genome.fa.s37.2.7.7.80.10.50.1000.3.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: Scaffold37
Parameters: 2 7 7 80 10 50 1000
Length:  836391

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 678 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)
320108--320152	21	2.1	22	83	4	56	33	2	2	62	1.20
325027--325245	51	4.3	51	81	7	228	33	10	26	30	1.89
325255--325307	27	2.0	27	96	0	97	24	22	32	20	1.98
325365--325477	51	2.2	51	84	3	138	33	12	25	28	1.92
325309--325560	131	1.9	130	80	5	294	34	13	25	26	1.93
325419--325584	80	2.1	79	81	3	190	34	13	26	25	1.93
325544--325644	27	3.7	27	88	6	143	22	17	33	25	1.96
325628--325749	51	2.3	52	86	5	158	32	10	22	33	1.89
328120--328179	13	5.0	13	73	19	67	35	16	13	35	1.88
328120--328200	34	2.4	34	100	0	162	33	17	12	37	1.87
328166--328207	21	2.0	21	100	0	84	28	19	9	42	1.82
328253--328277	13	1.9	13	100	0	50	32	16	16	36	1.90
328268--328317	21	2.5	21	87	6	68	42	18	8	32	1.79
329608--329646	5	7.4	5	85	8	51	7	0	15	76	0.99
329612--329642	16	2.0	15	93	6	53	9	0	12	77	0.99
329611--329646	11	3.4	11	88	3	56	8	0	16	75	1.04
340240--340272	13	2.3	15	90	10	52	48	0	3	48	1.17
340433--340463	16	1.9	16	93	0	53	77	0	0	22	0.77
340455--340517	32	2.0	32	100	0	126	55	6	15	22	1.63
340455--340506	16	3.2	17	67	10	54	57	7	13	21	1.61
348668--348716	6	8.7	6	78	13	59	63	0	0	36	0.95
348669--348714	11	4.2	11	81	16	51	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)
348668--348716	22	2.2	23	85	10	66	63	0	0	36	0.95
349009--349098	29	3.2	28	77	14	89	38	0	0	61	0.96
349543--349611	28	2.4	27	77	20	70	44	1	1	52	1.19
349568--349633	24	2.8	24	80	19	84	42	0	0	57	0.98
349537--349611	31	2.5	28	81	14	80	45	1	1	52	1.17
349543--349634	25	3.4	26	73	19	64	44	1	1	53	1.15
349940--349990	17	3.1	17	72	11	52	39	1	1	56	1.22
351013--351051	2	19.5	2	100	0	78	48	0	0	51	1.00
351268--351300	15	2.2	15	89	10	50	12	3	3	81	0.91
351365--351445	20	4.1	20	73	17	62	40	0	2	56	1.12
351407--351494	37	2.4	35	78	12	95	44	0	1	54	1.07
351433--351484	20	2.8	18	71	23	54	42	0	0	57	0.98
351492--351554	14	4.9	14	70	16	55	57	0	0	42	0.99
351691--351735	18	2.4	19	81	7	56	53	2	2	42	1.25
352697--352735	16	2.5	16	87	4	53	20	10	0	69	1.17
353030--353077	20	2.4	21	86	6	64	45	0	0	54	0.99
353507--353545	20	2.0	20	89	0	60	46	0	2	51	1.14
353943--354003	5	12.6	5	75	20	51	60	0	0	39	0.97
353938--353995	28	2.0	29	87	9	84	63	0	0	36	0.94
353949--354004	23	2.5	24	88	8	82	60	0	0	39	0.97
353911--353995	28	2.9	28	81	12	82	60	2	2	35	1.23
354883--354925	20	2.0	23	82	13	56	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354925--354973	22	2.3	22	85	3	64	38	0	0	61	0.96
354953--354997	16	2.6	18	76	23	51	26	2	0	71	0.98
355340--355377	17	2.2	17	86	9	51	34	0	0	65	0.93
355344--355398	20	2.7	21	77	5	67	38	1	0	60	1.08
355417--355453	18	2.0	20	84	10	51	40	0	0	59	0.97
361384--361422	20	2.0	20	94	0	69	30	5	7	56	1.49
361462--361507	17	2.4	20	75	17	53	39	0	2	58	1.10
365176--365208	17	1.9	17	93	0	57	30	0	0	69	0.88
365620--365655	18	2.1	16	90	10	54	41	0	0	58	0.98
366925--366980	22	2.5	23	85	5	78	21	0	26	51	1.48
373763--373797	16	2.2	16	89	0	52	37	2	0	60	1.12
374030--374061	2	16.0	2	100	0	64	50	0	0	50	1.00
375326--375358	15	2.2	15	100	0	66	24	18	24	33	1.97
375326--375364	15	2.6	15	91	0	51	23	15	25	35	1.94
