genome.fa.s36.2.7.7.80.10.50.1000.27.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

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   

This is table  27  of  28  ( 3342 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)
4328809--4328873	16	4.4	15	73	15	55	44	0	0	55	0.99
4328833--4328911	20	4.2	19	75	15	74	39	0	0	60	0.97
4348472--4348510	2	19.5	2	100	0	78	51	0	0	48	1.00
4349169--4349203	12	2.7	13	91	8	54	28	2	0	68	1.04
4352140--4352180	14	2.9	14	85	10	57	39	7	0	53	1.29
4353171--4353249	11	7.2	11	71	16	65	60	0	1	37	1.05
4353194--4353234	18	2.4	17	84	11	57	58	0	0	41	0.98
4353209--4353262	22	2.3	22	81	9	54	53	1	3	40	1.29
4354734--4354765	2	16.0	2	100	0	64	50	0	0	50	1.00
4356036--4356090	22	2.4	23	77	20	62	47	0	0	52	1.00
4356608--4356656	26	2.0	24	84	15	64	44	2	0	53	1.12
4365395--4365432	3	12.7	3	94	0	67	68	2	0	28	1.03
4371199--4371255	27	2.1	28	90	3	89	54	1	3	40	1.28
4371199--4371248	13	3.8	13	75	15	57	54	0	2	44	1.11
4374756--4374784	2	14.5	2	100	0	58	51	0	0	48	1.00
4392339--4392376	12	3.0	13	85	14	53	28	0	2	68	1.03
4394880--4394922	1	43.0	1	100	0	86	100	0	0	0	0.00
4397650--4397686	16	2.3	17	86	9	51	51	13	0	35	1.41
4397807--4397856	2	25.0	2	100	0	100	50	0	0	50	1.00
4399850--4399882	2	16.5	2	93	0	57	48	0	3	48	1.17
4401650--4401674	2	12.5	2	100	0	50	48	0	0	52	1.00
4404155--4404189	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4407217--4407255	6	6.5	6	93	0	69	2	66	12	17	1.35
4412312--4412345	2	17.0	2	93	0	59	2	50	0	47	1.16
4415619--4415686	16	4.3	16	79	3	57	67	0	0	32	0.91
4421674--4421703	2	14.5	2	93	6	51	50	3	0	46	1.18
4430902--4430937	2	18.0	2	94	0	63	47	0	2	50	1.15
4431392--4431421	2	15.0	2	100	0	60	0	50	0	50	1.00
4433231--4433277	6	8.0	6	88	2	60	57	10	31	0	1.33
4434883--4434927	23	1.9	24	90	4	74	80	0	0	20	0.72
4434902--4434995	46	2.0	46	82	8	111	61	0	0	38	0.96
4434883--4434963	8	10.5	8	77	15	55	71	0	0	28	0.86
4434883--4434976	19	5.3	18	77	16	74	70	0	0	29	0.88
4434929--4434994	24	2.9	23	74	17	66	57	0	0	42	0.98
4434926--4435017	18	5.1	18	69	14	57	54	0	0	45	0.99
4439406--4439455	4	12.5	4	89	0	73	48	2	26	24	1.62
4441504--4441547	2	22.0	2	100	0	88	50	0	0	50	1.00
4441577--4441601	12	2.1	12	100	0	50	16	8	28	48	1.74
4442144--4442184	20	2.0	20	86	9	57	46	0	0	53	1.00
4442184--4442231	22	2.2	21	85	10	62	54	2	0	43	1.12
4442867--4442942	39	1.9	39	83	0	98	51	5	2	40	1.38
4445491--4445535	22	2.0	22	87	8	65	53	0	0	46	1.00
4449313--4449351	2	19.5	2	100	0	78	51	0	0	48	1.00
4451949--4451985	2	18.5	2	88	0	56	45	0	5	48	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4452436--4452469	14	2.3	15	95	5	61	32	23	8	35	1.86
4457781--4457821	2	20.5	2	100	0	82	48	0	0	51	1.00
4459591--4459624	2	17.0	2	93	0	59	47	2	0	50	1.16
4459587--4459624	12	3.2	12	96	0	67	44	5	0	50	1.24
4459993--4460065	16	4.5	15	73	19	58	41	1	1	56	1.16
4459987--4460062	32	2.4	31	86	6	98	40	1	1	56	1.16
4460885--4460910	12	2.2	12	100	0	52	57	0	0	42	0.98
4460930--4460956	2	13.5	2	100	0	54	48	0	0	51	1.00
4464040--4464109	24	2.8	25	85	6	90	44	24	8	22	1.81
4464094--4464164	27	2.6	27	88	6	99	46	23	7	22	1.76
4464042--4464168	24	5.0	24	75	12	85	46	24	7	22	1.76
4468239--4468276	15	2.5	15	95	0	67	28	10	26	34	1.90
4468658--4468727	24	2.8	25	80	6	72	45	21	10	22	1.81
4468729--4468782	27	2.0	27	81	3	63	51	18	1	27	1.56
4471421--4471445	5	5.0	5	100	0	50	0	20	0	80	0.72
