genome.fa.s36.2.7.7.80.10.50.1000.26.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  26  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)
4057367--4057405	13	2.9	13	88	3	51	28	0	0	71	0.86
4059820--4059916	50	2.0	47	82	11	117	47	3	1	48	1.24
4060259--4060307	24	2.1	22	85	7	62	44	4	2	48	1.33
4061599--4061628	2	15.0	2	100	0	60	50	0	0	50	1.00
4061801--4061836	18	2.0	18	100	0	72	33	16	22	27	1.95
4062968--4062992	2	12.5	2	100	0	50	48	0	0	52	1.00
4063289--4063362	11	7.2	11	69	14	59	37	1	0	60	1.05
4063286--4063377	26	3.6	25	72	16	73	42	1	0	56	1.06
4063506--4063562	21	2.7	21	79	12	55	36	0	0	63	0.95
4064282--4064306	13	1.9	13	100	0	50	80	0	20	0	0.72
4065613--4065644	2	16.0	2	100	0	64	50	0	0	50	1.00
4066481--4066544	26	2.6	24	74	16	60	37	0	4	57	1.19
4068209--4068239	15	2.1	15	100	0	62	54	12	12	19	1.70
4077083--4077166	42	2.0	42	100	0	168	42	7	9	40	1.65
4081081--4081141	29	2.1	29	87	6	88	44	0	0	55	0.99
4081198--4081253	21	2.7	21	77	5	60	55	1	0	42	1.10
4081717--4081780	26	2.6	24	81	13	69	42	0	1	56	1.09
4081731--4081779	23	2.0	23	81	18	64	48	0	0	51	1.00
4081736--4081779	23	1.9	24	90	9	74	45	0	0	54	0.99
4082332--4082365	13	2.6	13	86	13	52	67	0	0	32	0.91
4082325--4082388	17	3.6	17	75	16	60	60	0	0	39	0.97
4082745--4082782	2	19.5	2	89	5	60	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4084938--4084996	19	3.0	19	72	20	50	38	0	1	59	1.08
4089622--4089663	2	21.0	2	100	0	84	50	0	50	0	1.00
4090446--4090505	3	20.0	3	96	0	111	65	0	1	33	1.03
4094152--4094196	18	2.6	18	80	13	51	28	0	0	71	0.87
4094148--4094190	17	2.5	17	78	10	52	27	0	0	72	0.85
4095745--4095774	15	2.0	15	93	0	51	36	0	0	63	0.95
4096186--4096225	22	1.9	21	85	10	55	62	0	0	37	0.95
4096188--4096247	20	3.0	20	75	7	59	66	0	0	33	0.92
4096189--4096245	25	2.3	25	79	11	64	66	0	0	33	0.92
4098810--4098844	2	17.5	2	100	0	70	48	0	0	51	1.00
4103515--4103558	21	2.0	22	86	4	63	52	15	13	18	1.75
4106543--4106574	3	10.7	3	100	0	64	0	31	0	68	0.90
4107925--4107951	3	9.0	3	100	0	54	66	0	0	33	0.92
4107950--4107990	3	13.3	3	94	5	73	36	0	0	63	0.95
4121154--4121206	14	3.9	15	74	18	53	56	0	0	43	0.99
4121307--4121334	14	2.0	14	100	0	56	57	0	0	42	0.99
4125768--4125809	21	2.0	21	100	0	84	38	0	23	38	1.55
4129396--4129423	2	14.0	2	100	0	56	50	0	0	50	1.00
4131260--4131306	13	3.2	14	82	14	51	51	0	0	48	1.00
4131259--4131315	17	3.7	16	78	21	68	49	0	0	50	1.00
4131321--4131361	21	2.0	21	90	9	66	46	0	0	53	1.00
4132764--4132790	4	6.8	4	100	0	54	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)
4145128--4145171	22	2.0	22	86	0	61	59	4	0	36	1.18
4145740--4145795	15	3.8	15	73	17	55	46	0	0	53	1.00
4146204--4146239	17	2.2	17	95	5	65	44	0	0	55	0.99
4146208--4146260	17	2.9	18	80	11	63	45	3	0	50	1.19
4148494--4148520	2	13.5	2	100	0	54	48	0	0	51	1.00
4161944--4162065	21	6.0	21	64	22	64	55	0	2	41	1.13
4161923--4161992	25	3.0	24	72	22	67	51	0	1	47	1.09
4161939--4162093	80	2.0	77	91	3	247	55	0	1	42	1.11
4161956--4162086	40	3.3	39	71	17	117	55	0	2	41	1.12
4162208--4162241	17	1.9	18	88	5	52	38	0	0	61	0.96
4162463--4162492	2	15.0	2	92	0	51	50	3	0	46	1.18
4167823--4167864	16	2.6	16	81	11	50	26	0	0	73	0.83
4175065--4175139	22	3.5	22	85	5	91	28	4	30	37	1.75
4175591--4175674	34	2.5	34	84	0	114	35	36	5	21	1.78
4175641--4175682	22	1.9	22	85	0	57	35	33	9	21	1.86