385199--385242	21	2.1	21	86	0	61	36	0	25	38	1.56
385208--385251	21	2.1	21	82	0	52	38	2	18	40	1.63
386896--386934	2	20.5	2	84	10	55	51	2	0	46	1.14
388152--388192	20	2.0	20	86	9	57	56	0	0	43	0.99
389975--390004	16	1.9	15	93	6	51	43	0	6	50	1.28
390163--390188	13	2.0	13	100	0	52	30	0	0	69	0.89
391303--391368	31	2.2	31	83	8	82	40	1	6	51	1.36
391492--391547	17	3.5	17	74	16	57	60	1	0	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391542--391599	30	2.0	29	89	3	89	56	1	0	41	1.09
391976--392015	17	2.4	17	83	4	55	60	0	0	40	0.97
392101--392158	29	2.0	29	100	0	116	34	13	3	48	1.60
392395--392459	27	2.3	28	78	19	73	44	0	0	55	0.99
394957--395069	48	2.4	47	79	5	138	51	1	4	42	1.32
394957--395053	16	6.1	16	79	3	106	54	2	3	40	1.28
394987--395065	16	4.9	16	85	0	86	51	1	5	41	1.31
395881--395915	2	17.5	2	100	0	70	51	0	0	48	1.00
396981--397021	19	2.2	19	95	0	73	2	19	2	75	1.03
396982--397042	31	2.0	31	87	6	88	1	22	1	73	1.01
396976--397027	19	2.8	19	80	13	63	1	23	1	73	1.04
397073--397108	2	18.0	2	100	0	72	50	0	0	50	1.00
401652--401725	16	4.6	16	89	0	112	39	1	0	59	1.06
401652--401725	32	2.3	32	95	0	130	39	1	0	59	1.06
403457--403513	2	28.5	2	100	0	114	49	0	0	50	1.00
404517--404588	21	3.4	20	74	16	65	37	1	0	61	1.05
404530--404614	42	2.0	40	82	17	102	37	2	0	60	1.10
411215--411247	2	17.0	2	93	6	59	51	0	0	48	1.00
414548--414583	2	18.0	2	100	0	72	50	0	0	50	1.00
415668--415727	20	2.8	21	82	10	59	48	0	0	51	1.00
415677--415737	20	3.0	20	80	9	61	47	0	0	52	1.00
416072--416113	19	2.5	17	85	14	52	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)
416102--416150	15	3.1	15	79	5	53	46	2	2	48	1.25
416121--416180	19	3.1	19	80	9	59	55	1	1	41	1.20
416134--416213	21	3.6	21	70	23	65	58	0	3	37	1.16
418885--418941	20	3.0	20	70	14	57	57	0	0	42	0.98
419183--419225	23	2.0	23	90	9	72	32	0	4	62	1.15
419185--419233	21	2.3	23	82	10	59	34	0	4	61	1.15
419183--419246	22	2.9	21	84	11	67	34	0	3	62	1.11
419235--419283	20	2.3	22	79	6	57	42	0	2	55	1.11
419460--419525	33	2.0	34	81	3	80	40	6	9	43	1.61
419730--419772	3	13.7	3	90	4	59	30	0	2	67	1.03
420285--420325	2	20.5	2	100	0	82	0	48	0	51	1.00
420394--420423	2	15.0	2	100	0	60	50	0	0	50	1.00
428672--428754	18	4.6	18	68	13	53	59	1	2	37	1.19
442535--442575	21	1.9	22	90	5	66	51	4	2	41	1.36
442535--442581	21	2.1	21	84	7	58	55	4	2	38	1.31
443332--443356	1	25.0	1	100	0	50	0	0	0	100	0.00
443413--443448	15	2.4	15	95	0	63	91	2	0	5	0.49
444955--445034	18	4.7	18	72	17	55	52	1	1	45	1.16
445014--445093	21	3.6	21	74	23	74	58	0	3	37	1.16
445595--445634	18	2.2	19	86	13	57	62	2	0	35	1.09
445877--445930	21	2.6	21	78	0	63	33	0	3	62	1.12
446664--446717	27	1.9	29	85	7	76	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446693--446726	18	1.9	18	94	5	61	44	0	0	55	0.99
448000--448043	19	2.2	21	84	8	56	29	0	4	65	1.12
448031--448155	15	7.9	17	72	19	78	38	0	3	57	1.20
448526--448556	14	2.1	15	94	5	55	29	0	3	67	1.06
449067--449108	2	21.5	2	95	4	77	0	47	0	52	1.00
449067--449121	21	2.7	21	86	8	60	3	43	0	52	1.18
449178--449205	2	14.0	2	100	0	56	50	0	0	50	1.00
457374--457413	16	2.6	16	88	4	55	52	0	0	47	1.00
457374--457439	13	5.2	13	73	8	55	57	1	0	40	1.08
471357--471394	19	2.0	20	89	5	60	44	5	2	47	1.39

Tables:   1   2   3   4   5   6