4481509--4483954	489	5.0	489	99	0	4847	29	15	20	33	1.94
4485889--4485914	6	4.3	6	100	0	52	50	15	34	0	1.45
4491141--4491230	41	2.2	41	93	0	153	27	20	12	40	1.88
4496796--4496823	2	14.0	2	100	0	56	50	0	0	50	1.00
4497299--4497326	6	4.7	6	100	0	56	82	0	0	17	0.68
4507130--4507172	3	14.3	3	100	0	86	67	0	0	32	0.91
4507171--4507202	16	2.0	16	93	0	55	71	6	15	6	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4507934--4508022	44	2.0	44	100	0	178	52	13	13	20	1.73
4509651--4509688	20	1.9	20	89	10	60	39	2	0	57	1.12
4513842--4513888	25	1.9	25	86	4	69	42	27	6	23	1.78
4513851--4513947	27	3.7	26	77	10	81	44	19	8	27	1.79
4518421--4518482	27	2.3	27	86	2	81	46	8	6	38	1.59
4518439--4518523	44	1.9	44	90	0	134	43	9	5	41	1.61
4521754--4521782	3	9.7	3	100	0	58	65	0	0	34	0.93
4526741--4526837	50	2.0	49	87	2	140	41	8	11	39	1.71
4527892--4527983	30	3.1	30	95	0	166	25	39	7	28	1.83
4529297--4529335	20	2.0	20	85	10	53	56	5	30	7	1.49
4529749--4529834	46	2.0	42	86	9	118	30	5	13	50	1.66
4530457--4530502	18	2.6	17	82	6	56	39	0	0	60	0.97
4543210--4543620	146	2.8	139	80	9	396	38	10	6	45	1.64
4543483--4544138	155	4.3	156	73	10	397	39	7	8	45	1.61
4543815--4544525	385	1.8	385	85	4	1004	39	6	8	45	1.60
4544189--4545718	151	10.2	154	77	12	1218	40	7	7	44	1.61
4544189--4545527	578	2.3	580	80	11	1398	40	7	7	44	1.60
4552526--4552553	2	14.0	2	100	0	56	50	0	0	50	1.00
4553286--4553315	2	14.5	2	93	6	51	50	0	3	46	1.18
4555235--4555266	2	16.0	2	100	0	64	50	0	50	0	1.00
4576831--4576868	20	1.9	19	94	5	67	36	18	15	28	1.92
4576897--4576965	33	2.1	32	86	10	95	34	14	14	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4576914--4576943	13	2.3	13	94	0	51	36	16	10	36	1.82
4577956--4577988	11	3.3	10	84	16	50	48	0	0	51	1.00
4578366--4578422	16	3.6	16	80	0	60	52	22	8	15	1.70
4580035--4580076	5	7.7	6	89	10	56	0	11	0	88	0.53
4580035--4580075	17	2.6	16	92	7	66	0	12	0	87	0.53
4588275--4588301	1	27.0	1	100	0	54	100	0	0	0	0.00
4590069--4590113	3	15.0	3	100	0	90	66	0	0	33	0.92
4591437--4591477	20	2.0	20	86	9	57	7	14	0	78	0.96
4591435--4591475	21	1.9	22	85	5	57	7	12	0	80	0.90
4591475--4591501	2	13.5	2	100	0	54	0	48	0	51	1.00
4597562--4597604	2	21.5	2	100	0	86	0	48	0	51	1.00
4597604--4597628	2	12.5	2	100	0	50	48	0	0	52	1.00
4598066--4598090	2	12.5	2	100	0	50	52	0	0	48	1.00
4598435--4598621	93	2.0	93	96	0	347	38	8	17	35	1.80
4598856--4598906	23	2.1	24	82	7	59	54	5	0	39	1.24
4598932--4598984	23	2.3	22	83	9	61	58	0	0	41	0.98
4598935--4598972	19	2.0	20	84	5	51	57	0	0	42	0.98
4598929--4598989	24	2.4	25	81	13	72	59	0	0	40	0.98
4600745--4600786	2	22.0	2	88	9	61	54	45	0	0	0.99
4603599--4603639	3	13.7	3	100	0	82	65	0	0	34	0.93
4607859--4607891	2	16.5	2	93	0	57	48	0	3	48	1.17
4608965--4608991	4	6.8	4	100	0	54	25	25	48	0	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4614988--4615021	2	17.0	2	100	0	68	50	0	0	50	1.00
4620543--4620574	14	2.3	15	89	10	50	0	12	0	87	0.54
4620918--4620964	3	15.7	3	100	0	94	34	0	0	65	0.93
4624357--4624445	26	3.5	26	67	19	55	46	1	2	50	1.21
4629473--4629578	2	53.0	2	92	0	176	50	3	0	46	1.19
4629473--4629578	22	4.7	22	97	2	194	50	3	0	46	1.19
4632987--4633019	15	2.3	15	89	5	50	39	54	3	3	1.31
4644289--4644325	15	2.5	15	86	0	56	64	0	29	5	1.15
4644951--4644976	13	2.0	13	100	0	52	53	0	0	46	1.00
4644950--4644982	13	2.4	14	85	15	50	51	6	0	42	1.26

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