28	0	10	60	1.30

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