4175695--4175738	21	2.0	23	86	8	65	50	11	4	34	1.59
4176723--4176748	2	13.0	2	100	0	52	50	0	0	50	1.00
4182308--4182339	2	16.0	2	100	0	64	50	0	0	50	1.00
4185056--4185081	2	13.0	2	100	0	52	50	0	0	50	1.00
4185350--4185428	38	2.1	38	83	9	99	55	1	0	43	1.07
4185391--4185430	15	2.7	15	84	0	53	55	0	0	45	0.99
4186514--4186547	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4186679--4186912	119	2.0	119	97	0	441	39	14	14	31	1.86
4188106--4188154	2	24.5	2	95	0	89	51	2	0	46	1.12
4196072--4196131	21	2.9	20	73	20	52	38	0	3	58	1.15
4196076--4196122	23	2.0	25	87	8	71	40	0	4	55	1.19
4196077--4196139	14	4.5	14	73	15	51	41	0	3	55	1.16
4199158--4199185	5	5.6	5	100	0	56	60	0	0	39	0.97
4200758--4200805	2	24.5	2	95	4	89	50	0	0	50	1.00
4208537--4208578	16	2.4	18	84	11	52	26	0	0	73	0.83
4208594--4208657	25	2.7	24	74	13	62	56	0	0	43	0.99
4208626--4208659	10	3.3	10	87	4	50	58	0	0	41	0.98
4211457--4211494	2	19.0	2	100	0	76	50	0	0	50	1.00
4219366--4219414	19	2.6	17	79	20	53	61	0	2	36	1.08
4219355--4219410	22	2.6	21	80	5	58	64	0	3	32	1.11
4219348--4219423	38	2.0	38	82	10	93	60	0	5	34	1.19
4219596--4219646	14	3.6	14	76	5	57	64	0	0	35	0.94
4219590--4219668	29	2.7	29	83	11	92	56	0	1	41	1.07
4224664--4224696	17	1.9	17	93	0	57	33	0	9	57	1.30
4233756--4233831	34	2.3	33	82	12	95	60	1	0	38	1.05
4233756--4233838	32	2.6	34	79	14	95	59	1	0	39	1.05
4233822--4233893	25	2.8	28	73	14	66	56	1	4	37	1.27
4235808--4235833	8	3.2	8	100	0	52	11	26	38	23	1.89
4246073--4246139	27	2.4	28	73	14	68	58	0	1	40	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4246080--4246140	27	2.3	28	78	21	78	59	0	0	40	0.98
4246457--4246482	6	4.3	6	100	0	52	0	19	30	50	1.48
4247885--4247919	3	11.7	3	100	0	70	68	0	0	31	0.90
4255452--4255530	33	2.5	33	81	10	92	46	0	1	51	1.08
4255513--4255558	21	2.1	22	92	4	76	32	0	0	67	0.91
4274185--4274218	2	17.0	2	93	0	59	47	2	0	50	1.16
4274568--4274595	2	14.0	2	100	0	56	50	0	0	50	1.00
4281159--4281196	2	19.0	2	100	0	76	0	50	0	50	1.00
4281635--4281671	18	2.1	18	100	0	74	16	16	18	48	1.81
4292498--4292554	4	14.5	4	88	3	62	66	0	33	0	0.92
4293695--4293734	21	1.9	21	100	0	80	25	7	37	30	1.83
4300293--4300334	16	2.6	16	81	14	50	35	0	0	64	0.94
4300543--4300581	2	19.5	2	94	0	69	46	0	0	53	1.00
4305340--4305392	27	2.0	27	100	0	106	56	0	5	37	1.23
4305892--4306027	69	2.1	66	86	8	188	26	25	11	36	1.90
4312364--4312434	28	2.5	28	74	19	76	49	0	0	50	1.00
4313099--4313153	18	3.1	17	79	10	56	30	0	0	69	0.89
4313885--4313976	31	3.0	29	81	10	87	58	3	0	38	1.14
4313880--4314028	16	10.2	14	67	21	58	59	2	0	38	1.09
4313968--4314040	6	12.8	6	74	21	68	63	0	0	36	0.95
4313968--4314038	29	2.3	28	86	13	88	63	0	0	36	0.95
4313976--4314038	23	2.7	23	80	14	74	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4314386--4314419	17	2.0	17	100	0	68	52	0	0	47	1.00
4314911--4314940	2	15.0	2	92	0	51	46	0	3	50	1.18
4315927--4315957	2	15.5	2	93	0	53	51	3	0	45	1.17
4317120--4317162	13	3.0	15	76	13	54	41	9	2	46	1.48
4320488--4320626	67	2.1	67	98	0	269	32	5	10	51	1.61
4324145--4324351	108	1.9	108	86	3	292	38	18	13	28	1.89
4328010--4328041	2	16.5	2	93	6	57	50	0	0	50	1.00
4328275--4328372	36	2.8	35	74	14	87	52	1	1	45	1.14
4328452--4328484	15	2.1	16	88	5	50	39	0	3	57	1.14
4328491--4328569	32	2.5	31	78	12	79	58	0	3	37	1.16

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